Menu
 
Research menu
Jump to menu

Publications:  Prof David Clayton

Clayton DF(2019). Learning birdsong by imitation. Science vol. 366, (6461) 33-34.
10.1126/science.aaz1552
Clayton DF, Anreiter I, Aristizabal M, Frankland PW, Binder EB, Citri A(2019). The role of the genome in experience-dependent plasticity: Extending the analogy of the genomic action potential. Proceedings of the National Academy of Sciences201820837-201820837.
10.1073/pnas.1820837116
Lansverk AL, Schroeder KM, London SE, Griffith SC, Clayton DF, Balakrishnan CN(2019). The variability of song variability in zebra finch (Taeniopygia guttata) populations. Royal Society Open Science vol. 6, (5)
10.1098/rsos.190273
Lansverk A, London S, Griffith S, Clayton D, Balakrishnan C(2018). The variability of song variability in wild and domesticated zebra finches Taeniopygia guttata.
10.1101/263913
Bukhari SA, Saul MC, Seward CH, Zhang H, Bensky M, James N, Zhao SD, Chandrasekaran S et al.(2017). Temporal dynamics of neurogenomic plasticity in response to social interactions in male threespined sticklebacks. PLOS Genetics vol. 13, (7) e1006840-e1006840.
10.1371/journal.pgen.1006840
Griffith SC, Crino OL, Andrew SC, Nomano FY, Adkins-Regan E, Alonso-Alvarez C, Bailey IE, Bittner SS et al.(2016). Variation in Reproductive Success Across Captive Populations: Methodological Differences, Potential Biases and Opportunities. Ethology vol. 123, (1) 1-29.
10.1111/eth.12576
STOWELL DF, Gill LF, Clayton D(2016). Detailed temporal structure of communication networks in groups of songbirds. Journal of the Royal Society Interface vol. 13, (119)
10.1098/rsif.2016.0296
Stowell D, Clayton D (2015). Acoustic event detection for multiple overlapping similar sources. 2015 IEEE Workshop on Applications of Signal Processing to Audio and Acoustics (WASPAA). Conference: 2015 IEEE Workshop on Applications of Signal Processing to Audio and Acoustics (WASPAA) from: 18/10/2015 to: 21/10/2015,
10.1109/waspaa.2015.7336885
Mello CV, Clayton DF(2015). The opportunities and challenges of large-scale molecular approaches to songbird neurobiology. Neurosci Biobehav Rev vol. 50, 70-76.
10.1016/j.neubiorev.2014.09.017
Clayton DF, London SE(2014). Advancing avian behavioral neuroendocrinology through genomics. Front Neuroendocrinol vol. 35, (1) 58-71.
10.1016/j.yfrne.2013.09.004
Balakrishnan CN, Mukai M, Gonser RA, Wingfield JC, London SE, Tuttle EM, Clayton DF(2014). Brain transcriptome sequencing and assembly of three songbird model systems for the study of social behavior. PeerJ vol. 2,
10.7717/peerj.396
Lin Y-C, Balakrishnan CN, Clayton DF(2014). Functional genomic analysis and neuroanatomical localization of miR-2954, a song-responsive sex-linked microRNA in the zebra finch. Frontiers in neuroscience vol. 8,
10.3389/fnins.2014.00409
Clayton DF(2013). Genomics of memory and learning in songbirds. Annual Review of Genomics and Human Genetics
10.1146/annurev-genom-090711-163809
Balakrishnan CN, Chapus C, Brewer MS, Clayton DF(2013). Brain transcriptome of the violet-eared waxbill Uraeginthus granatina and recent evolution in the songbird genome. Open Biology vol. 3, (SEP)
10.1098/rsob.130063
Kültz D, Clayton DF, Robinson GE, Albertson C, Carey HV, Cummings ME, Dewar K, Edwards SV et al.(2013). New frontiers for organismal biology. BioScience vol. 63, (6) 464-471.
10.1525/bio.2013.63.6.8
Lee JV, Maclin EL, Low KA, Gratton G, Fabiani M, Clayton DF(2013). Noninvasive diffusive optical imaging of the auditory response to birdsong in the zebra finch. J Comp Physiol A Neuroethol Sens Neural Behav Physiol vol. 199, (3) 227-238.
