Publications

Displaying 201 - 300 of 1882
  • Brucato, N., Cassar, O., Tonasso, L., Guitard, E., Migot-Nabias, F., Tortevoye, P., Plancoulaine, S., Larrouy, G., Gessain, A., & Dugoujon, J.-M. (2009). Genetic diversity and dynamics of the Noir Marron settlement in French Guyana: A study combining mitochondrial DNA, Y chromosome and HTLV-1 genotyping [Abstract]. AIDS Research and Human Retroviruses, 25(11), 1258. doi:10.1089/aid.2009.9992.

    Abstract

    The Noir Marron are the direct descendants of thousands of African slaves deported to the Guyanas during the Atlantic Slave Trade and later escaped mainly from Dutch colonial plantations. Six ethnic groups are officially recognized, four of which are located in French Guyana: the Aluku, the Ndjuka, the Saramaka, and the Paramaka. The aim of this study was: (1) to determine the Noir Marron settlement through genetic exchanges with other communities such as Amerindians and Europeans; (2) to retrace their origins in Africa. Buffy-coat DNA from 142 Noir Marron, currently living in French Guyana, were analyzed using mtDNA (typing of SNP coding regions and sequencing of HVSI/II) and Y chromosomes (typing STR and SNPs) to define their genetic profile. Results were compared to an African database composed by published data, updated with genotypes of 82 Fon from Benin, and 128 Ahizi and 63 Yacouba from the Ivory-Coast obtained in this study for the same markers. Furthermore, the determination of the genomic subtype of HTLV-1 strains (env gp21 and LTR regions), which can be used as a marker of migration of infected populations, was performed for samples from 23 HTLV-1 infected Noir Marron and compared with the corresponding database. MtDNA profiles showed a high haplotype diversity, in which 99% of samples belonged to the major haplogroup L, frequent in Africa. Each haplotype was largely represented on the West African coast, but notably higher homologies were obtained with the samples present in the Gulf of Guinea. Y Chromosome analysis revealed the same pattern, i.e. a conservation of the African contribution to the Noir Marron genetic profile, with 98% of haplotypes belonging to the major haplogroup E1b1a, frequent in West Africa. The genetic diversity was higher than those observed in African populations, proving the large Noir Marron’s fatherland, but a predominant identity in the Gulf of Guinea can be suggested. Concerning HTLV-1 genotyping, all the Noir Marron strains belonged to the large Cosmopolitan A subtype. However, among them 17/23 (74%) clustered with the West African clade comprizing samples originating from Ivory-Coast, Ghana, Burkina-Fasso and Senegal, while 3 others clustered in the Trans-Sahelian clade and the remaining 3 were similar to strains found in individuals in South America. Through the combined analyses of three approaches, we have provided a conclusive image of the genetic profile of the Noir Marron communities studied. The high degree of preservation of the African gene pool contradicts the expected gene flow that would correspond to the major cultural exchanges observed between Noir Marron, Europeans and Amerindians. Marital practices and historical events could explain these observations. Corresponding to historical and cultural data, the origin of the ethnic groups is widely dispatched throughout West Africa. However, all results converge to suggest an individualization from a major birthplace in the Gulf of Guinea.
  • Brucato, N., Tortevoye, P., Plancoulaine, S., Guitard, E., Sanchez-Mazas, A., Larrouy, G., Gessain, A., & Dugoujon, J.-M. (2009). The genetic diversity of three peculiar populations descending from the slave trade: Gm study of Noir Marron from French Guiana. Comptes Rendus Biologies, 332(10), 917-926. doi:10.1016/j.crvi.2009.07.005.

    Abstract

    The Noir Marron communities are the direct descendants of African slaves brought to the Guianas during the four centuries (16th to 19th) of the Atlantic slave trade. Among them, three major ethnic groups have been studied: the Aluku, the Ndjuka and the Saramaka. Their history led them to share close relationships with Europeans and Amerindians, as largely documented in their cultural records. The study of Gm polymorphisms of immunoglobulins may help to estimate the amount of gene flow linked to these cultural exchanges. Surprisingly, very low levels of European contribution (2.6%) and Amerindian contribution (1.7%) are detected in the Noir Marron gene pool. On the other hand, an African contribution of 95.7% redraws their origin to West Africa (FSTless-than-or-equals, slant0.15). This highly preserved African gene pool of the Noir Marron is unique in comparison to other African American populations of Latin America, who are notably more admixed

    Additional information

    Table 4
  • Bruggeman, L., & Janse, E. (2015). Older listeners' decreased flexibility in adjusting to changes in speech signal reliability. In M. Wolters, J. Linvingstone, B. Beattie, M. MacMahon, J. Stuart-Smith, & J. Scobbie (Eds.), Proceedings of the 18th International Congress of Phonetic Sciences (ICPhS 2015). London: International Phonetic Association.

    Abstract

    Under noise or speech reductions, young adult listeners flexibly adjust the parameters of lexical activation and competition to allow for speech signal unreliability. Consequently, mismatches in the input are treated more leniently such that lexical candidates are not immediately deactivated. Using eyetracking, we assessed whether this modulation of recognition dynamics also occurs for older listeners. Dutch participants (aged 60+) heard Dutch sentences containing a critical word while viewing displays of four line drawings. The name of one picture shared either onset or rhyme with the critical word (i.e., was a phonological competitor). Sentences were either clear and noise-free, or had several phonemes replaced by bursts of noise. A larger preference for onset competitors than for rhyme competitors was observed in both clear and noise conditions; performance did not alter across condition. This suggests that dynamic adjustment of spoken-word recognition parameters in response to noise is less available to older listeners.
  • De Bruin, A., De Groot, A., De Heer, L., Bok, J., Wielinga, P., Hamans, M., van Rotterdam, B., & Janse, I. (2011). Detection of Coxiella burnetii in complex matrices by using multiplex quantitative PCR during a major Q fever outbreak in the Netherlands. Applied and Environmental Microbiology, 77, 6516-6523. doi:10.1128/AEM.05097-11.

    Abstract

    Q fever, caused by Coxiella burnetii, is a zoonosis with a worldwide distribution. A large rural area in the southeast of the Netherlands was heavily affected by Q fever between 2007 and 2009. This initiated the development of a robust and internally controlled multiplex quantitative PCR (qPCR) assay for the detection of C. burnetii DNA in veterinary and environmental matrices on suspected Q fever-affected farms. The qPCR detects three C. burnetii targets (icd, com1, and IS1111) and one Bacillus thuringiensis internal control target (cry1b). Bacillus thuringiensis spores were added to samples to control both DNA extraction and PCR amplification. The performance of the qPCR assay was investigated and showed a high efficiency; a limit of detection of 13.0, 10.6, and 10.4 copies per reaction for the targets icd, com1, and IS1111, respectively; and no crossreactivity with the nontarget organisms tested. Screening for C. burnetii DNA on 29 suspected Q fever-affected farms during the Q fever epidemic in 2008 showed that swabs from dust-accumulating surfaces contained higher levels of C. burnetii DNA than vaginal swabs from goats or sheep. PCR inhibition by coextracted substances was observed in some environmental samples, and 10- or 100-fold dilutions of samples were sufficient to obtain interpretable signals for both the C. burnetii targets and the internal control. The inclusion of an internal control target and three C. burnetii targets in one multiplex qPCR assay showed that complex veterinary and environmental matrices can be screened reliably for the presence of C. burnetii DNA during an outbreak. © 2011, American Society for Microbiology.
  • Buetti, S., Tamietto, M., Hervais-Adelman, A., Kerzel, D., de Gelder, B., & Pegna, A. J. (2013). Dissociation between goal-directed and discrete response localization in a patient with bilateral cortical blindness. Journal of Cognitive Neuroscience, 25(10), 1769-1775. doi:10.1162/jocn_a_00404.

    Abstract

    We investigated localization performance of simple targets in patient TN, who suffered bilateral damage of his primary visual cortex and shows complete cortical blindness. Using a two-alternative forced-choice paradigm, TN was asked to guess the position of left-right targets with goal-directed and discrete manual responses. The results indicate a clear dissociation between goal-directed and discrete responses. TN pointed toward the correct target location in approximately 75% of the trials but was at chance level with discrete responses. This indicates that the residual ability to localize an unseen stimulus depends critically on the possibility to translate a visual signal into a goal-directed motor output at least in certain forms of blindsight.
  • Bull, L. E., Oliver, C., Callaghan, E., & Woodcock, K. A. (2015). Increased Exposure to Rigid Routines can Lead to Increased Challenging Behavior Following Changes to Those Routines. Journal of Autism and Developmental Disorders, 45(6), 1569-1578. doi:10.1007/s10803-014-2308-2.

    Abstract

    Several neurodevelopmental disorders are associated with preference for routine and challenging behavior following changes to routines. We examine individuals with Prader–Willi syndrome, who show elevated levels of this behavior, to better understand how previous experience of a routine can affect challenging behavior elicited by disruption to that routine. Play based challenges exposed 16 participants to routines, which were either adhered to or changed. Temper outburst behaviors, heart rate and movement were measured. As participants were exposed to routines for longer before a change (between 10 and 80 min; within participants), more temper outburst behaviors were elicited by changes. Increased emotional arousal was also elicited, which was indexed by heart rate increases not driven by movement. Further study will be important to understand whether current intervention approaches that limit exposure to changes, may benefit from the structured integration of flexibility to ensure that the opportunity for routine establishment is also limited.

    Additional information

    10803_2014_2308_MOESM1_ESM.docx
  • Burba, I., Colombo, G. I., Staszewsky, L. I., De Simone, M., Devanna, P., Nanni, S., Avitabile, D., Molla, F., Cosentino, S., Russo, I., De Angelis, N., Soldo, A., Biondi, A., Gambini, E., Gaetano, C., Farsetti, A., Pompilio, G., Latini, R., Capogrossi, M. C., & Pesce, M. (2011). Histone Deacetylase Inhibition Enhances Self Renewal and Cardioprotection by Human Cord Blood-Derived CD34+ Cells. PLoS One, 6(7): e22158. doi:10.1371/journal.pone.0022158.

    Abstract

    Use of peripheral blood- or bone marrow-derived progenitors for ischemic heart repair is a feasible option to induce neo-vascularization in ischemic tissues. These cells, named Endothelial Progenitors Cells (EPCs), have been extensively characterized phenotypically and functionally. The clinical efficacy of cardiac repair by EPCs cells remains, however, limited, due to cell autonomous defects as a consequence of risk factors. The devise of “enhancement” strategies has been therefore sought to improve repair ability of these cells and increase the clinical benefit
  • Burenhult, N. (2009). [Commentary on M. Meschiari, 'Roots of the savage mind: Apophenia and imagination as cognitive process']. Quaderni di semantica, 30(2), 239-242. doi:10.1400/127893.
  • Burenhult, N. (2011). [Review of the book New approaches to Slavic verbs of motion ed. by Victoria Hasko and Renee Perelmutter]. Linguistics, 49, 645-648.
  • Burenhult, N. (2003). Attention, accessibility, and the addressee: The case of the Jahai demonstrative ton. Pragmatics, 13(3), 363-379.
  • Burenhult, N., Kruspe, N., & Dunn, M. (2011). Language history and culture groups among Austroasiatic-speaking foragers of the Malay Peninsula. In N. J. Enfield (Ed.), Dynamics of human diversity: The case of mainland Southeast Asia (pp. 257-277). Canberra: Pacific Linguistics.
  • Burenhult, N., & Majid, A. (2011). Olfaction in Aslian ideology and language. The Senses & Society, 6(1), 19-29. doi:10.2752/174589311X12893982233597.

    Abstract

    The cognitive- and neurosciences have supposed that the perceptual world of the individual is dominated by vision, followed closely by audition, but that olfaction is merely vestigial. Aslian-speaking communities (Austroasiatic, Malay Peninsula) challenge this view. For the Jahai - a small group of rainforest foragers - odor plays a central role in both culture and language. Jahai ideology revolves around a complex set of beliefs that structures the human relationship with the supernatural. Central to this relationship are hearing, vision, and olfaction. In Jahai language, olfaction also receives special attention. There are at least a dozen or so abstract descriptive odor categories that are basic, everyday terms. This lexical elaboration of odor is not unique to the Jahai but can be seen across many contemporary Austroasiatic languages and transcends major cultural and environmental boundaries. These terms appear to be inherited from ancestral language states, suggesting a longstanding preoccupation with odor in this part of the world. Contrary to the prevailing assumption in the cognitive sciences, these languages and cultures demonstrate that odor is far from vestigial in humans.
  • Burenhult, N. (2011). The coding of reciprocal events in Jahai. In N. Evans, A. Gaby, S. C. Levinson, & A. Majid (Eds.), Reciprocals and semantic typology (pp. 163-176). Amsterdam: Benjamins.

