By Associate Professor Paul Waters

Journal articles

Cortez D; Marin R; Toledo-Flores D; Froidevaux L; Liechti A; Waters PD; Grützner F; Kaessmann H, 2014, 'Origins and functional evolution of y chromosomes across mammals', Nature, 508, pp. 488 - 493, http://dx.doi.org/10.1038/nature13151

Rodríguez-Delgado CL; Waters SA; Waters DP; Waters P, 2014, 'Paternal X inactivation does not correlate with X chromosome evolutionary strata in marsupials', BMC Evolutionary Biology, 14, pp. 267, http://dx.doi.org/10.1186/s12862-014-0267-z

Livernois AM; Waters SA; Deakin JE; Marshall Graves JA; Waters PD, 2013, 'Independent Evolution of Transcriptional Inactivation on Sex Chromosomes in Birds and Mammals', PLoS Genetics, 9, pp. e1003635, http://dx.doi.org/10.1371/journal.pgen.1003635

Gilbert C; Waters P; Feschotte C; Schaack S, 2013, 'Horizontal transfer of OC1 transposons in the Tasmanian devil', BMC Genomics, 14, http://dx.doi.org/10.1186/1471-2164-14-134

Li G; Davis BW; Raudsepp T; Wilkerson AJP; Mason VC; Ferguson-Smith M; O'Brien PC; Waters PD; Murphy WJ, 2013, 'Comparative analysis of mammalian y chromosomes illuminates ancestral structure and lineage-specific evolution', Genome Research, 23, pp. 1486 - 1495, http://dx.doi.org/10.1101/gr.154286.112

Livernois AM; Graves JAM; Waters PD, 2012, 'The origin and evolution of vertebrate sex chromosomes and dosage compensation', Heredity, 108, pp. 50 - 58, http://dx.doi.org/10.1038/hdy.2011.106

Renfree MB; Papenfuss AT; Deakin JE; Lindsay J; Heider T; Belov K; Rens W; Waters PD; Pharo EA; Shaw G; Wong ESW; Lefèvre CM; Nicholas KR; Kuroki Y; Wakefield MJ; Zenger KR; Wang C; Ferguson-Smith M; Nicholas FW; Hickford D; Yu H; Short KR; Siddle HV; Frankenberg SR; Chew KY; Menzies BR; Stringer JM; Suzuki S; Hore TA; Delbridge ML; Mohammadi A; Schneider NY; Hu Y; O'Hara W; Al Nadaf S; Wu C; Feng ZP; Cocks BG; Wang J; Flicek P; Searle SMJ; Fairley S; Beal K; Herrero J; Carone DM; Suzuki Y; Sugano S; Toyoda A; Sakaki Y; Kondo S; Nishida Y; Tatsumoto S; Mandiou I; Hsu A; McColl KA; Lansdell B; Weinstock G; Kuczek E; McGrath A; Wilson P; Men A; Hazar-Rethinam M; Hall A; Davis J; Wood D; Williams S; Sundaravadanam Y; Muzny DM; Jhangiani SN; Lewis LR; Morgan MB; Okwuonu GO; Ruiz SJ; Santibanez J; Nazareth L; Cree A; Fowler G; Kovar CL; Dinh HH; Joshi V; Jing C; Lara F; Thornton R; Chen L; Deng J; Liu Y; Shen JY; Song XZ; Edson J; Troon C; Thomas D; Stephens A; Yapa L; Levchenko T; Gibbs RA; Cooper DW; Speed TP; Fujiyama A; M Graves JA; O'Neill RJ, 2011, 'Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development', Genome Biology, 12, pp. 414, http://dx.doi.org/10.1186/gb-2011-12-8-r81

Chaumeil J; Waters PD; Koina E; Gilbert C; Robinson TJ; Graves JAM, 2011, 'Evolution from XIST-independent to XIST-controlled X-chromosome inactivation: Epigenetic modifications in distantly related mammals', PLoS ONE, 6, http://dx.doi.org/10.1371/journal.pone.0019040