10.1007/s00359-012-0788-0
Balakrishnan CN, Lin Y-C, London SE, Clayton DF(2012). RNA-seq transcriptome analysis of male and female zebra finch cell lines. Genomics vol. 100, (6) 363-369.
10.1016/j.ygeno.2012.08.002
Stevenson TJ, Replogle K, Drnevich J, Clayton DF, Ball GF(2012). High throughput analysis reveals dissociable gene expression profiles in two independent neural systems involved in the regulation of social behavior. BMC Neuroscience vol. 13, (1)
10.1186/1471-2202-13-126
Drnevich J, Replogle KL, Lovell P, Hahn TP, Johnson F, Mast TG, Nordeen E, Nordeen K et al.(2012). Impact of experience-dependent and -independent factors on gene expression in songbird brain. Proc Natl Acad Sci U S A vol. 109 Suppl 2, 17245-17252.
10.1073/pnas.1200655109
Thompson CK, Meitzen J, Replogle K, Drnevich J, Lent KL, Wissman AM, Farin FM, Bammler TK et al.(2012). Seasonal changes in patterns of gene expression in avian song control brain regions. PLoS ONE vol. 7, (4)
10.1371/journal.pone.0035119
Amaya KR, Sweedler JV, Clayton DF(2011). Small molecule analysis and imaging of fatty acids in the zebra finch song system using time-of-flight-secondary ion mass spectrometry. J Neurochem vol. 118, (4) 499-511.
10.1111/j.1471-4159.2011.07274.x
Janes DE, Chapus C, Gondo Y, Clayton DF, Sinha S, Blatti CA, Organ CL, Fujita MK et al.(2011). Reptiles and mammals have differentially retained long conserved noncoding sequences from the amniote ancestor. Genome Biology and Evolution vol. 3, (1) 102-113.
10.1093/gbe/evq087
Gunaratne PH, Lin YC, Benham AL, Drnevich J, Coarfa C, Tennakoon JB, Creighton CJ, Kim JH et al.(2011). Song exposure regulates known and novel microRNAs in the zebra finch auditory forebrain. BMC Genomics vol. 12,
10.1186/1471-2164-12-277
Balakrishnan CN, Edwards SV, Clayton DF(2010). The Zebra Finch genome and avian genomics in the wild. Emu vol. 110, (3) 233-241.
10.1071/MU09087
London SE, Clayton DF(2010). The neurobiology of Zebra Finch song: Insights from gene expression studies. Emu vol. 110, (3) 219-232.
10.1071/MU09079
Nam K, Mugal C, Nabholz B, Schielzeth H, Wolf JBW, Backström N, Künstner A, Balakrishnan CN et al.(2010). Molecular evolution of genes in avian genomes. Genome Biology vol. 11, (6)
10.1186/gb-2010-11-6-r68
London SE, Clayton DF(2010). Genomic and neural analysis of the estradiol-synthetic pathway in the zebra finch. BMC Neurosci vol. 11,
10.1186/1471-2202-11-46
Itoh Y, Replogle K, Kim YH, Wade J, Clayton DF, Arnold AP(2010). Sex bias and dosage compensation in the zebra finch versus chicken genomes: General and specialized patterns among birds. Genome Research vol. 20, (4) 512-518.
10.1101/gr.102343.109
Xie F, London SE, Southey BR, Annangudi SP, Amare A, Rodriguez-Zas SL, Clayton DF, Sweedler JV(2010). The zebra finch neuropeptidome: prediction, detection and expression. BMC Biol vol. 8,
10.1186/1741-7007-8-28
Mukai M, Replogle K, Drnevich J, Wang G, Wacker D, Band M, Clayton DF, Wingfield JC(2009). Seasonal differences of gene expression profiles in song sparrow (melospiza melodia) hypothalamus in relation to territorial aggression. PLoS ONE vol. 4, (12)
10.1371/journal.pone.0008182
Clayton DF, Balakrishnan CN, London SE(2009). Integrating genomes, brain and behavior in the study of songbirds. Curr Biol vol. 19, (18) R865-R873.
10.1016/j.cub.2009.07.006
Dong S, Clayton DF(2009). Habituation in songbirds. Neurobiol Learn Mem vol. 92, (2) 183-188.