    Abstract

    This work explores the linguistic encoding of reciprocal events in Jahai (Aslian, Mon-Khmer, Malay Peninsula) on the basis of linguistic descriptions of the video stimuli of the ‘Reciprocal constructions and situation type’ task (Evans et al. 2004). Reciprocal situation types find expression in three different constructions: distributive verb forms, reciprocal verb forms, and adjunct phrases containing a body part noun. Distributives represent the dominant strategy, reciprocal forms and body part adjuncts being highly restricted across event types and consultants. The distributive and reciprocal morphemes manifest intricate morphological processes typical of Aslian languages. The paper also addresses some analytical problems raised by the data, such as structural ambiguity and restrictions on derivation, as well as individual variation.
  • Burenhult, N., & Levinson, S. C. (2009). Semplates: A guide to identification and elicitation. In A. Majid (Ed.), Field manual volume 12 (pp. 44-50). Nijmegen: Max Planck Institute for Psycholinguistics. doi:10.17617/2.883556.

    Abstract

    Semplates are a new descriptive and theoretical concept in lexical semantics, borne out of recent L&C work in several domains. A semplate can be defined as a configuration consisting of distinct layers of lexemes, each layer drawn from a different form class, mapped onto the same abstract semantic template. Within such a lexical layer, the sense relations between the lexical items are inherited from the underlying template. Thus, the whole set of lexical layers and the underlying template form a cross-categorial configuration in the lexicon. The goal of this task is to find new kinds of macrostructure in the lexicon, with a view to cross-linguistic comparison.
  • Burenhult, N., & Wegener, C. (2009). Preliminary notes on the phonology, orthography and vocabulary of Semnam (Austroasiatic, Malay Peninsula). Journal of the Southeast Asian Linguistics Society, 1, 283-312. Retrieved from http://www.jseals.org/.

    Abstract

    This paper reports tentatively some features of Semnam, a Central Aslian language spoken by some 250 people in the Perak valley, Peninsular Malaysia. It outlines the unusually rich phonemic system of this hitherto undescribed language (e.g. a vowel system comprising 36 distinctive nuclei), and proposes a practical orthography for it. It also includes the c. 1,250- item wordlist on which the analysis is based, collected intermittently in the field 2006-2008.
  • Bürki, A., Ernestus, M., Gendrot, C., Fougeron, C., & Frauenfelder, U. H. (2011). What affects the presence versus absence of schwa and its duration: A corpus analysis of French connected speech. Journal of the Acoustical Society of America, 130, 3980-3991. doi:10.1121/1.3658386.

    Abstract

    This study presents an analysis of over 4000 tokens of words produced as variants with and without schwa in a French corpus of radio-broadcasted speech. In order to determine which of the many variables mentioned in the literature influence variant choice, 17 predictors were tested in the same analysis. Only five of these variables appeared to condition variant choice. The question of the processing stage, or locus, of this alternation process is also addressed in a comparison of the variables that predict variant choice with the variables that predict the acoustic duration of schwa in variants with schwa. Only two variables predicting variant choice also predict schwa duration. The limited overlap between the predictors for variant choice and for schwa duration, combined with the nature of these variables, suggest that the variants without schwa do not result from a phonetic process of reduction; that is, they are not the endpoint of gradient schwa shortening. Rather, these variants are generated early in the production process, either during phonological encoding or word-form retrieval. These results, based on naturally produced speech, provide a useful complement to on-line production experiments using artificial speech tasks.
  • Burnham, D., Ambikairajah, E., Arciuli, J., Bennamoun, M., Best, C. T., Bird, S., Butcher, A. R., Cassidy, S., Chetty, G., Cox, F. M., Cutler, A., Dale, R., Epps, J. R., Fletcher, J. M., Goecke, R., Grayden, D. B., Hajek, J. T., Ingram, J. C., Ishihara, S., Kemp, N. and 10 moreBurnham, D., Ambikairajah, E., Arciuli, J., Bennamoun, M., Best, C. T., Bird, S., Butcher, A. R., Cassidy, S., Chetty, G., Cox, F. M., Cutler, A., Dale, R., Epps, J. R., Fletcher, J. M., Goecke, R., Grayden, D. B., Hajek, J. T., Ingram, J. C., Ishihara, S., Kemp, N., Kinoshita, Y., Kuratate, T., Lewis, T. W., Loakes, D. E., Onslow, M., Powers, D. M., Rose, P., Togneri, R., Tran, D., & Wagner, M. (2009). A blueprint for a comprehensive Australian English auditory-visual speech corpus. In M. Haugh, K. Burridge, J. Mulder, & P. Peters (Eds.), Selected proceedings of the 2008 HCSNet Workshop on Designing the Australian National Corpus (pp. 96-107). Somerville, MA: Cascadilla Proceedings Project.

    Abstract

    Large auditory-visual (AV) speech corpora are the grist of modern research in speech science, but no such corpus exists for Australian English. This is unfortunate, for speech science is the brains behind speech technology and applications such as text-to-speech (TTS) synthesis, automatic speech recognition (ASR), speaker recognition and forensic identification, talking heads, and hearing prostheses. Advances in these research areas in Australia require a large corpus of Australian English. Here the authors describe a blueprint for building the Big Australian Speech Corpus (the Big ASC), a corpus of over 1,100 speakers from urban and rural Australia, including speakers of non-indigenous, indigenous, ethnocultural, and disordered forms of Australian English, each of whom would be sampled on three occasions in a range of speech tasks designed by the researchers who would be using the corpus.
  • Burra, N., Hervais-Adelman, A., Kerzel, D., Tamietto, M., de Gelder, B., & Pegna, A. J. (2013). Amygdala Activation for Eye Contact Despite Complete Cortical Blindness. The Journal of Neuroscience, 33(25), 10483-10489. doi:10.1523/jneurosci.3994-12.2013.

    Abstract

    Cortical blindness refers to the loss of vision that occurs after destruction of the primary visual cortex. Although there is no sensory cortex and hence no conscious vision, some cortically blind patients show amygdala activation in response to facial or bodily expressions of emotion. Here we investigated whether direction of gaze could also be processed in the absence of any functional visual cortex. A well-known patient with bilateral destruction of his visual cortex and subsequent cortical blindness was investigated in an fMRI paradigm during which blocks of faces were presented either with their gaze directed toward or away from the viewer. Increased right amygdala activation was found in response to directed compared with averted gaze. Activity in this region was further found to be functionally connected to a larger network associated with face and gaze processing. The present study demonstrates that, in human subjects, the amygdala response to eye contact does not require an intact primary visual cortex.
  • Byun, K.-S., & Byun, E.-J. (2015). Becoming Friends with International Sign. Seoul: Sign Language Dandelion.
  • Cai, Z. G., Conell, L., & Holler, J. (2013). Time does not flow without language: Spatial distance affects temporal duration regardless of movement or direction. Psychonomic Bulletin & Review, 20(5), 973-980. doi:10.3758/s13423-013-0414-3.

    Abstract

    Much evidence has suggested that people conceive of time as flowing directionally in transverse space (e.g., from left to right for English speakers). However, this phenomenon has never been tested in a fully nonlinguistic paradigm where neither stimuli nor task use linguistic labels, which raises the possibility that time is directional only when reading/writing direction has been evoked. In the present study, English-speaking participants viewed a video where an actor sang a note while gesturing and reproduced the duration of the sung note by pressing a button. Results showed that the perceived duration of the note was increased by a long-distance gesture, relative to a short-distance gesture. This effect was equally strong for gestures moving from left to right and from right to left and was not dependent on gestures depicting movement through space; a weaker version of the effect emerged with static gestures depicting spatial distance. Since both our gesture stimuli and temporal reproduction task were nonlinguistic, we conclude that the spatial representation of time is nondirectional: Movement contributes, but is not necessary, to the representation of temporal information in a transverse timeline.
  • Calandruccio, L., Brouwer, S., Van Engen, K. J., Dhar, S., & Bradlow, A. R. (2013). Masking release due to linguistic and phonetic dissimilarity between the target and masker speech. American Journal of Audiology, 22, 157-164. doi:10.1044/1059-0889(2013/12-0072.

    Abstract

    Purpose: To investigate masking release for speech maskers for linguistically and phonetically close (English and Dutch) and distant (English and Mandarin) language pairs. Method: Thirty-two monolingual speakers of English with normal audiometric thresholds participated in the study. Data are reported for an English sentence recognition task in English and for Dutch and Mandarin competing speech maskers (Experiment 1) and noise maskers (Experiment 2) that were matched either to the long-term average speech spectra or to the temporal modulations of the speech maskers from Experiment 1. Results: Listener performance increased as the target-tomasker linguistic distance increased (English-in-English < English-in-Dutch < English-in-Mandarin). Conclusion: Spectral differences between maskers can account for some, but not all, of the variation in performance between maskers; however, temporal differences did not seem to play a significant role.
  • Caldwell-Harris, C. L., Lancaster, A., Ladd, D. R., Dediu, D., & Christiansen, M. H. (2015). Factors influencing sensitivity to lexical tone in an artificial language: Implications for second language learning. Studies in Second Language Acquisition, 37(2), 335-357. doi:10.1017/S0272263114000849.

    Abstract

    This study examined whether musical training, ethnicity, and experience with a natural tone language influenced sensitivity to tone while listening to an artificial tone language. The language was designed with three tones, modeled after level-tone African languages. Participants listened to a 15-min random concatenation of six 3-syllable words. Sensitivity to tone was assessed using minimal pairs differing only in one syllable (nonword task: e.g., to-kà-su compared to ca-fí-to) or only in tone (tone task: e.g., to-kà-su compared to to-ká-su). Proficiency in an East Asian heritage language was the strongest predictor of success on the tone task. Asians without tone language experience were no better than other ethnic groups. We conclude by considering implications for research on second language learning, especially as approached through artificial language learning.
  • Calkoen, F., Vervat, C., van Pel, M., de Haas, V., Vijfhuizen, L., Eising, E., Kroes, W., Hoen, P., van den Heuvel-Eibrink, M., Egeler, R., Van Tol, M., & Ball, L. (2015). Despite differential gene expression profiles pediatric MDS derived mesenchymal stromal cells display functionality in vitro. Stem Cell Research, 14(2), 198-210. doi:10.1016/j.scr.2015.01.006.

    Abstract

    Pediatric myelodysplastic syndrome (MDS) is a heterogeneous disease covering a spectrum ranging from aplasia (RCC) to myeloproliferation (RAEB(t)). In adult-type MDS there is increasing evidence for abnormal function of the bone-marrow microenvironment. Here, we extensively studied the mesenchymal stromal cells (MSCs) derived from children with MDS. MSCs were expanded from the bone-marrow of 17 MDS patients (RCC: n = 10 and advanced MDS: n = 7) and pediatric controls (n = 10). No differences were observed with respect to phenotype, differentiation capacity, immunomodulatory capacity or hematopoietic support. mRNA expression analysis by Deep-SAGE revealed increased IL-6 expression in RCC- and RAEB(t)-MDS. RCC-MDS MSC expressed increased levels of DKK3, a protein associated with decreased apoptosis. RAEB(t)-MDS revealed increased CRLF1 and decreased DAPK1 expressions. This pattern has been associated with transformation in hematopoietic malignancies. Genes reported to be differentially expressed in adult MDS-MSC did not differ between MSC of pediatric MDS and controls. An altered mRNA expression profile, associated with cell survival and malignant transformation, of MSC derived from children with MDS strengthens the hypothesis that the micro-environment is of importance in this disease. Our data support the understanding that pediatric and adult MDS are two different diseases. Further evaluation of the pathways involved might reveal additional therapy targets.
  • Calkoen, F. G., Vervat, C., Eising, E., Vijfhuizen, L. S., 't Hoen, P.-B.-A., van den Heuvel-Eibrink, M. M., & Egeler, R. M. (2015). Gene-expression and in vitro function of mesenchymal stromal cells are affected in juvenile myelomonocytic leukemia. Haematologica, 100(11), 1434-1441. doi:10.3324/haematol.2015.126938.