Al Nadaf S; Deakin JE; Gilbert C; Robinson TJ; Graves JA; Waters PD; Waters P, 2011, 'A cross-species comparison of escape from X inactivation in Eutheria: implications for evolution of X chromosome inactivation.', Chromosoma, 121, pp. 71 - 78, http://dx.doi.org/10.1007/s00412-011-0343-8

Badenhorst D; Dobigny G; Adega F; Chaves R; O''Brien PCM; Ferguson-smith MA; Waters PD; Robinson TJ, 2011, 'Chromosomal evolution in Rattini (Muridae,Rodentia)', Chromosome Research, 19, pp. 709 - 727

Murtagh V; O''Meally D; Sankovic N; Delbridge ML; Kuroki Y; Boore JL; Toyoda A; Jordan KS; Pask AJ; Renfree MB; Fujiyama A; Graves JA; Waters PD, 2011, 'Evolutionary history of novel genes on the tammar wallaby Y chromosome: Implications for sex chromosome evolution', Genome Research, 22, pp. 498 - 507

Al Nadaf S; Waters PD; Koina E; Deakin JE; Jordan KS; Graves JAM; Waters P, 2010, 'Activity map of the tammar X chromosome shows that marsupial X inactivation is incomplete and escape is stochastic', Genome Biology, 11, pp. r122, http://dx.doi.org/10.1186/gb-2010-11-12-r122

Mohammadi A; Delbridge ML; Waters PD; Graves JA, 2009, 'Conservation of a chromosome arm in two distantly related marsupial species.', Cytogenetic and Genome Research, 124, pp. 147 - 150

Delbridge ML; Patel HR; Waters PD; Mcmillan DA; Graves JA, 2009, 'Does the human X contain a third evolutionary block? Origin of genes on human Xp11 and Xq28.', Genome Research, 19, pp. 1350 - 1360

Waters PD; Graves JA, 2009, 'Monotreme sex chromosomes – implications for the evolution of amniote sex chromosomes', Reproduction Fertility and Development, 21, pp. 943 - 951

Delgado CL; Waters PD; Gilbert C; Robinson TJ; Graves JA, 2009, 'Physical mapping of the elephant X chromosome: conservation of gene order over 105 million years.', Chromosome Research, 17, pp. 917 - 926

Ezaz T; Moritz B; Waters PD; Graves JA; Georges A; Sarre SD, 2009, 'The ZW sex microchromosomes of an Australian dragon lizard share no homology with those of other reptiles or birds', Chromosome Research, 17, pp. 965 - 973

Gilbert C; Pace JK; Waters PD, 2008, 'Target site analysis of RTE1_LA and its AfroSINE partner in the elephant genome', Gene, 425, pp. 1 - 8, http://dx.doi.org/10.1016/j.gene.2008.08.013

Waters PD; Robinson TJ, 2008, 'Evolution of the MammalianXChromosome', , http://dx.doi.org/10.1002/9780470015902.a0020739

Warren WC; Hillier LDW; Marshall Graves JA; Birney E; Ponting CP; Grützner F; Belov K; Miller W; Clarke L; Chinwalla AT; Yang SP; Heger A; Locke DP; Miethke P; Waters PD; Veyrunes F; Fulton L; Fulton B; Graves T; Wallis J; Puente XS; López-Otín C; Ordó̃ez GR; Eichler EE; Chen L; Cheng Z; Deakin JE; Alsop A; Thompson K; Kirby P; Papenfuss AT; Wakefield MJ; Olender T; Lancet D; Huttley GA; Smit AFA; Pask A; Temple-Smith P; Batzer MA; Walker JA; Konkel MK; Harris RS; Whittington CM; Wong ESW; Gemmell NJ; Buschiazzo E; Vargas Jentzsch IM; Merkel A; Schmitz J; Zemann A; Churakov G; Kriegs JO; Brosius J; Murchison EP; Sachidanandam R; Smith C; Hannon GJ; Tsend-Ayush E; McMillan D; Attenborough R; Rens W; Ferguson-Smith M; Lefèvre CM; Sharp JA; Nicholas KR; Ray DA; Kube M; Reinhardt R; Pringle TH; Taylor J; Jones RC; Nixon B; Dacheux JL; Niwa H; Sekita Y; Huang X; Stark A; Kheradpour P; Kellis M; Flicek P; Chen Y; Webber C; Hardison R; Nelson J; Hallsworth-Pepin K; Delehaunty K; Markovic C; Minx P; Feng Y; Kremitzki C; Mitreva M; Glasscock J; Wylie T; Wohldmann P; Thiru P; Nhan MN; Pohl CS; Smith SM; Hou S; Nefedov M, 2008, 'Genome analysis of the platypus reveals unique signatures of evolution (Nature (2008) 453, (175-183))', Nature, 455, pp. 256, http://dx.doi.org/10.1038/nature07253