10.1016/j.nlm.2008.09.009
Rankin CH, Abrams T, Barry RJ, Bhatnagar S, Clayton DF, Colombo J, Coppola G, Geyer MA et al. (2009). Habituation revisited: An updated and revised description of the behavioral characteristics of habituation. NEUROBIOLOGY OF LEARNING AND MEMORY. vol. 92, 135-138.
10.1016/j.nlm.2008.09.012
Dong S, Replogle KL, Hasadsri L, Imai BS, Yau PM, Rodriguez-Zas S, Southey BR, Sweedler JV et al.(2009). Discrete molecular states in the brain accompany changing responses to a vocal signal. Proc Natl Acad Sci U S A vol. 106, (27) 11364-11369.
10.1073/pnas.0812998106
London SE, Dong S, Replogle K, Clayton DF(2009). Developmental shifts in gene expression in the auditory forebrain during the sensitive period for song learning. Dev Neurobiol vol. 69, (7) 437-450.
10.1002/dneu.20719
Tomaszycki ML, Peabody C, Replogle K, Clayton DF, Tempelman RJ, Wade J(2009). Sexual differentiation of the zebra finch song system: Potential roles for sex chromosome genes. BMC Neuroscience vol. 10,
10.1186/1471-2202-10-24
Mukai M, Replogle K, Wang G, Wacker D, Clayton D, Wingfield JC(2009). Effect of season and territorial aggression on hypothalamic gene expression in song sparrows. INTEGRATIVE AND COMPARATIVE BIOLOGY vol. 49, E120-E120.
Winograd C, Clayton D, Ceman S(2008). Expression of fragile X mental retardation protein within the vocal control system of developing and adult male zebra finches. Neuroscience vol. 157, (1) 132-142.
10.1016/j.neuroscience.2008.09.005
Robinson GE, Fernald RD, Clayton DF(2008). Genes and social behavior. Science vol. 322, (5903) 896-900.
10.1126/science.1159277
Lovell PV, Clayton DF, Replogle KL, Mello CV(2008). Birdsong "transcriptomics": Neurochemical specializations of the oscine song system. PLoS ONE vol. 3, (10)
10.1371/journal.pone.0003440
Dong S, Clayton DF(2008). Partial dissociation of molecular and behavioral measures of song habituation in adult zebra finches. Genes Brain Behav vol. 7, (7) 802-809.
10.1111/j.1601-183X.2008.00423.x
Axelsson E, Hultin-Rosenberg L, Brandström M, Zwahlén M, Clayton DF, Ellegren H(2008). Natural selection in avian protein-coding genes expressed in brain. Molecular Ecology vol. 17, (12) 3008-3017.
10.1111/j.1365-294X.2008.03795.x
London SE, Clayton DF(2008). Functional identification of sensory mechanisms required for developmental song learning. Nat Neurosci vol. 11, (5) 579-586.
10.1038/nn.2103
Naurin S, Bensch S, Hansson B, Johansson T, Clayton DF, Albrekt AS, Von Schantz T, Hasselquist D(2008). A microarray for large-scale genomic and transcriptional analyses of the zebra finch (Taeniopygia guttata) and other passerines. Molecular Ecology Resources vol. 8, (2) 275-281.
10.1111/j.1471-8286.2007.01979.x
Naurin S, Bensch S, Hansson B, Johansson T, Clayton DF, Albrekt A-S, VON Schantz T, Hasselquist D(2008). TECHNICAL ADVANCES: A microarray for large-scale genomic and transcriptional analyses of the zebra finch (Taeniopygia guttata) and other passerines. Mol Ecol Resour vol. 8, (2) 275-281.
10.1111/j.1471-8286.2007.01979.x
Clayton DF, Arnold AP(2008). Studies of songbirds in the age of genetics: What to expect from genomic approaches in the next 20 years. Neuroscience of Birdsong, Editors: Zeigler, HP, Marler, P, Cambridge University Press (Cambridge),
Clayton DF(2007). Molecular neurobiology of bird song. 373-417.
10.1007/978-0-387-30405-2_9
Sloley S, Smith S, Gandhi S, Caldwell Busby JA, London S, Luksch H, Clayton DF, Bhattacharya SK(2007). Proteomic analyses of zebra finch optic tectum and comparative histochemistry. Journal of Proteome Research vol. 6, (6) 2341-2350.