    Abstract

    An aberrant interaction between hematopoietic stem cells and mesenchymal stromal cells has been linked to disease and shown to contribute to the pathophysiology of hematologic malignancies in murine models. Juvenile myelomonocytic leukemia is an aggressive malignant disease affecting young infants. Here we investigated the impact of juvenile myelomonocytic leukemia on mesenchymal stromal cells. Mesenchymal stromal cells were expanded from bone marrow samples of patients at diagnosis (n=9) and after hematopoietic stem cell transplantation (n=7; from 5 patients) and from healthy children (n=10). Cells were characterized by phenotyping, differentiation, gene expression analysis (of controls and samples obtained at diagnosis) and in vitro functional studies assessing immunomodulation and hematopoietic support. Mesenchymal stromal cells from patients did not differ from controls in differentiation capacity nor did they differ in their capacity to support in vitro hematopoiesis. Deep-SAGE sequencing revealed differential mRNA expression in patient-derived samples, including genes encoding proteins involved in immunomodulation and cell-cell interaction. Selected gene expression normalized during remission after successful hematopoietic stem cell transplantation. Whereas natural killer cell activation and peripheral blood mononuclear cell proliferation were not differentially affected, the suppressive effect on monocyte to dendritic cell differentiation was increased by mesenchymal stromal cells obtained at diagnosis, but not at time of remission. This study shows that active juvenile myelomonocytic leukemia affects the immune response-related gene expression and function of mesenchymal stromal cells. In contrast, the differential gene expression of hematopoiesis-related genes could not be supported by functional data. Decreased immune surveillance might contribute to the therapy resistance and progression in juvenile myelomonocytic leukemia.
  • Callaghan, T., Moll, H., Rakoczy, H., Warneken, F., Liszkowski, U., Behne, T., & Tomasello, M. (2011). Early social cognition in three cultural contexts. Boston: Wiley-Blackwell.

    Abstract

    The influence of culture on cognitive development is well established for school age and older children. But almost nothing is known about how different parenting and socialization practices in different cultures affect infants' and young children's earliest emerging cognitive and social-cognitive skills. In the current monograph, we report a series of eight studies in which we systematically assessed the social-cognitive skills of 1- to 3-year-old children in three diverse cultural settings. One group of children was from a Western, middle-class cultural setting in rural Canada and the other two groups were from traditional, small-scale cultural settings in rural Peru and India. In a first group of studies, we assessed 1-year-old children's most basic social-cognitive skills for understanding the intentions and attention of others: imitation, helping, gaze following, and communicative pointing. Children's performance in these tasks was mostly similar across cultural settings. In a second group of studies, we assessed 1-year-old children's skills in participating in interactive episodes of collaboration and joint attention. Again in these studies the general finding was one of cross-cultural similarity. In a final pair of studies, we assessed 2- to 3-year-old children's skills within two symbolic systems (pretense and pictorial). Here we found that the Canadian children who had much more experience with such symbols showed skills at an earlier age. Our overall conclusion is that young children in all cultural settings get sufficient amounts of the right kinds of social experience to develop their most basic social-cognitive skills for interacting with others and participating in culture at around the same age. In contrast, children's acquisition of more culturally specific skills for use in practices involving artifacts and symbols is more dependent on specific learning experiences.
  • Campisi, E., & Ozyurek, A. (2013). Iconicity as a communicative strategy: Recipient design in multimodal demonstrations for adults and children. Journal of Pragmatics, 47, 14-27. doi:10.1016/j.pragma.2012.12.007.

    Abstract

    Humans are the only species that uses communication to teach new knowledge to novices, usually to children (Tomasello, 1999 and Csibra and Gergely, 2006). This context of communication can employ “demonstrations” and it takes place with or without the help of objects (Clark, 1996). Previous research has focused on understanding the nature of demonstrations for very young children and with objects involved. However, little is known about the strategies used in demonstrating an action to an older child in comparison to another adult and without the use of objects, i.e., with gestures only. We tested if during demonstration of an action speakers use different degrees of iconicity in gestures for a child compared to an adult. 18 Italian subjects described to a camera how to make coffee imagining the listener as a 12-year-old child, a novice or an expert adult. While speech was found more informative both for the novice adult and for the child compared to the expert adult, the rate of iconic gestures increased and they were more informative and bigger only for the child compared to both of the adult conditions. Iconicity in gestures can be a powerful communicative strategy in teaching new knowledge to children in demonstrations and this is in line with claims that it can be used as a scaffolding device in grounding knowledge in experience (Perniss et al., 2010).
  • Campisi, E. (2009). La gestualità co-verbale tra comunicazione e cognizione: In che senso i gesti sono intenzionali. In F. Parisi, & M. Primo (Eds.), Natura, comunicazione, neurofilosofie. Atti del III convegno 2009 del CODISCO. Rome: Squilibri.
  • Cappuccio, M. L., Chu, M., & Kita, S. (2013). Pointing as an instrumental gesture: Gaze representation through indication. Humana.Mente: Journal of Philosophical Studies, 24, 125-149.

    Abstract

    We call those gestures “instrumental” that can enhance certain thinking processes of an agent by offering him representational models of his actions in a virtual space of imaginary performative possibilities. We argue that pointing is an instrumental gesture in that it represents geometrical information on one’s own gaze direction (i.e., a spatial model for attentional/ocular fixation/orientation), and provides a ritualized template for initiating gaze coordination and joint attention. We counter two possible objections, asserting respectively that the representational content of pointing is not constitutive, but derived from language, and that pointing directly solicits gaze coordination, without representing it. We consider two studies suggesting that attention and spatial perception are actively modified by one’s own pointing activity: the first study shows that pointing gestures help children link sets of objects to their corresponding number words; the second, that adults are faster and more accurate in counting when they point.
  • Capredon, M., Brucato, N., Tonasso, L., Choesmel-Cadamuro, V., Ricaut, F.-X., Razafindrazaka, H., Ratolojanahary, M. A., Randriamarolaza, L.-P., Champion, B., & Dugoujon, J.-M. (2013). Tracing Arab-Islamic Inheritance in Madagascar: Study of the Y-chromosome and Mitochondrial DNA in the Antemoro. PLoS One, 8(11): e80932. doi:10.1371/journal.pone.0080932.

    Abstract

    Madagascar is located at the crossroads of the Asian and African worlds and is therefore of particular interest for studies on human population migration. Within the large human diversity of the Great Island, we focused our study on a particular ethnic group, the Antemoro. Their culture presents an important Arab-Islamic influence, but the question of an Arab biological inheritance remains unresolved. We analyzed paternal (n=129) and maternal (n=135) lineages of this ethnic group. Although the majority of Antemoro genetic ancestry comes from sub-Saharan African and Southeast Asian gene pools, we observed in their paternal lineages two specific haplogroups (J1 and T1) linked to Middle Eastern origins. This inheritance was restricted to some Antemoro sub-groups. Statistical analyses tended to confirm significant Middle Eastern genetic contribution. This study gives a new perspective to the large human genetic diversity in Madagascar
  • Caramazza, A., Miozzo, M., Costa, A., Schiller, N. O., & Alario, F.-X. (2003). Etude comparee de la production des determinants dans differentes langues. In E. Dupoux (Ed.), Les Langages du cerveau: Textes en l'honneur de Jacques Mehler (pp. 213-229). Paris: Odile Jacob.
  • Carrion Castillo, A., Franke, B., & Fisher, S. E. (2013). Molecular genetics of dyslexia: An overview. Dyslexia, 19(4), 214-240. doi:10.1002/dys.1464.

    Abstract

    Dyslexia is a highly heritable learning disorder with a complex underlying genetic architecture. Over the past decade, researchers have pinpointed a number of candidate genes that may contribute to dyslexia susceptibility. Here, we provide an overview of the state of the art, describing how studies have moved from mapping potential risk loci, through identification of associated gene variants, to characterization of gene function in cellular and animal model systems. Work thus far has highlighted some intriguing mechanistic pathways, such as neuronal migration, axon guidance, and ciliary biology, but it is clear that we still have much to learn about the molecular networks that are involved. We end the review by highlighting the past, present, and future contributions of the Dutch Dyslexia Programme to studies of genetic factors. In particular, we emphasize the importance of relating genetic information to intermediate neurobiological measures, as well as the value of incorporating longitudinal and developmental data into molecular designs
  • Carstensen, A., Khetarpal, N., Majid, A., & Regier, T. (2011). Universals and variation in spatial language and cognition: Evidence from Chichewa. In L. Carlson, C. Hölscher, & T. Shipley (Eds.), Proceedings of the 33rd Annual Conference of the Cognitive Science Society (pp. 2315). Austin, TX: Cognitive Science Society.
  • Casasanto, D. (2011). Bodily relativity: The body-specificity of language and thought. In L. Carlson, C. Holscher, & T. Shipley (Eds.), Proceedings of the 33rd Annual Meeting of the Cognitive Science Society (pp. 1258-1259). Austin, TX: Cognitive Science Society.
  • Casasanto, D., Willems, R. M., & Hagoort, P. (2009). Body-specific representations of action verbs: Evidence from fMRI in right- and left-handers. In N. Taatgen, & H. Van Rijn (Eds.), Proceedings of the 31st Annual Meeting of the Cognitive Science Society (pp. 875-880). Austin: Cognitive Science Society.

    Abstract

    According to theories of embodied cognition, understanding a verb like throw involves unconsciously simulating the action throwing, using areas of the brain that support motor planning. If understanding action words involves mentally simulating our own actions, then the neurocognitive representation of word meanings should differ for people with different kinds of bodies, who perform actions in systematically different ways. In a test of the body-specificity hypothesis (Casasanto, 2009), we used fMRI to compare premotor activity correlated with action verb understanding in right- and left-handers. Right-handers preferentially activated left premotor cortex during lexical decision on manual action verbs (compared with non-manual action verbs), whereas left-handers preferentially activated right premotor areas. This finding helps refine theories of embodied semantics, suggesting that implicit mental simulation during language processing is body-specific: Right and left-handers, who perform actions differently, use correspondingly different areas of the brain for representing action verb meanings.
  • Casasanto, D., & Lupyan, G. (2011). Ad hoc cognition [Abstract]. In L. Carlson, C. Hölscher, & T. F. Shipley (Eds.), Proceedings of the 33rd Annual Conference of the Cognitive Science Society (pp. 826). Austin, TX: Cognitive Science Society.

    Abstract

    If concepts, categories, and word meanings are stable, how can people use them so flexibly? Here we explore a possible answer: maybe this stability is an illusion. Perhaps all concepts, categories, and word meanings (CC&Ms) are constructed ad hoc, each time we use them. On this proposal, all words are infinitely polysemous, all communication is ’good enough’, and no idea is ever the same twice. The details of people’s ad hoc CC&Ms are determined by the way retrieval cues interact with the physical, social, and linguistic context. We argue that even the most stable-seeming CC&Ms are instantiated via the same processes as those that are more obviously ad hoc, and vary (a) from one microsecond to the next within a given instantiation, (b) from one instantiation to the next within an individual, and (c) from person to person and group to group as a function of people’s experiential history. 826
  • Casasanto, D. (2009). Embodiment of abstract concepts: Good and bad in right- and left-handers. Journal of Experimental Psychology: General, 138, 351-367. doi:10.1037/a0015854.