Waters PD; Marshall Graves JA; Thompson K; Sankovic N; Ezaz T, 2008, 'Identification of cryptic sex chromosomes and isolation of X- and Y-borne genes.', Methods in molecular biology (Clifton, N.J.), 422, pp. 239 - 251, http://dx.doi.org/10.1007/978-1-59745-581-7_15

Waters PD; Dobigny G; Waddell PJ; Robinson TJ, 2008, 'LINE-1 elements: analysis by fluorescence in-situ hybridization and nucleotide sequences.', Methods in molecular biology (Clifton, N.J.), 422, pp. 227 - 237, http://dx.doi.org/10.1007/978-1-59745-581-7_14

Veyrunes F; Waters PD; Miethke P; Rens W; McMillan D; Alsop AE; Grutzner F; Deakin J; Whittington CM; Schatzkamer K; Kremitzki CL; Graves T; Ferguson-smith MA; Warren W; Marshall Graves JA, 2008, 'Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes.', Genome Research, 18, pp. 965 - 973

Deuve JL; Bennett NC; Ruiz-Herrera A; Waters PD; Britton-Davidian J; Robinson TJ, 2008, 'Dissection of a Y-autosome translocation in Cryptomys hottentotus (Rodentia, Bathyergidae) and implications for the evolution of a meiotic sex chromosome chain', Chromosoma, 177, pp. 211 - 217

Warren WC; Hillier LW; Graves JAM; Birney E; Ponting CP; Grutzner F; Belov K; Miller W; Clarke L; Chinwalla AT; Yang SP; Heger A; Locke D; Miethke P; Waters PD; Veyrunes F; Fulton L; Fulton B; Graves T; Wallis J; Puente XS; Lopez-Otin C; Ordonez C; Eichler EE; Chen L; Cheng Z; Deakin J; Alsop A; Thompson K; Kirby P; Papenfuss AT; Wakefield MJ; Olender T; Lancet D; Huttley GA; Smit AFA; Pask A; Temple-Smith P; Batzer MA; Walker JA; Konkel MK; Harris RS; Whittington CM; Wong ESW; Gemmell NJ; Buschiazzo E; Vargas Jentzsch IM; Merkel A; Schmitz J; Zemann A; Churakov G; Kriegs JO; Brosius J; Murchison EP; Sachidanandam R; Smith C; Hannon GJ; Tsend-Ayush E; McMillan D; Attenborough R; Rens W; Ferguson-Smith M; Lefevre CM; Sharp JA; Nicholas KR; Ray DA; Kube M; Reinhardt R; Pringle TH; Taylor J; Jones RC; Nixon B; Dacheux JL; Niwa H; Sekita Y; Huang X; Stark A; Kheradpour P; Kellis M; Flicek P; Chen Y; Webber C; Hardison R; Nelson J; Hallsworth-Pepin K; Delehaunty K; Markovic C; Minx P; Feng Y; Kremitzki C; Mitreva M; Glasscock J; Wylie T; Wohldmann P; Thiru P; Nhan MN; Pohl CS; Smith SM; Hou S; Renfree M; Mardis ER; Wilson RK, 2008, 'Genome analysis of the platypus reveals unique signatures of evolution', Nature, 453, pp. 175 - 184