10.1021/pr070126w
Itoh Y, Melamed E, Yang X, Kampf K, Wang S, Yehya N, Van Nas A, Replogle K et al.(2007). Dosage compensation is less effective in birds than in mammals. Journal of Biology vol. 6, (1)
10.1186/jbiol53
Sloley S, Smith S, Algeciras M, Cavett V, Caldwell Busby JA, London S, Clayton DF, Bhattacharya SK(2007). Proteomic analyses of songbird (Zebra finch; Taeniopygia guttata) retina. Journal of Proteome Research vol. 6, (3) 1093-1100.
10.1021/pr060428i
Amaya KR, Monroe EB, Sweedler JV, Clayton DF(2007). Lipid imaging in the zebra finch brain with secondary ion mass spectrometry. International Journal of Mass Spectrometry vol. 260, (2-3) 121-127.
10.1016/j.ijms.2006.09.032
Huesmann GR, Clayton DF(2006). Dynamic role of postsynaptic caspase-3 and BIRC4 in zebra finch song-response habituation. Neuron vol. 52, (6) 1061-1072.
10.1016/j.neuron.2006.10.033
Wade J, Peabody C, Coussens P, Tempelman RJ, Clayton DF, Liu L, Arnold AP, Agate R(2005). A cDNA microarray from the telencephalon of juvenile male and female zebra finches (vol 138, pg 199, 2004). JOURNAL OF NEUROSCIENCE METHODS vol. 142, (2) 327-327.
10.1016/j.jneumeth.2005.01.010
Clayton DF, Arnold AP, Warren W, Dodgson J (2005). Proposal for Construction of a Physical Map of the Genome of the Zebra Finch (Taeniopygia guttata).
Clayton DF, Arnold AP, Warren W, Jarvis E, Burt DW, Ellegren H (2005). Proposal to Sequence the Genome of the Zebra Finch (Taeniopygia guttata).
Wade J, Peabody C, Coussens P, Tempelman RJ, Clayton DF, Liu L, Arnold AP, Agate R(2004). A cDNA microarray from the telencephalon of juvenile male and female zebra finches. Journal of Neuroscience Methods vol. 138, (1-2) 199-206.
10.1016/j.jneumeth.2004.04.007
Kruse AA, Stripling R, Clayton DF(2004). Context-specific habituation of the zenk gene response to song in adult zebra finches. Neurobiol Learn Mem vol. 82, (2) 99-108.
10.1016/j.nlm.2004.05.001
Cheng H-Y, Clayton DF(2004). Activation and habituation of extracellular signal-regulated kinase phosphorylation in zebra finch auditory forebrain during song presentation. J Neurosci vol. 24, (34) 7503-7513.
10.1523/JNEUROSCI.1405-04.2004
Clayton DF(2004). Songbird genomics: methods, mechanisms, opportunities, and pitfalls. Ann N Y Acad Sci vol. 1016, 45-60.
10.1196/annals.1298.028
Clayton DF(2003). A memoir on memory. Cell vol. 111,
Stripling R, Milewski L, Kruse AA, Clayton DF(2003). Rapidly learned song-discrimination without behavioral reinforcement in adult male zebra finches (Taeniopygia guttata). Neurobiol Learn Mem vol. 79, (1) 41-50.
10.1016/S1074-7427(02)00005-9
Park KHJ, Clayton DF(2002). Influence of restraint and acute isolation on the selectivity of the adult zebra finch zenk gene response to acoustic stimuli. Behav Brain Res vol. 136, (1) 185-191.
10.1016/s0166-4328(02)00129-8
Arnold AP, Clayton DF (2002). Proposal for Construction of a BAC library of the Genome of the Zebra Finch (Taeniopygia guttata).
Stripling R, Kruse AA, Clayton DF(2001). Development of song responses in the zebra finch caudomedial neostriatum: role of genomic and electrophysiological activities. J Neurobiol vol. 48, (3) 163-180.
10.1002/neu.1049
Hartman VN, Miller MA, Clayton DF, Liu WC, Kroodsma DE, Brenowitz EA(2001). Testosterone regulates α-synuclein mRNA in the avian song system. NeuroReport vol. 12, (5) 943-946.