    Abstract

    Do people with different kinds of bodies think differently? According to the body-specificity hypothesis, people who interact with their physical environments in systematically different ways should form correspondingly different mental representations. In a test of this hypothesis, 5 experiments investigated links between handedness and the mental representation of abstract concepts with positive or negative valence (e.g., honesty, sadness, intelligence). Mappings from spatial location to emotional valence differed between right- and left-handed participants. Right-handers tended to associate rightward space with positive ideas and leftward space with negative ideas, but left-handers showed the opposite pattern, associating rightward space with negative ideas and leftward with positive ideas. These contrasting mental metaphors for valence cannot be attributed to linguistic experience, because idioms in English associate good with right but not with left. Rather, right- and left-handers implicitly associated positive valence more strongly with the side of space on which they could act more fluently with their dominant hands. These results support the body-specificity hypothesis and provide evidence for the perceptuomotor basis of even the most abstract ideas.
  • Casasanto, D., & Jasmin, K. (2009). Emotional valence is body-specific: Evidence from spontaneous gestures during US presidential debates. In N. Taatgen, & H. Van Rijn (Eds.), Proceedings of the 31st Annual Meeting of the Cognitive Science Society (pp. 1965-1970). Austin: Cognitive Science Society.

    Abstract

    What is the relationship between motor action and emotion? Here we investigated whether people associate good things more strongly with the dominant side of their bodies, and bad things with the non-dominant side. To find out, we analyzed spontaneous gestures during speech expressing ideas with positive or negative emotional valence (e.g., freedom, pain, compassion). Samples of speech and gesture were drawn from the 2004 and 2008 US presidential debates, which involved two left-handers (Obama, McCain) and two right-handers (Kerry, Bush). Results showed a strong association between the valence of spoken clauses and the hands used to make spontaneous co-speech gestures. In right-handed candidates, right-hand gestures were more strongly associated with positive-valence clauses, and left-hand gestures with negative-valence clauses. Left-handed candidates showed the opposite pattern. Right- and left-handers implicitly associated positive valence more strongly with their dominant hand: the hand they can use more fluently. These results support the body-specificity hypothesis, (Casasanto, 2009), and suggest a perceptuomotor basis for even our most abstract ideas.
  • Casasanto, D. (2011). Different bodies, different minds: The body-specificity of language and thought. Current Directions in Psychological Science, 20, 378-383. doi:10.1177/0963721411422058.

    Abstract

    Do people with different kinds of bodies think differently? According to the bodyspecificity hypothesis (Casasanto 2009), they should. In this article, I review evidence that right- and left-handers, who perform actions in systematically different ways, use correspondingly different areas of the brain for imagining actions and representing the meanings of action verbs. Beyond concrete actions, the way people use their hands also influences the way they represent abstract ideas with positive and negative emotional valence like “goodness,” “honesty,” and “intelligence,” and how they communicate about them in spontaneous speech and gesture. Changing how people use their right and left hands can cause them to think differently, suggesting that motoric differences between right- and left-handers are not merely correlated with cognitive differences. Body-specific patterns of motor experience shape the way we think, communicate, and make decisions
  • Casasanto, D. (2009). [Review of the book Music, language, and the brain by Aniruddh D. Patel]. Language and Cognition, 1(1), 143-146. doi:10.1515/LANGCOG.2009.007.
  • Casasanto, D., Fotakopoulou, O., & Boroditsky, L. (2009). Space and time in the child's mind: Evidence for a cross-dimensional asymmetry. In N. Taatgen, & H. Van Rijn (Eds.), Proceedings of the 31st Annual Meeting of the Cognitive Science Society (pp. 1090-1095). Austin: Cognitive Science Society.

    Abstract

    What is the relationship between space and time in the human mind? Studies in adults show an asymmetric relationship between mental representations of these basic dimensions of experience: representations of time depend on space more than representations of space depend on time. Here we investigated the relationship between space and time in the developing mind. Native Greek-speaking children (N=99) watched movies of two animals traveling along parallel paths for different distances or durations and judged the spatial and temporal aspects of these events (e.g., Which animal went for a longer time, or a longer distance?) Results showed a reliable cross-dimensional asymmetry: for the same stimuli, spatial information influenced temporal judgments more than temporal information influenced spatial judgments. This pattern was robust to variations in the age of the participants and the type of language used to elicit responses. This finding demonstrates a continuity between space-time representations in children and adults, and informs theories of analog magnitude representation.
  • Casasanto, D. (2009). Space for thinking. In V. Evans, & P. Chilton (Eds.), Language, cognition and space: State of the art and new directions (pp. 453-478). London: Equinox Publishing.
  • Casasanto, D. (2009). When is a linguistic metaphor a conceptual metaphor? In V. Evans, & S. Pourcel (Eds.), New directions in cognitive linguistics (pp. 127-145). Amsterdam: Benjamins.
  • Casasanto, D., & Chrysikou, E. G. (2011). When left is "Right": Motor fluency shapes abstract concepts. Psychological Science, 22, 419-422. doi:10.1177/0956797611401755.

    Abstract

    Right- and left-handers implicitly associate positive ideas like "goodness"and "honesty"more strongly with their dominant side
    of space, the side on which they can act more fluently, and negative ideas more strongly with their nondominant side. Here we show that right-handers’ tendency to associate "good" with "right" and "bad" with "left" can be reversed as a result of both
    long- and short-term changes in motor fluency. Among patients who were right-handed prior to unilateral stroke, those with disabled left hands associated "good" with "right," but those with disabled right hands associated "good" with "left,"as natural left-handers do. A similar pattern was found in healthy right-handers whose right or left hand was temporarily handicapped in the laboratory. Even a few minutes of acting more fluently with the left hand can change right-handers’ implicit associations between space and emotional valence, causing a reversal of their usual judgments. Motor experience plays a causal role in shaping abstract thought.
  • Casasanto, D., & De Bruin, A. (2011). Word Up! Directed motor action improves word learning [Abstract]. In L. Carlson, C. Hölscher, & T. Shipley (Eds.), Proceedings of the 33rd Annual Conference of the Cognitive Science Society (pp. 1902). Austin, TX: Cognitive Science Society.

    Abstract

    Can simple motor actions help people expand their vocabulary? Here we show that word learning depends on where students place their flash cards after studying them. In Experiment 1, participants learned the definitions of ”alien words” with positive or negative emotional valence. After studying each card, they placed it in one of two boxes (top or bottom), according to its valence. Participants who were instructed to place positive cards in the top box, consistent with Good is Up metaphors, scored about 10.
  • Casillas, M., & Amaral, P. (2011). Learning cues to category membership: Patterns in children’s acquisition of hedges. In C. Cathcart, I.-H. Chen, G. Finley, S. Kang, C. S. Sandy, & E. Stickles (Eds.), Proceedings of the Berkeley Linguistics Society 37th Annual Meeting (pp. 33-45). Linguistic Society of America, eLanguage.

    Abstract

    When we think of children acquiring language, we often think of their acquisition of linguistic structure as separate from their acquisition of knowledge about the world. But it is clear that in the process of learning about language, children consult what they know about the world; and that in learning about the world, children use linguistic cues to discover how items are related to one another. This interaction between the acquisition of linguistic structure and the acquisition of category structure is especially clear in word learning.
  • Casillas, M., & Frank, M. C. (2013). The development of predictive processes in children’s discourse understanding. In M. Knauff, M. Pauen, N. Sebanz, & I. Wachsmuth (Eds.), Proceedings of the 35th Annual Meeting of the Cognitive Science Society. (pp. 299-304). Austin,TX: Cognitive Society.

    Abstract

    We investigate children’s online predictive processing as it occurs naturally, in conversation. We showed 1–7 year-olds short videos of improvised conversation between puppets, controlling for available linguistic information through phonetic manipulation. Even one- and two-year-old children made accurate and spontaneous predictions about when a turn-switch would occur: they gazed at the upcoming speaker before they heard a response begin. This predictive skill relies on both lexical and prosodic information together, and is not tied to either type of information alone. We suggest that children integrate prosodic, lexical, and visual information to effectively predict upcoming linguistic material in conversation.
  • Casillas, M., De Vos, C., Crasborn, O., & Levinson, S. C. (2015). The perception of stroke-to-stroke turn boundaries in signed conversation. In D. C. Noelle, R. Dale, A. S. Warlaumont, J. Yoshimi, T. Matlock, C. D. Jennings, & P. R. Maglio (Eds.), Proceedings of the 37th Annual Meeting of the Cognitive Science Society (CogSci 2015) (pp. 315-320). Austin, TX: Cognitive Science Society.

    Abstract

    Speaker transitions in conversation are often brief, with minimal vocal overlap. Signed languages appear to defy this pattern with frequent, long spans of simultaneous signing. But recent evidence suggests that turn boundaries in signed language may only include the content-bearing parts of the turn (from the first stroke to the last), and not all turn-related movement (from first preparation to final retraction). We tested whether signers were able to anticipate “stroke-to-stroke” turn boundaries with only minimal conversational context. We found that, indeed, signers anticipated turn boundaries at the ends of turn-final strokes. Signers often responded early, especially when the turn was long or contained multiple possible end points. Early responses for long turns were especially apparent for interrogatives—long interrogative turns showed much greater anticipation compared to short ones.
  • Catani, M., Craig, M. C., Forkel, S. J., Kanaan, R., Picchioni, M., Toulopoulou, T., Shergill, S., Williams, S., Murphy, D. G., & McGuire, P. (2011). Altered integrity of perisylvian language pathways in schizophrenia: Relationship to auditory hallucinations. Biological Psychiatry, 70(12), 1143-1150. doi:10.1016/j.biopsych.2011.06.013.

    Abstract

    Background: Functional neuroimaging supports the hypothesis that auditory verbal hallucinations (AVH) in schizophrenia result from altered functional connectivity between perisylvian language regions, although the extent to which AVH are also associated with an altered tract anatomy is less clear.

    Methods: Twenty-eight patients with schizophrenia subdivided into 17 subjects with a history of AVH and 11 without a history of hallucinations and 59 age- and IQ-matched healthy controls were recruited. The number of streamlines, fractional anisotropy (FA), and mean diffusivity were measured along the length of the arcuate fasciculus and its medial and lateral components.

    Results: Patients with schizophrenia had bilateral reduction of FA relative to controls in the arcuate fasciculi (p < .001). Virtual dissection of the subcomponents of the arcuate fasciculi revealed that these reductions were specific to connections between posterior temporal and anterior regions in the inferior frontal and parietal lobe. Also, compared with controls, the reduction in FA of these tracts was highest, and bilateral, in patients with AVH, but in patients without AVH, this reduction was reported only on the left.

    Conclusions: These findings point toward a supraregional network model of AVH in schizophrenia. They support the hypothesis that there may be selective vulnerability of specific anatomical connections to posterior temporal regions in schizophrenia and that extensive bilateral damage is associated with a greater vulnerability to AVH. If confirmed by further studies, these findings may advance our understanding of the anatomical factors that are protective against AVH and predictive of a treatment response.
  • Cavaco, P., Curuklu, B., & Petersson, K. M. (2009). Artificial grammar recognition using two spiking neural networks. Frontiers in Neuroinformatics. Conference abstracts: 2nd INCF Congress of Neuroinformatics. doi:10.3389/conf.neuro.11.2009.08.096.

    Abstract

    In this paper we explore the feasibility of artificial (formal) grammar recognition (AGR) using spiking neural networks. A biologically inspired minicolumn architecture is designed as the basic computational unit. A network topography is defined based on the minicolumn architecture, here referred to as nodes, connected with excitatory and inhibitory connections. Nodes in the network represent unique internal states of the grammar’s finite state machine (FSM). Future work to improve the performance of the networks is discussed. The modeling framework developed can be used by neurophysiological research to implement network layouts and compare simulated performance characteristics to actual subject performance.
  • Ceroni, F., Simpson, N. H., Francks, C., Baird, G., Conti-Ramsden, G., Clark, A., Bolton, P. F., Hennessy, E. R., Donnelly, P., Bentley, D. R., Martin, H., IMGSAC, SLI Consortium, WGS500 Consortium, Parr, J., Pagnamenta, A. T., Maestrini, E., Bacchelli, E., Fisher, S. E., & Newbury, D. F. (2015). Reply to Pembrey et al: ‘ZNF277 microdeletions, specific language impairment and the meiotic mismatch methylation (3M) hypothesis’. European Journal of Human Genetics, 23, 1113-1115. doi:10.1038/ejhg.2014.275.
  • Chang, F., Bauman, M., Pappert, S., & Fitz, H. (2015). Do lemmas speak German?: A verb position effect in German structural priming. Cognitive Science, 39(5), 1113-1130. doi:10.1111/cogs.12184.