Deakin J; Koina E; Waters PD; Doherty R; Patel VS; Delbridge ML; Dobson B; Fong J; Hu Y; Hurk C; Pask AJ; Shaw G; Smith C; Thompson K; Wakefield MJ; Yu H; Renfree M; Graves JA, 2008, 'Physical map of two tammar wallaby chromosomes: a strategy for mapping in non-model mammals', Chromosome Research, 16, pp. 1159 - 1175

Wallis MC; Waters PD; Graves JA, 2008, 'Sex determination in mammals-before and after the evolution of SRY', CMLS - Cellular and Molecular Life Sciences, 65, pp. 3182 - 3195

Gilbert C; Pace JK; Waters PD, 2008, 'Target site analysis of RTE1_LA and its AfroSINE partner in the elephant genome', Gene, 425, pp. 1 - 8

Kirby PJ; Greaves IK; Koina E; Waters PD; Marshall Graves JA, 2007, 'CORE-SINE blocks comprise a large fraction of monotreme genomes; implications for vertebrate chromosome evolution.', Chromosome Research, 15, pp. 975 - 984

Waters PD; Dobigny G; Waddell PJ; Robinson TJ, 2007, 'Evolutionary history of LINE-1 in the major clades of placental mammals', PLoS ONE, 2, pp. e158

Mikkelsen TS; Wakefield MJ; Aken B; Amemiya CT; Chang JL; Duke S; Garber M; Gentles AJ; Goodstadt L; Heger A; Jurka J; Kamal M; Mauceli E; Searle SM; Sharpe T; Baker ML; Batzer MA; Benos PV; Belov K; Clamp M; Cook A; Cuff J; Das R; Davidow L; Deakin J; Fazzari MJ; Glass JL; Grabherr M; Greally JM; Gu W; Hore TA; Huttley GA; Kleber M; Jirtle RL; Koina E; Lee JT; Mahony S; Marra MA; Miller RD; Nicholls RD; Oda M; Papenfuss AT; Parra ZE; Pollock DD; Ray DA; Schein JE; Speed TP; Thompson K; Vandeberg JL; Wade CM; Walker JA; Waters PD; Webber C; Weidman JR; Xie X; Zody MC; Graves JA; Ponting CP; Breen M; Samollow PB; Lander ES; Lindblad-Toh K, 2007, 'Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.', Nature, 447, pp. 167 - 177

Waters PD; Wallis MC; Marshall Graves JA, 2007, 'Mammalian sex – origin and evolution of the Y chromosome and SRY', Seminars in Cell and Developmental Biology, 18, pp. 389 - 400

Waters PD; Ruiz-Herrera A; Dobigny G; Garcia Caldes M; Robinson TJ, 2007, 'Sex chromosomes of basal placental mammals', Chromosoma, 116, pp. 511 - 518

Wallis MC; Waters PD; Delbridge ML; Kirby PJ; Pask A; Grutzner F; Rens W; Ferguson-smith MA; Graves JA, 2007, 'Sex determination in platypus and echidna: autosomal location of SOX3 confirms the absence of SRY from monotremes.', Chromosome Research, 15, pp. 949 - 959

Dobigny G; Waters PD; Robinson TJ, 2006, 'Absence of hypomethylation and LINE-1 amplification in a white x black rhinoceros hybrid', Genetica, 127, pp. 81 - 86, http://dx.doi.org/10.1007/s10709-005-2483-3

Waters PD; Delbridge ML; Deakin JE; El-Mogharbel N; Kirby PJ; Carvalho-Silva DR; Marshall Graves JA, 2005, 'Autosomal location of genes from the conserved mammalian X in the platypus (Ornithorhynchus anatinus): Implications for mammalian sex chromosome evolution', Chromosome Research, 13, pp. 401 - 410, http://dx.doi.org/10.1007/s10577-005-0978-5

Dobigny G; Ozouf-Costaz C; Waters PD; Bonillo C; Coutanceau JP; Volobouev V, 2004, 'LINE-1 amplification accompanies explosive genome repatterning in rodents', Chromosome Research, 12, pp. 787 - 793, http://dx.doi.org/10.1007/s10577-005-5265-y