10.1097/00001756-200104170-00016
Holloway CC, Clayton DF(2001). Estrogen synthesis in the male brain triggers development of the avian song control pathway in vitro. Nat Neurosci vol. 4, (2) 170-175.
10.1038/84001
Kruse AA, Stripling R, Clayton DF(2000). Minimal experience required for immediate-early gene induction in zebra finch neostriatum. Neurobiol Learn Mem vol. 74, (3) 179-184.
10.1006/nlme.2000.3968
Clayton DF(2000). The genomic action potential. Neurobiol Learn Mem vol. 74, (3) 185-216.
10.1006/nlme.2000.3967
Clayton DF(2000). Neural basis of avian song learning and perception. Brain, Perception, Memory: Advances in Cognitive Neuroscience, Editors: Bolhuis, J, Oxford Univ. Press (London),
Irizarry MC, Growdon W, Gomez-Isla T, Newell K, Ingraham A, George J, Clayton D, Hyman BT(1998). alpha-synuclein immunoreactivity in Lewy bodies and abnormal neurites in Parkinson's disease and dementia with Lewy body brain. JOURNAL OF NEUROPATHOLOGY AND EXPERIMENTAL NEUROLOGY vol. 57, (5) 509-509.
10.1097/00005072-199805000-00180
George JM, Clayton DF(1998). Songbirds, synelfin and neurodegenerative disease. Neuroscience News vol. 1, (2) 12-17.
Jin H, Clayton DF(1997). Localized changes in immediate-early gene regulation during sensory and motor learning in zebra finches. Neuron vol. 19, (5) 1049-1059.
10.1016/s0896-6273(00)80396-7
Clayton DF(1997). Role of gene regulation in song circuit development and song learning. J Neurobiol vol. 33, (5) 549-571.
10.1002/(SICI)1097-4695(19971105)33:5<549::AID-NEU5>3.0.CO;2-4
Jin H, Clayton DF(1997). Synelfin regulation during the critical period for song learning in normal and isolated juvenile zebra finches. Neurobiol Learn Mem vol. 68, (3) 271-284.
10.1006/nlme.1997.3795
Stripling R, Volman SF, Clayton DF(1997). Response modulation in the zebra finch neostriatum: relationship to nuclear gene regulation. J Neurosci vol. 17, (10) 3883-3893.
10.1523/jneurosci.17-10-03883.1997
George JM, Clayton DF (1996). The non-amyloid-beta component of Alzheimer's disease plaque amyloid: Comparative analysis suggests a normal function as a synaptic plasticizer. NEURODEGENERATIVE DISEASES. 109-112.
Mello C, Nottebohm F, Clayton D(1995). Repeated exposure to one song leads to a rapid and persistent decline in an immediate early gene's response to that song in zebra finch telencephalon. J Neurosci vol. 15, (10) 6919-6925.
10.1523/jneurosci.15-10-06919.1995
Nastiuk KL, Clayton DF(1995). The canary androgen receptor mRNA is localized in the song control nuclei of the brain and is rapidly regulated by testosterone. J Neurobiol vol. 26, (2) 213-224.
10.1002/neu.480260206
Mello CV, Clayton DF(1995). Differential induction of the ZENK gene in the avian forebrain and song control circuit after metrazole-induced depolarization. J Neurobiol vol. 26, (1) 145-161.
10.1002/neu.480260112
Mello CV, Clayton DF(1994). Song-induced ZENK gene expression in auditory pathways of songbird brain and its relation to the song control system. Journal of Neuroscience vol. 14, (11 I) 6652-6666.
Mello CV, Clayton DF(1994). Song-induced ZENK gene expression in auditory pathways of songbird brain and its relation to the song control system. J Neurosci vol. 14, (11 Pt 1) 6652-6666.
10.1523/jneurosci.14-11-06652.1994
Nastiuk KL, Clayton DF(1994). Seasonal and tissue-specific regulation of canary androgen receptor messenger ribonucleic acid. Endocrinology vol. 134, (2) 640-649.
10.1210/endo.134.2.8299561
Alvarez-Buylla A, Clayton DF(1993). Application of PEG sections for in situ hybridization studies. Polyethylene Glycol as an Embedding Medium for Microscopy and Histochemistry, CRC Press (Boca Raton, FL),
Mello CV, Vicario DS, Clayton DF(1992). Song presentation induces gene expression in the songbird forebrain. Proc Natl Acad Sci U S A vol. 89, (15) 6818-6822.