    Abstract

    Lexicalized theories of syntax often assume that verb-structure regularities are mediated by lemmas, which abstract over variation in verb tense and aspect. German syntax seems to challenge this assumption, because verb position depends on tense and aspect. To examine how German speakers link these elements, a structural priming study was performed which varied syntactic structure, verb position (encoded by tense and aspect), and verb overlap. Abstract structural priming was found, both within and across verb position, but priming was larger when the verb position was the same between prime and target. Priming was boosted by verb overlap, but there was no interaction with verb position. The results can be explained by a lemma model where tense and aspect are linked to structural choices in German. Since the architecture of this lemma model is not consistent with results from English, a connectionist model was developed which could explain the cross-linguistic variation in the production system. Together, these findings support the view that language learning plays an important role in determining the nature of structural priming in different languages
  • Chang, F., Kidd, E., & Rowland, C. F. (2013). Prediction in processing is a by-product of language learning [Commentary on Pickering & Garrod: An integrated theory of language production and comprehension]. Behavioral and Brain Sciences, 36(4), 350-351. doi:10.1017/S0140525X12001495.

    Abstract

    Both children and adults predict the content of upcoming language, suggesting that prediction is useful for learning as well as processing. We present an alternative model which can explain prediction behaviour as a by-product of language learning. We suggest that a consideration of language acquisition places important constraints on Pickering & Garrod's (P&G's) theory.
  • Chen, X. S., Penny, D., & Collins, L. J. (2011). Characterization of RNase MRP RNA and novel snoRNAs from Giardia intestinalis and Trichomonas vaginalis. BMC Genomics, 12, 550. doi:10.1186/1471-2164-12-550.

    Abstract

    Background: Eukaryotic cells possess a complex network of RNA machineries which function in RNA-processing and cellular regulation which includes transcription, translation, silencing, editing and epigenetic control. Studies of model organisms have shown that many ncRNAs of the RNA-infrastructure are highly conserved, but little is known from non-model protists. In this study we have conducted a genome-scale survey of medium-length ncRNAs from the protozoan parasites Giardia intestinalis and Trichomonas vaginalis. Results: We have identified the previously ‘missing’ Giardia RNase MRP RNA, which is a key ribozyme involved in pre-rRNA processing. We have also uncovered 18 new H/ACA box snoRNAs, expanding our knowledge of the H/ ACA family of snoRNAs. Conclusions: Results indicate that Giardia intestinalis and Trichomonas vaginalis, like their distant multicellular relatives, contain a rich infrastructure of RNA-based processing. From here we can investigate the evolution of RNA processing networks in eukaryotes.
  • Chen, A. (2015). Children’s use of intonation in reference and the role of input. In L. Serratrice, & S. E. M. Allen (Eds.), The acquisition of reference (pp. 83-104). Amsterdam: Benjamins.

    Abstract

    Studies on children’s use of intonation in reference are few in number but are diverse in terms of theoretical frameworks and intonational parameters. In the current review, I present a re-analysis of the referents in each study, using a three-dimension approach (i.e. referential givenness-newness, relational givenness-newness, contrast), discuss the use of intonation at two levels (phonetic, phonological), and compare findings from different studies within a single framework. The patterns stemming from these studies may be limited in generalisability but can serve as initial hypotheses for future work. Furthermore, I examine the role of input as available in infant direct speech in the acquisition of intonational encoding of referents. In addition, I discuss how future research can advance our knowledge.

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  • Chen, A., & Lai, V. T. (2011). Comb or coat: The role of intonation in online reference resolution in a second language. In W. Zonneveld, & H. Quené (Eds.), Sound and Sounds. Studies presented to M.E.H. (Bert) Schouten on the occasion of his 65th birthday (pp. 57-68). Utrecht: UiL OTS.

    Abstract

    1 Introduction In spoken sentence processing, listeners do not wait till the end of a sentence to decipher what message is conveyed. Rather, they make predictions on the most plausible interpretation at every possible point in the auditory signal on the basis of all kinds of linguistic information (e.g., Eberhard et al. 1995; Alman and Kamide 1999, 2007). Intonation is one such kind of linguistic information that is efficiently used in spoken sentence processing. The evidence comes primarily from recent work on online reference resolution conducted in the visual-world eyetracking paradigm (e.g., Tanenhaus et al. 1995). In this paradigm, listeners are shown a visual scene containing a number of objects and listen to one or two short sentences about the scene. They are asked to either inspect the visual scene while listening or to carry out the action depicted in the sentence(s) (e.g., 'Touch the blue square'). Listeners' eye movements directed to each object in the scene are monitored and time-locked to pre-defined time points in the auditory stimulus. Their predictions on the upcoming referent and sources for the predictions in the auditory signal are examined by analysing fixations to the relevant objects in the visual scene before the acoustic information on the referent is available
  • Chen, J., Calhoun, V. D., Arias-Vasquez, A., Zwiers, M. P., Van Hulzen, K., Fernández, G., Fisher, S. E., Franke, B., Turner, J. A., & Liu, J. (2015). G-Protein genomic association with normal variation in gray matter density. Human Brain Mapping, 36(11), 4272-4286. doi:10.1002/hbm.22916.

    Abstract

    While detecting genetic variations underlying brain structures helps reveal mechanisms of neural disorders, high data dimensionality poses a major challenge for imaging genomic association studies. In this work, we present the application of a recently proposed approach, parallel independent component analysis with reference (pICA-R), to investigate genomic factors potentially regulating gray matter variation in a healthy population. This approach simultaneously assesses many variables for an aggregate effect and helps to elicit particular features in the data. We applied pICA-R to analyze gray matter density (GMD) images (274,131 voxels) in conjunction with single nucleotide polymorphism (SNP) data (666,019 markers) collected from 1,256 healthy individuals of the Brain Imaging Genetics (BIG) study. Guided by a genetic reference derived from the gene GNA14, pICA-R identified a significant SNP-GMD association (r = −0.16, P = 2.34 × 10−8), implying that subjects with specific genotypes have lower localized GMD. The identified components were then projected to an independent dataset from the Mind Clinical Imaging Consortium (MCIC) including 89 healthy individuals, and the obtained loadings again yielded a significant SNP-GMD association (r = −0.25, P = 0.02). The imaging component reflected GMD variations in frontal, precuneus, and cingulate regions. The SNP component was enriched in genes with neuronal functions, including synaptic plasticity, axon guidance, molecular signal transduction via PKA and CREB, highlighting the GRM1, PRKCH, GNA12, and CAMK2B genes. Collectively, our findings suggest that GNA12 and GNA14 play a key role in the genetic architecture underlying normal GMD variation in frontal and parietal regions
  • Chen, A. (2003). Language dependence in continuation intonation. In M. Solé, D. Recasens, & J. Romero (Eds.), Proceedings of the 15th International Congress of Phonetic Sciences (ICPhS.) (pp. 1069-1072). Rundle Mall, SA, Austr.: Causal Productions Pty.
  • Chen, X. S., Collins, L. J., Biggs, P. J., & Penny, D. (2009). High throughput genome-wide survey of small RNAs from the parasitic protists giardia intestinalis and trichomonas vaginalis. Genome biology and evolution, 1, 165-175. doi:10.1093/gbe/evp017.

    Abstract

    RNA interference (RNAi) is a set of mechanisms which regulate gene expression in eukaryotes. Key elements of RNAi are small sense and antisense RNAs from 19 to 26 nucleotides generated from double-stranded RNAs. miRNAs are a major type of RNAi-associated small RNAs and are found in most eukaryotes studied to date. To investigate whether small RNAs associated with RNAi appear to be present in all eukaryotic lineages, and therefore present in the ancestral eukaryote, we studied two deep-branching protozoan parasites, Giardia intestinalis and Trichomonas vaginalis. Little is known about endogenous small RNAs involved in RNAi of these organisms. Using Illumina Solexa sequencing and genome-wide analysis of small RNAs from these distantly related deep-branching eukaryotes, we identified 10 strong miRNA candidates from Giardia and 11 from Trichomonas. We also found evidence of Giardia siRNAs potentially involved in the expression of variant-specific-surface proteins. In addition, 8 new snoRNAs from Trichomonas are identified. Our results indicate that miRNAs are likely to be general in ancestral eukaryotes, and therefore are likely to be a universal feature of eukaryotes.
  • Chen, A. (2009). Intonation and reference maintenance in Turkish learners of Dutch: A first insight. AILE - Acquisition et Interaction en Langue Etrangère, 28(2), 67-91.

    Abstract

    This paper investigates L2 learners’ use of intonation in reference maintenance in comparison to native speakers at three longitudinal points. Nominal referring expressions were elicited from two untutored Turkish learners of Dutch and five native speakers of Dutch via a film retelling task, and were analysed in terms of pitch span and word duration. Effects of two types of change in information states were examined, between new and given and between new and accessible. We found native-like use of word duration in both types of change early on but different performances between learners and development over time in one learner in the use of pitch span. Further, the use of morphosyntactic devices had different effects on the two learners. The inter-learner differences and late systematic use of pitch span, in spite of similar use of pitch span in learners’ L1 and L2, suggest that learning may play a role in the acquisition of intonation as a device for reference maintenance.
  • Chen, A. (2009). Perception of paralinguistic intonational meaning in a second language. Language Learning, 59(2), 367-409.
  • Chen, A. (2003). Reaction time as an indicator to discrete intonational contrasts in English. In Proceedings of Eurospeech 2003 (pp. 97-100).

    Abstract

    This paper reports a perceptual study using a semantically motivated identification task in which we investigated the nature of two pairs of intonational contrasts in English: (1) normal High accent vs. emphatic High accent; (2) early peak alignment vs. late peak alignment. Unlike previous inquiries, the present study employs an on-line method using the Reaction Time measurement, in addition to the measurement of response frequencies. Regarding the peak height continuum, the mean RTs are shortest for within-category identification but longest for across-category identification. As for the peak alignment contrast, no identification boundary emerges and the mean RTs only reflect a difference between peaks aligned with the vowel onset and peaks aligned elsewhere. We conclude that the peak height contrast is discrete but the previously claimed discreteness of the peak alignment contrast is not borne out.
  • Chen, A. (2011). The developmental path to phonological focus-marking in Dutch. In S. Frota, E. Gorka, & P. Prieto (Eds.), Prosodic categories: Production, perception and comprehension (pp. 93-109). Dordrecht: Springer.

    Abstract

    This paper gives an overview of recent studies on the use of phonological cues (accent placement and choice of accent type) to mark focus in Dutch-speaking children aged between 1;9 and 8;10. It is argued that learning to use phonological cues to mark focus is a gradual process. In the light of the findings in these studies, a first proposal is put forward on the developmental path to adult-like phonological focus-marking in Dutch.
  • Chen, A. (2009). The phonetics of sentence-initial topic and focus in adult and child Dutch. In M. Vigário, S. Frota, & M. Freitas (Eds.), Phonetics and Phonology: Interactions and interrelations (pp. 91-106). Amsterdam: Benjamins.
  • Chen, A. (2011). What’s in a rise: Evidence for an off-ramp analysis of Dutch Intonation. In W.-S. Lee, & E. Zee (Eds.), Proceedings of the 17th International Congress of Phonetic Sciences 2011 [ICPhS XVII] (pp. 448-451). Hong Kong: Department of Chinese, Translation and Linguistics, City University of Hong Kong.

    Abstract

    Pitch accents are analysed differently in an onramp analysis (i.e. ToBI) and an off-ramp analysis (e.g. Transcription of Dutch intonation - ToDI), two competing approaches in the Autosegmental Metrical tradition. A case in point is pre-final high rise. A pre-final rise is analysed as H* in ToBI but is phonologically ambiguous between H* or H*L (a (rise-)fall) in ToDI. This is because in ToDI, the L tone of a pre-final H*L can be realised in the following unaccented words and both H* and H*L can show up as a high rise in the accented word. To find out whether there is a two-way phonological contrast in pre-final high rises in Dutch, we examined the distribution of phonologically ambiguous high rises (H*(L)) and their phonetic realisation in different information structural conditions (topic vs. focus), compared to phonologically unambiguous H* and H*L. Results showed that there is indeed a H*L vs. H* contrast in prefinal high rises in Dutch and that H*L is realised as H*(L) when sonorant material is limited in the accented word. These findings provide new evidence for an off-ramp analysis of Dutch intonation and have far-reaching implications for analysis of intonation across languages.
  • Chen, A. (2011). Tuning information packaging: Intonational realization of topic and focus in child Dutch. Journal of Child Language, 38, 1055-1083. doi:10.1017/S0305000910000541.