10.1073/pnas.89.15.6818
Collum RG, Clayton DF, Alt FW(1991). Structure and expression of canary myc family genes. Molecular and Cellular Biology vol. 11, 1770-1776.
10.1128/mcb.11.3.1770
Clayton DF, Huecas M(1990). Forebrain-enriched RNAs of the canary: a population analysis using hybridization kinetics. Brain Res Mol Brain Res vol. 7, (1) 23-30.
10.1016/0169-328x(90)90069-p
Clayton DF, Alvarez-Buylla A(1989). In situ hybridization using PEG-embedded tissue and riboprobes: increased cellular detail coupled with high sensitivity. J Histochem Cytochem vol. 37, (3) 389-393.
10.1177/37.3.2918223
Clayton DF, Huecas ME, Sinclair-Thompson EY, Nastiuk KL, Nottebohm F(1988). Probes for rare mRNAs reveal distributed cell subsets in canary brain. Neuron vol. 1, (3) 249-261.
10.1016/0896-6273(88)90146-8
Allegra P, Sterner R, Clayton DF, Allfrey VG(1987). Affinity chromatographic purification of nucleosomes containing transcriptionally active DNA sequences. J Mol Biol vol. 196, (2) 379-388.
10.1016/0022-2836(87)90698-x
Friedman JM, Babiss LE, Clayton DF, Darnell JE(1986). Cellular promoters incorporated into the adenovirus genome: cell specificity of albumin and immunoglobulin expression. Molecular and Cellular Biology vol. 6, 3791-3797.
10.1128/mcb.6.11.3791
FRIEDMAN JM, BABISS LE, CLAYTON DF, DARNELL JE (1986). REGULATION OF ALBUMIN GENE-EXPRESSION IN DISAGGREGATED HEPATOCYTES. HEPATOLOGY. vol. 6, 1139-1139.
CLAYTON DF (1985). Coordinated control of liver-specific genes in cultured cells of mice and rats.
Clayton DF, Harrelson AL, Darnell JE(1985). Dependence of liver-specific transcription on tissue organization. Molecular and Cellular Biology vol. 5, (10) 2623-2632.
10.1128/MCB.5.10.2623
Narita M, Jefferson DM, Fujita M, Miller EJ, Clayton DF, Rosenberg LC, Reid L(1985). Hormonal and matrix regulation of differentiation in primary liver cultures. Growth and Differentiation of Cells in Defined Environments, Editors: Murakami, H, Yamane, I, Barnes, DW, Mather, JP et al., Springer-Verlag (New York),
Clayton DF, Weiss M, Darnell JE(1985). Liver-specific rna metabolism in hepatoma cells: variations in transcription rates and mrna levels. Molecular and Cellular Biology vol. 5, (10) 2633-2641.
10.1128/MCB.5.10.2633
Darnell JE, Clayton DF, Friedman JM, Powell DJ(1985). Notes on tissue-specific gene control. Genetics, Cell Differentiation and Cancer, Academic Press (New York),
Jefferson DM, Clayton DF, Darnell JEJ, Reid LM(1984). Posttranscriptional modulation of gene expression in cultured rat hepatocytes. Mol Cell Biol vol. 4, (9) 1929-1934.
10.1128/mcb.4.9.1929
Darnell JE, Salditt-Georgieff ME, Clayton DF, Krauter KS, Citron BA, Powell DJ, Hofer E(1984). Transcriptional control of beta-globin and liver-specific genes in mouse cells. Transfer and Expression of Eukaryotic Genes, Academic Press, Inc (New York),
CLAYTON DF, Darnell Jr JE(1983). Changes in liver-specific compared to common gene transcription during primary culture of mouse hepatocytes. Molecular and Cellular Biology vol. 3, 1552-1561.
10.1128/mcb.3.9.1552
JEFFERSON DM, CLAYTON DF, DARNELL JE, REID LM (1983). MAINTENANCE OF DIFFERENTIATED FUNCTION IN CULTURED-HEPATOCYTES BY MESSENGER-RNA STABILIZATION. JOURNAL OF CELL BIOLOGY. vol. 97, A141-A141.
Return to top