    Abstract

    This study examined how four- to five-year-olds and seven- to eight-year-olds used intonation (accent placement and accent type) to encode topic and focus in Dutch. Naturally spoken declarative sentences with either sentence-initial topic and sentence-final focus or sentence-initial focus and sentence-final topic were elicited via a picture-matching game. Results showed that the four- to five-year-olds were adult-like in topic-marking, but were not yet fully adult-like in focus-marking, in particular, in the use of accent type in sentence-final focus (i.e. showing no preference for H*L). Between age five and seven, the use of accent type was further developed. In contrast to the four- to five-year-olds, the seven- to eight-year-olds showed a preference for H*L in sentence-final focus. Furthermore, they used accent type to distinguish sentence-initial focus from sentence-initial topic in addition to phonetic cues.
  • Cho, T. (2003). Lexical stress, phrasal accent and prosodic boundaries in the realization of domain-initial stops in Dutch. In Proceedings of the 15th International Congress of Phonetic Sciences (ICPhs 2003) (pp. 2657-2660). Adelaide: Causal Productions.

    Abstract

    This study examines the effects of prosodic boundaries, lexical stress, and phrasal accent on the acoustic realization of stops (/t, d/) in Dutch, with special attention paid to language-specificity in the phonetics-prosody interface. The results obtained from various acoustic measures show systematic phonetic variations in the production of /t d/ as a function of prosodic position, which may be interpreted as being due to prosodicallyconditioned articulatory strengthening. Shorter VOTs were found for the voiceless stop /t/ in prosodically stronger locations (as opposed to longer VOTs in this position in English). The results suggest that prosodically-driven phonetic realization is bounded by a language-specific phonological feature system.
  • Cho, T., & McQueen, J. M. (2011). Perceptual recovery from consonant-cluster simplification using language-specific phonological knowledge. Journal of Psycholinguistic Research, 40, 253-274. doi:10.1007/s10936-011-9168-0.

    Abstract

    Two experiments examined whether perceptual recovery from Korean consonant-cluster simplification is based on language-specific phonological knowledge. In tri-consonantal C1C2C3 sequences such as /lkt/ and /lpt/ in Seoul Korean, either C1 or C2 can be completely deleted. Seoul Koreans monitored for C2 targets (/p/ or / k/, deleted or preserved) in the second word of a two-word phrase with an underlying /l/-C2-/t/ sequence. In Experiment 1 the target-bearing words had contextual lexical-semantic support. Listeners recovered deleted targets as fast and as accurately as preserved targets with both Word and Intonational Phrase (IP) boundaries between the two words. In Experiment 2, contexts were low-pass filtered. Listeners were still able to recover deleted targets as well as preserved targets in IP-boundary contexts, but better with physically-present targets than with deleted targets in Word-boundary contexts. This suggests that the benefit of having target acoustic-phonetic information emerges only when higher-order (contextual and phrase-boundary) information is not available. The strikingly efficient recovery of deleted phonemes with neither acoustic-phonetic cues nor contextual support demonstrates that language-specific phonological knowledge, rather than language-universal perceptual processes which rely on fine-grained phonetic details, is employed when the listener perceives the results of a continuous-speech process in which reduction is phonetically complete.
  • Choi, J., Broersma, M., & Cutler, A. (2015). Enhanced processing of a lost language: Linguistic knowledge or linguistic skill? In Proceedings of Interspeech 2015: 16th Annual Conference of the International Speech Communication Association (pp. 3110-3114).

    Abstract

    Same-different discrimination judgments for pairs of Korean stop consonants, or of Japanese syllables differing in phonetic segment length, were made by adult Korean adoptees in the Netherlands, by matched Dutch controls, and Korean controls. The adoptees did not outdo either control group on either task, although the same individuals had performed significantly better than matched controls on an identification learning task. This suggests that early exposure to multiple phonetic systems does not specifically improve acoustic-phonetic skills; rather, enhanced performance suggests retained language knowledge.
  • Cholin, J., & Levelt, W. J. M. (2009). Effects of syllable preparation and syllable frequency in speech production: Further evidence for syllabic units at a post-lexical level. Language and Cognitive Processes, 24, 662-684. doi:10.1080/01690960802348852.

    Abstract

    In the current paper, we asked at what level in the speech planning process speakers retrieve stored syllables. There is evidence that syllable structure plays an essential role in the phonological encoding of words (e.g., online syllabification and phonological word formation). There is also evidence that syllables are retrieved as whole units. However, findings that clearly pinpoint these effects to specific levels in speech planning are scarce. We used a naming variant of the implicit priming paradigm to contrast voice onset latencies for frequency-manipulated disyllabic Dutch pseudo-words. While prior implicit priming studies only manipulated the item's form and/or syllable structure overlap we introduced syllable frequency as an additional factor. If the preparation effect for syllables obtained in the implicit priming paradigm proceeds beyond phonological planning, i.e., includes the retrieval of stored syllables, then the preparation effect should differ for high- and low frequency syllables. The findings reported here confirm this prediction: Low-frequency syllables benefit significantly more from the preparation than high-frequency syllables. Our findings support the notion of a mental syllabary at a post-lexical level, between the levels of phonological and phonetic encoding.
  • Cholin, J., Dell, G. S., & Levelt, W. J. M. (2011). Planning and articulation in incremental word production: Syllable-frequency effects in English. Journal of Experimental Psychology: Learning, Memory, and Cognition, 37, 109-122. doi:10.1037/a0021322.

    Abstract

    We investigated the role of syllables during speech planning in English by measuring syllable-frequency effects. So far, syllable-frequency effects in English have not been reported. English has poorly defined syllable boundaries, and thus the syllable might not function as a prominent unit in English speech production. Speakers produced either monosyllabic (Experiment 1) or disyllabic (Experiment 2–4) pseudowords as quickly as possible in response to symbolic cues. Monosyllabic targets consisted of either high- or low-frequency syllables, whereas disyllabic items contained either a 1st or 2nd syllable that was frequency-manipulated. Significant syllable-frequency effects were found in all experiments. Whereas previous findings for disyllables in Dutch and Spanish—languages with relatively clear syllable boundaries—showed effects of a frequency manipulation on 1st but not 2nd syllables, in our study English speakers were sensitive to the frequency of both syllables. We interpret this sensitivity as an indication that the production of English has more extensive planning scopes at the interface of phonetic encoding and articulation.
  • Christoffels, I. K., Ganushchak, L. Y., & Koester, D. (2013). Language conflict in translation; An ERP study of translation production. Journal of Cognitive Psychology, 25, 646-664. doi:10.1080/20445911.2013.821127.

    Abstract

    Although most bilinguals can translate with relative ease, the underlying neuro-cognitive processes are poorly understood. Using event-related brain potentials (ERPs) we investigated the temporal course of word translation. Participants translated words from and to their first (L1, Dutch) and second (L2, English) language while ERPs were recorded. Interlingual homographs (IHs) were included to introduce language conflict. IHs share orthographic form but have different meanings in L1 and L2 (e.g., room in Dutch refers to cream). Results showed that the brain distinguished between translation directions as early as 200 ms after word presentation: the P2 amplitudes were more positive in the L1L2 translation direction. The N400 was also modulated by translation direction, with more negative amplitudes in the L2L1 translation direction. Furthermore, the IHs were translated more slowly, induced more errors, and elicited more negative N400 amplitudes than control words. In a naming experiment, participants read aloud the same words in L1 or L2 while ERPs were recorded. Results showed no effect of either IHs or language, suggesting that task schemas may be crucially related to language control in translation. Furthermore, translation appears to involve conceptual processing in both translation directions, and the task goal appears to influence how words are processed.

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  • Chu, M., & Kita, S. (2009). Co-speech gestures do not originate from speech production processes: Evidence from the relationship between co-thought and co-speech gestures. In N. Taatgen, & H. Van Rijn (Eds.), Proceedings of the Thirty-First Annual Conference of the Cognitive Science Society (pp. 591-595). Austin, TX: Cognitive Science Society.

    Abstract

    When we speak, we spontaneously produce gestures (co-speech gestures). Co-speech gestures and speech production are closely interlinked. However, the exact nature of the link is still under debate. To addressed the question that whether co-speech gestures originate from the speech production system or from a system independent of the speech production, the present study examined the relationship between co-speech and co-thought gestures. Co-thought gestures, produced during silent thinking without speaking, presumably originate from a system independent of the speech production processes. We found a positive correlation between the production frequency of co-thought and co-speech gestures, regardless the communicative function that co-speech gestures might serve. Therefore, we suggest that co-speech gestures and co-thought gestures originate from a common system that is independent of the speech production processes
  • Chu, M., & Kita, S. (2011). Microgenesis of gestures during mental rotation tasks recapitulates ontogenesis. In G. Stam, & M. Ishino (Eds.), Integrating gestures: The interdisciplinary nature of gesture (pp. 267-276). Amsterdam: John Benjamins.

    Abstract

    People spontaneously produce gestures when they solve problems or explain their solutions to a problem. In this chapter, we will review and discuss evidence on the role of representational gestures in problem solving. The focus will be on our recent experiments (Chu & Kita, 2008), in which we used Shepard-Metzler type of mental rotation tasks to investigate how spontaneous gestures revealed the development of problem solving strategy over the course of the experiment and what role gesture played in the development process. We found that when solving novel problems regarding the physical world, adults go through similar symbolic distancing (Werner & Kaplan, 1963) and internalization (Piaget, 1968) processes as those that occur during young children’s cognitive development and gesture facilitates such processes.
  • Chu, M., & Kita, S. (2011). The nature of gestures’ beneficial role in spatial problem solving. Journal of Experimental Psychology: General, 140, 102-116. doi:10.1037/a0021790.

    Abstract

    Co-thought gestures are hand movements produced in silent, noncommunicative, problem-solving situations. In the study, we investigated whether and how such gestures enhance performance in spatial visualization tasks such as a mental rotation task and a paper folding task. We found that participants gestured more often when they had difficulties solving mental rotation problems Experiment 1). The gesture-encouraged group solved more mental rotation problems correctly than did the gesture-allowed and gesture-prohibited groups (Experiment 2). Gestures produced by the gesture-encouraged group enhanced performance in the very trials in which they were produced Experiments 2 & 3). Furthermore, gesture frequency decreased as the participants in the gesture-encouraged group solved more problems (Experiments 2 & 3). In addition, the advantage of the gesture-encouraged group persisted into subsequent spatial visualization problems in which gesturing was prohibited: another mental rotation block (Experiment 2) and a newly introduced paper folding task (Experiment 3). The results indicate that when people have difficulty in solving spatial visualization problems, they spontaneously produce gestures to help them, and gestures can indeed improve performance. As they solve more problems, the spatial computation supported by gestures becomes internalized, and the gesture frequency decreases. The benefit of gestures persists even in subsequent spatial visualization problems in which gesture is prohibited. Moreover, the beneficial effect of gesturing can be generalized to a different spatial visualization task when two tasks require similar spatial transformation processes. We conclude that gestures enhance performance on spatial visualization tasks by improving the internal computation of spatial transformations.
  • Cleary, R. A., Poliakoff, E., Galpin, A., Dick, J. P., & Holler, J. (2011). An investigation of co-speech gesture production during action description in Parkinson’s disease. Parkinsonism & Related Disorders, 17, 753-756. doi:10.1016/j.parkreldis.2011.08.001.

    Abstract

    Methods
    The present study provides a systematic analysis of co-speech gestures which spontaneously accompany the description of actions in a group of PD patients (N = 23, Hoehn and Yahr Stage III or less) and age-matched healthy controls (N = 22). The analysis considers different co-speech gesture types, using established classification schemes from the field of gesture research. The analysis focuses on the rate of these gestures as well as on their qualitative nature. In doing so, the analysis attempts to overcome several methodological shortcomings of research in this area.
    Results
    Contrary to expectation, gesture rate was not significantly affected in our patient group, with relatively mild PD. This indicates that co-speech gestures could compensate for speech problems. However, while gesture rate seems unaffected, the qualitative precision of gestures representing actions was significantly reduced.
    Conclusions
    This study demonstrates the feasibility of carrying out fine-grained, detailed analyses of gestures in PD and offers insights into an as yet neglected facet of communication in patients with PD. Based on the present findings, an important next step is the closer investigation of the qualitative changes in gesture (including different communicative situations) and an analysis of the heterogeneity in co-speech gesture production in PD.
  • Clifton, C. J., Meyer, A. S., Wurm, L. H., & Treiman, R. (2013). Language comprehension and production. In A. F. Healy, & R. W. Proctor (Eds.), Handbook of Psychology, Volume 4, Experimental Psychology. 2nd Edition (pp. 523-547). Hoboken, NJ: Wiley.

    Abstract

    In this chapter, we survey the processes of recognizing and producing words and of understanding and creating sentences. Theory and research on these topics have been shaped by debates about how various sources of information are integrated in these processes, and about the role of language structure, as analyzed in the discipline of linguistics. In this chapter, we describe current views of fluent language users' comprehension of spoken and written language and their production of spoken language. We review what we consider to be the most important findings and theories in psycholinguistics, returning again and again to the questions of modularity and the importance of linguistic knowledge. Although we acknowledge the importance of social factors in language use, our focus is on core processes such as parsing and word retrieval that are not necessarily affected by such factors. We do not have space to say much about the important fields of developmental psycholinguistics, which deals with the acquisition of language by children, or applied psycholinguistics, which encompasses such topics as language disorders and language teaching. Although we recognize that there is burgeoning interest in the measurement of brain activity during language processing and how language is represented in the brain, space permits only occasional pointers to work in neuropsychology and the cognitive neuroscience of language. For treatment of these topics, and others, the interested reader could begin with two recent handbooks of psycholinguistics (Gaskell, 2007; Traxler & Gemsbacher, 2006) and a handbook of cognitive neuroscience (Gazzaniga, 2004).
  • Cohen, E. (2011). Broadening the critical perspective on supernatural punishment theories. Religion, Brain & Behavior, 1(1), 70-72. doi:10.1080/2153599X.2011.558709.
  • Cohen, E., Burdett, E., Knight, N., & Barrett, J. (2011). Cross-cultural similarities and differences in person-body reasoning: Experimental evidence from the United Kingdom and Brazilian Amazon. Cognitive Science, 35, 1282-1304. doi:10.1111/j.1551-6709.2011.01172.x.

    Abstract

    We report the results of a cross-cultural investigation of person-body reasoning in the United Kingdom and northern Brazilian Amazon (Marajo´ Island). The study provides evidence that directly bears upon divergent theoretical claims in cognitive psychology and anthropology, respectively, on the cognitive origins and cross-cultural incidence of mind-body dualism. In a novel reasoning task, we found that participants across the two sample populations parsed a wide range of capacities similarly in terms of the capacities’ perceived anchoring to bodily function. Patterns of reasoning concerning the respective roles of physical and biological properties in sustaining various capacities did vary between sample populations, however. Further, the data challenge prior ad-hoc categorizations in the empirical literature on the developmental origins of and cognitive constraints on psycho-physical reasoning (e.g., in afterlife concepts). We suggest cross-culturally validated categories of ‘‘Body Dependent’’ and ‘‘Body Independent’’ items for future developmental and cross-cultural research in this emerging area.
  • Cohen, E. (2011). “Out with ‘Religion’: A novel framing of the religion debate”. In W. Williams (Ed.), Religion and rights: The Oxford Amnesty Lectures 2008. Manchester: Manchester University Press.
  • Cohen, E., & Barrett, J. L. (2011). In search of "Folk anthropology": The cognitive anthropology of the person. In J. W. Van Huysteen, & E. Wiebe (Eds.), In search of self: Interdisciplinary perspectives on personhood (pp. 104-124). Grand Rapids, CA: Wm. B. Eerdmans Publishing Company.
  • Cohen, E., & Haun, D. B. M. (2013). The development of tag-based cooperation via a socially acquired trait. Evolution and Human Behavior, 24, 230-235. doi:10.1016/j.evolhumbehav.2013.02.001.

    Abstract

    Recent theoretical models have demonstrated that phenotypic traits can support the non-random assortment of cooperators in a population, thereby permitting the evolution of cooperation. In these “tag-based models”, cooperators modulate cooperation according to an observable and hard-to-fake trait displayed by potential interaction partners. Socially acquired vocalizations in general, and speech accent among humans in particular, are frequently proposed as hard to fake and hard to hide traits that display sufficient cross-populational variability to reliably guide such social assortment in fission–fusion societies. Adults’ sensitivity to accent variation in social evaluation and decisions about cooperation is well-established in sociolinguistic research. The evolutionary and developmental origins of these biases are largely unknown, however. Here, we investigate the influence of speech accent on 5–10-year-old children's developing social and cooperative preferences across four Brazilian Amazonian towns. Two sites have a single dominant accent, and two sites have multiple co-existing accent varieties. We found that children's friendship and resource allocation preferences were guided by accent only in sites characterized by accent heterogeneity. Results further suggest that this may be due to a more sensitively tuned ear for accent variation. The demonstrated local-accent preference did not hold in the face of personal cost. Results suggest that mechanisms guiding tag-based assortment are likely tuned according to locally relevant tag-variation.

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  • Collins, L. J., & Chen, X. S. (2009). Ancestral RNA: The RNA biology of the eukaryotic ancestor. RNA Biology, 6(5), 495-502. doi:10.4161/rna.6.5.9551.

    Abstract

    Our knowledge of RNA biology within eukaryotes has exploded over the last five years. Within new research we see that some features that were once thought to be part of multicellular life have now been identified in several protist lineages. Hence, it is timely to ask which features of eukaryote RNA biology are ancestral to all eukaryotes. We focus on RNA-based regulation and epigenetic mechanisms that use small regulatory ncRNAs and long ncRNAs, to highlight some of the many questions surrounding eukaryotic ncRNA evolution.
  • Collins, J. (2015). ‘Give’ and semantic maps. In B. Nolan, G. Rawoens, & E. Diedrichsen (Eds.), Causation, permission, and transfer: Argument realisation in GET, TAKE, PUT, GIVE and LET verbs (pp. 129-146). Amsterdam: John Benjamins.
  • Collins, L. J., Schönfeld, B., & Chen, X. S. (2011). The epigenetics of non-coding RNA. In T. Tollefsbol (Ed.), Handbook of epigenetics: the new molecular and medical genetics (pp. 49-61). London: Academic.

    Abstract

    Summary Non-coding RNAs (ncRNAs) have been implicated in the epigenetic marking of many genes. Short regulatory ncRNAs, including miRNAs, siRNAs, piRNAs and snoRNAs as well as long ncRNAs such as Xist and Air are discussed in light of recent research of mechanisms regulating chromatin marking and RNA editing. The topic is expanding rapidly so we will concentrate on examples to highlight the main mechanisms, including simple mechanisms where complementary binding affect methylation or RNA sites. However, other examples especially with the long ncRNAs highlight very complex regulatory systems with multiple layers of ncRNA control.
  • Connell, L., Cai, Z. G., & Holler, J. (2013). Do you see what I'm singing? Visuospatial movement biases pitch perception. Brain and Cognition, 81, 124-130. doi:10.1016/j.bandc.2012.09.005.

    Abstract

    The nature of the connection between musical and spatial processing is controversial. While pitch may be described in spatial terms such as “high” or “low”, it is unclear whether pitch and space are associated but separate dimensions or whether they share representational and processing resources. In the present study, we asked participants to judge whether a target vocal note was the same as (or different from) a preceding cue note. Importantly, target trials were presented as video clips where a singer sometimes gestured upward or downward while singing that target note, thus providing an alternative, concurrent source of spatial information. Our results show that pitch discrimination was significantly biased by the spatial movement in gesture, such that downward gestures made notes seem lower in pitch than they really were, and upward gestures made notes seem higher in pitch. These effects were eliminated by spatial memory load but preserved under verbal memory load conditions. Together, our findings suggest that pitch and space have a shared representation such that the mental representation of pitch is audiospatial in nature.
  • Connine, C. M., Clifton, Jr., C., & Cutler, A. (1987). Effects of lexical stress on phonetic categorization. Phonetica, 44, 133-146.
  • Cooper, A., Brouwer, S., & Bradlow, A. R. (2015). Interdependent processing and encoding of speech and concurrent background noise. Attention, Perception & Psychophysics, 77(4), 1342-1357. doi:10.3758/s13414-015-0855-z.

    Abstract

    Speech processing can often take place in adverse listening conditions that involve the mixing of speech and background noise. In this study, we investigated processing dependencies between background noise and indexical speech features, using a speeded classification paradigm (Garner, 1974; Exp. 1), and whether background noise is encoded and represented in memory for spoken words in a continuous recognition memory paradigm (Exp. 2). Whether or not the noise spectrally overlapped with the speech signal was also manipulated. The results of Experiment 1 indicated that background noise and indexical features of speech (gender, talker identity) cannot be completely segregated during processing, even when the two auditory streams are spectrally nonoverlapping. Perceptual interference was asymmetric, whereby irrelevant indexical feature variation in the speech signal slowed noise classification to a greater extent than irrelevant noise variation slowed speech classification. This asymmetry may stem from the fact that speech features have greater functional relevance to listeners, and are thus more difficult to selectively ignore than background noise. Experiment 2 revealed that a recognition cost for words embedded in different types of background noise on the first and second occurrences only emerged when the noise and the speech signal were spectrally overlapping. Together, these data suggest integral processing of speech and background noise, modulated by the level of processing and the spectral separation of the speech and noise.
  • Coridun, S., Ernestus, M., & Ten Bosch, L. (2015). Learning pronunciation variants in a second language: Orthographic effects. In Scottish consortium for ICPhS 2015, M. Wolters, J. Livingstone, B. Beattie, R. Smith, M. MacMahon, J. Stuart-Smith, & J. Scobbie (Eds.), Proceedings of the 18th International Congress of Phonetic Sciences (ICPhS 2015). Glasgow: University of Glasgow.

    Abstract

    The present study investigated the effect of orthography on the learning and subsequent processing of pronunciation variants in a second language. Dutch learners of French learned reduced pronunciation variants that result from schwa-zero alternation in French (e.g., reduced /ʃnij/ from chenille 'caterpillar'). Half of the participants additionally learnt the words' spellings, which correspond more closely to the full variants with schwa. On the following day, participants performed an auditory lexical decision task, in which they heard half of the words in their reduced variants, and the other half in their full variants. Participants who had exclusively learnt the auditory forms performed significantly worse on full variants than participants who had also learnt the spellings. This shows that learners integrate phonological and orthographic information to process pronunciation variants. There was no difference between both groups in their performances on reduced variants, suggesting that the exposure to spelling does not impede learners' processing of these variants.
  • Cousminer, D. L., Berry, D. J., Timpson, N. J., Ang, W., Thiering, E., Byrne, E. M., Taal, H. R., Huikari, V., Bradfield, J. P., Kerkhof, M., Groen-Blokhuis, M. M., Kreiner-Møller, E., Marinelli, M., Holst, C., Leinonen, J. T., Perry, J. R. B., Surakka, I., Pietiläinen, O., Kettunen, J., Anttila, V. and 50 moreCousminer, D. L., Berry, D. J., Timpson, N. J., Ang, W., Thiering, E., Byrne, E. M., Taal, H. R., Huikari, V., Bradfield, J. P., Kerkhof, M., Groen-Blokhuis, M. M., Kreiner-Møller, E., Marinelli, M., Holst, C., Leinonen, J. T., Perry, J. R. B., Surakka, I., Pietiläinen, O., Kettunen, J., Anttila, V., Kaakinen, M., Sovio, U., Pouta, A., Das, S., Lagou, V., Power, C., Prokopenko, I., Evans, D. M., Kemp, J. P., St Pourcain, B., Ring, S., Palotie, A., Kajantie, E., Osmond, C., Lehtimäki, T., Viikari, J. S., Kähönen, M., Warrington, N. M., Lye, S. J., Palmer, L. J., Tiesler, C. M. T., Flexeder, C., Montgomery, G. W., Medland, S. E., Hofman, A., Hakonarson, H., Guxens, M., Bartels, M., Salomaa, V., Murabito, J. M., Kaprio, J., Sørensen, T. I. A., Ballester, F., Bisgaard, H., Boomsma, D. I., Koppelman, G. H., Grant, S. F. A., Jaddoe, V. W. V., Martin, N. G., Heinrich, J., Pennell, C. E., Raitakari, O. T., Eriksson, J. G., Smith, G. D., Hyppönen, E., Järvelin, M.-R., McCarthy, M. I., Ripatti, S., Widén, E., Consortium ReproGen, & Consortium Early Growth Genetics (EGG) (2013). Genome-wide association and longitudinal analyses reveal genetic loci linking pubertal height growth, pubertal timing and childhood adiposity. Human Molecular Genetics, 22(13), 2735-2747. doi:10.1093/hmg/ddt104.

    Abstract

    The pubertal height growth spurt is a distinctive feature of childhood growth reflecting both the central onset of puberty and local growth factors. Although little is known about the underlying genetics, growth variability during puberty correlates with adult risks for hormone-dependent cancer and adverse cardiometabolic health. The only gene so far associated with pubertal height growth, LIN28B, pleiotropically influences childhood growth, puberty and cancer progression, pointing to shared underlying mechanisms. To discover genetic loci influencing pubertal height and growth and to place them in context of overall growth and maturation, we performed genome-wide association meta-analyses in 18 737 European samples utilizing longitudinally collected height measurements. We found significant associations (P < 1.67 × 10(-8)) at 10 loci, including LIN28B. Five loci associated with pubertal timing, all impacting multiple aspects of growth. In particular, a novel variant correlated with expression of MAPK3, and associated both with increased prepubertal growth and earlier menarche. Another variant near ADCY3-POMC associated with increased body mass index, reduced pubertal growth and earlier puberty. Whereas epidemiological correlations suggest that early puberty marks a pathway from rapid prepubertal growth to reduced final height and adult obesity, our study shows that individual loci associating with pubertal growth have variable longitudinal growth patterns that may differ from epidemiological observations. Overall, this study uncovers part of the complex genetic architecture linking pubertal height growth, the timing of puberty and childhood obesity and provides new information to pinpoint processes linking these traits.
  • Cozijn, R., Vonk, W., & Noordman, L. G. M. (2003). Afleidingen uit oogbewegingen: De invloed van het connectief 'omdat' op het maken van causale inferenties. Gramma/TTT, 9, 141-156.
  • Cozijn, R., Noordman, L. G., & Vonk, W. (2011). Propositional integration and world-knowledge inference: Processes in understanding because sentences. Discourse Processes, 48, 475-500. doi:10.1080/0163853X.2011.594421.

    Abstract

    The issue addressed in this study is whether propositional integration and world-knowledge inference can be distinguished as separate processes during the comprehension of Dutch omdat (because) sentences. “Propositional integration” refers to the process by which the reader establishes the type of relation between two clauses or sentences. “World-knowledge inference” refers to the process of deriving the general causal relation and checking it against the reader's world knowledge. An eye-tracking experiment showed that the presence of the conjunction speeds up the processing of the words immediately following the conjunction, and slows down the processing of the sentence final words in comparison to the absence of the conjunction. A second, subject-paced reading experiment replicated the reading time findings, and the results of a verification task confirmed that the effect at the end of the sentence was due to inferential processing. The findings evidence integrative processing and inferential processing, respectively.
  • Cozijn, R., Commandeur, E., Vonk, W., & Noordman, L. G. (2011). The time course of the use of implicit causality information in the processing of pronouns: A visual world paradigm study. Journal of Memory and Language, 64, 381-403. doi:10.1016/j.jml.2011.01.001.

    Abstract

    Several theoretical accounts have been proposed with respect to the issue how quickly the implicit causality verb bias affects the understanding of sentences such as “John beat Pete at the tennis match, because he had played very well”. They can be considered as instances of two viewpoints: the focusing and the integration account. The focusing account claims that the bias should be manifest soon after the verb has been processed, whereas the integration account claims that the interpretation is deferred until disambiguating information is encountered. Up to now, this issue has remained unresolved because materials or methods have failed to address it conclusively. We conducted two experiments that exploited the visual world paradigm and ambiguous pronouns in subordinate because clauses. The first experiment presented implicit causality sentences with the task to resolve the ambiguous pronoun. To exclude strategic processing, in the second experiment, the task was to answer simple comprehension questions and only a minority of the sentences contained implicit causality verbs. In both experiments, the implicit causality of the verb had an effect before the disambiguating information was available. This result supported the focusing account.
  • Cristia, A., McGuire, G. L., Seidl, A., & Francis, A. L. (2011). Effects of the distribution of acoustic cues on infants' perception of sibilants. Journal of Phonetics, 39, 388-402. doi:10.1016/j.wocn.2011.02.004.

    Abstract

    A current theoretical view proposes that infants converge on the speech categories of their native language by attending to frequency distributions that occur in the acoustic input. To date, the only empirical support for this statistical learning hypothesis comes from studies where a single, salient dimension was manipulated. Additional evidence is sought here, by introducing a less salient pair of categories supported by multiple cues. We exposed English-learning infants to a multi-cue bidimensional grid ranging between retroflex and alveolopalatal sibilants in prevocalic position. This contrast is substantially more difficult according to previous cross-linguistic and perceptual research, and its perception is driven by cues in both the consonantal and the following vowel portions. Infants heard one of two distributions (flat, or with two peaks), and were tested with sounds varying along only one dimension. Infants' responses differed depending on the familiarization distribution, and their performance was equally good for the vocalic and the frication dimension, lending some support to the statistical hypothesis even in this harder learning situation. However, learning was restricted to the retroflex category, and a control experiment showed that lack of learning for the alveolopalatal category was not due to the presence of a competing category. Thus, these results contribute fundamental evidence on the extent and limitations of the statistical hypothesis as an explanation for infants' perceptual tuning.
  • Cristia, A., Dupoux, E., Hakuno, Y., Lloyd-Fox, S., Schuetze, M., Kivits, J., Bergvelt, T., Van Gelder, M., Filippin, L., Charron, S., & Minagawa-Kawai, Y. (2013). An online database of infant functional Near InfraRed Spectroscopy studies: A community-augmented systematic review. PLoS One, 8(3): e58906. doi:10.1371/journal.pone.0058906.

    Abstract

    Until recently, imaging the infant brain was very challenging. Functional Near InfraRed Spectroscopy (fNIRS) is a promising, relatively novel technique, whose use is rapidly expanding. As an emergent field, it is particularly important to share methodological knowledge to ensure replicable and robust results. In this paper, we present a community-augmented database which will facilitate precisely this exchange. We tabulated articles and theses reporting empirical fNIRS research carried out on infants below three years of age along several methodological variables. The resulting spreadsheet has been uploaded in a format allowing individuals to continue adding new results, and download the most recent version of the table. Thus, this database is ideal to carry out systematic reviews. We illustrate its academic utility by focusing on the factors affecting three key variables: infant attrition, the reliability of oxygenated and deoxygenated responses, and signal-to-noise ratios. We then discuss strengths and weaknesses of the DBIfNIRS, and conclude by suggesting a set of simple guidelines aimed to facilitate methodological convergence through the standardization of reports.
  • Cristia, A. (2011). Fine-grained variation in caregivers' speech predicts their infants' discrimination. Journal of the Acoustical Society of America, 129, 3271-3280. doi:10.1121/1.3562562.

    Abstract

    Within the debate on the mechanisms underlying infants’ perceptual acquisition, one hypothesis proposes that infants’ perception is directly affected by the acoustic implementation of sound categories in the speech they hear. In consonance with this view, the present study shows that individual variation in fine-grained, subphonemic aspects of the acoustic realization of /s/ in caregivers’ speech predicts infants’ discrimination of this sound from the highly similar /∫/, suggesting that learning based on acoustic cue distributions may indeed drive natural phonological acquisition.
  • Cristia, A. (2013). Input to language: The phonetics of infant-directed speech. Language and Linguistics Compass, 7, 157-170. doi:10.1111/lnc3.12015.

    Abstract

    Over the first year of life, infant perception changes radically as the child learns the phonology of the ambient language from the speech she is exposed to. Since infant-directed speech attracts the child's attention more than other registers, it is necessary to describe that input in order to understand language development, and to address questions of learnability. In this review, evidence from corpora analyses, experimental studies, and observational paradigms is brought together to outline the first comprehensive empirical picture of infant-directed speech and its effects on language acquisition. The ensuing landscape suggests that infant-directed speech provides an emotionally and linguistically rich input to language acquisition

    Additional information

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  • Cristia, A., Seidl, A., & Gerken, L. (2011). Learning classes of sounds in infancy. University of Pennsylvania Working Papers in Linguistics, 17, 9.

    Abstract

    Adults' phonotactic learning is affected by perceptual biases. One such bias concerns learning of constraints affecting groups of sounds: all else being equal, learning constraints affecting a natural class (a set of sounds sharing some phonetic characteristic) is easier than learning a constraint affecting an arbitrary set of sounds. This perceptual bias could be a given, for example, the result of innately guided learning; alternatively, it could be due to human learners’ experience with sounds. Using artificial grammars, we investigated whether such a bias arises in development, or whether it is present as soon as infants can learn phonotactics. Seven-month-old English-learning infants fail to generalize a phonotactic pattern involving fricatives and nasals, which does not form a coherent phonetic group, but succeed with the natural class of oral and nasal stops. In this paper, we report an experiment that explored whether those results also follow in a cohort of 4-month-olds. Unlike the older infants, 4-month-olds were able to generalize both groups, suggesting that the perceptual bias that makes phonotactic constraints on natural classes easier to learn is likely the effect of experience.
  • Cristia, A., Seidl, A., & Francis, A. L. (2011). Phonological features in infancy. In G. N. Clements, & R. Ridouane (Eds.), Where do phonological contrasts come from? Cognitive, physical and developmental bases of phonological features (pp. 303-326). Amsterdam: Benjamins.

    Abstract

    Features serve two main functions in the phonology of languages: they encode the distinction between pairs of contrastive phonemes (distinctive function); and they delimit sets of sounds that participate in phonological processes and patterns (classificatory function). We summarize evidence from a variety of experimental paradigms bearing on the functional relevance of phonological features. This research shows that while young infants may use abstract phonological features to learn sound patterns, this ability becomes more constrained with development and experience. Furthermore, given the lack of overlap between the ability to learn a pair of words differing in a single feature and the ability to learn sound patterns based on features, we argue for the separation of the distinctive and the classificatory function.
  • Cristia, A., & Seidl, A. (2011). Sensitivity to prosody at 6 months predicts vocabulary at 24 months. In N. Danis, K. Mesh, & H. Sung (Eds.), BUCLD 35: Proceedings of the 35th annual Boston University Conference on Language Development (pp. 145-156). Somerville, Mass: Cascadilla Press.
  • Cristia, A., Mielke, J., Daland, R., & Peperkamp, S. (2013). Similarity in the generalization of implicitly learned sound patterns. Journal of Laboratory Phonology, 4(2), 259-285.

    Abstract

    A core property of language is the ability to generalize beyond observed examples. In two experiments, we explore how listeners generalize implicitly learned sound patterns to new nonwords and to new sounds, with the goal of shedding light on how similarity affects treatment of potential generalization targets. During the exposure phase, listeners heard nonwords whose onset consonant was restricted to a subset of a natural class (e.g., /d g v z Z/). During the test phase, listeners were presented with new nonwords and asked to judge how frequently they had been presented before; some of the test items began with a consonant from the exposure set (e.g., /d/), and some began with novel consonants with varying relations to the exposure set (e.g., /b/, which is highly similar to all onsets in the training set; /t/, which is highly similar to one of the training onsets; and /p/, which is less similar than the other two). The exposure onset was rated most frequent, indicating that participants encoded onset attestation in the exposure set, and generalized it to new nonwords. Participants also rated novel consonants as somewhat frequent, indicating generalization to onsets that did not occur in the exposure phase. While generalization could be accounted for in terms of featural distance, it was insensitive to natural class structure. Generalization to new sounds was predicted better by models requiring prior linguistic knowledge (either traditional distinctive features or articulatory phonetic information) than by a model based on a linguistically naïve measure of acoustic similarity.

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