Carvalho-Silva DR; O'Neill RJW; Brown JD; Huynh K; Waters PD; Pask AJ; Delbridge ML; Marshall Graves JA, 2004, 'Molecular characterization and evolution of X and Y-borne ATRX homologues in American marsupials', Chromosome Research, 12, pp. 795 - 804, http://dx.doi.org/10.1007/s10577-005-5376-5

Waters PD; Dobigny G; Pardini AT; Robinson TJ, 2004, 'LINE-1 distribution in Afrotheria and Xenarthra: Implications for understanding the evolution of LINE-1 in eutherian genomes', Chromosoma, 113, pp. 137 - 144, http://dx.doi.org/10.1007/s00412-004-0301-9

Waters PD; Sankovic N; Kirby PJ; Delbridge ML; Graves JA, 2003, 'Assignment of the thymosin beta 4 X/Y chromosome (TMSB4X/Y) gene to tammar wallaby chromosome 5p by fluorescence in situ hybridisation', Cytogenetic and Genome Research, 103, http://dx.doi.org/10.1159/000076317

Waters PD; Kirby PJ; Graves JAM, 2002, 'Assignment of the protocadherin 20 (PCDH20) gene to tammar wallaby chromosome 6q by fluorescence in situ hybridisation', Cytogenetic and Genome Research, 98, http://dx.doi.org/10.1159/000071058

Kirby PJ; Waters PD; Delbridge M; Svartman M; Stewart AN; Nagai K; Graves JAM, 2002, 'Cloning and mapping of platypus SOX2 and SOX14: Insights into SOX group B evolution', Cytogenetic and Genome Research, 98, pp. 96 - 100, http://dx.doi.org/10.1159/000068539

Waters PD; Kirby PJ; Graves JAM, 2001, 'Assignment¹ of the SMARCF1 gene to tammar wallaby chromosome 5q by fluorescence in situ hybridisation', Cytogenetics and Cell Genetics, 93, pp. 315 - 316

Waters PD; Duffy B; Frost CJ; Delbridge ML; Graves JAM, 2001, 'The human Y chromosome derives largely from a single autosomal region added to the sex chromosomes 80-130 million years ago', Cytogenetics and Cell Genetics, 92, pp. 74 - 79, http://dx.doi.org/10.1159/000056872

Conference Papers

Waters PD; Ruiz-Herrera A, 2022, 'The persistent Y hypothesis', in HUMAN REPRODUCTION, OXFORD UNIV PRESS, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000840076000108&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Veyrunes F; Rens W; Waters P; Miethke P; Alsop A; Grutzner F; Deakin J; Ferguson-Smith M; Graves J, 2007, 'Does the platypus sex chromosome system derive from an ancestral bird ZW system?', in CHROMOSOME RESEARCH, SPRINGER, NETHERLANDS, Amsterdam, pp. 72 - 73, presented at 16th International Chromosome Conference (ICC 16), NETHERLANDS, Amsterdam, 25 August 2007 - 29 August 2007, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000249018100177&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Robinson T; Waters P; Ruiz-Herrera A; Dobigny G; Garcia M, 2007, 'Sex chromosomes of basal placental mammals', in CHROMOSOME RESEARCH, SPRINGER, NETHERLANDS, Amsterdam, pp. 75 - 75, presented at 16th International Chromosome Conference (ICC 16), NETHERLANDS, Amsterdam, 25 August 2007 - 29 August 2007, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000249018100183&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Graves JAM; Waters PD, 2001, 'Mammalian sex chromosome evolution - The rise and fall of the Y chromosome', in Schmid M (ed.), CHROMOSOMES TODAY, VOL 14, SPRINGER, GERMANY, Wurzburg, pp. 3 - 14, presented at 14th International Chromosomes Conference, GERMANY, Wurzburg, 04 September 2001 - 08 September 2001, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000221466300001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Conference Abstracts

Eyck HJF; Sarma RR; Crino OL; Waters PD; Crossland M; Shine R; Rollins LA, 2020, 'Corticosterone response to experimental manipulation of methylation in invasive amphibian larvae', in INTEGRATIVE AND COMPARATIVE BIOLOGY, OXFORD UNIV PRESS INC, TX, Austin, Vol. 60, pp. E66 - E66, presented at Annual Meeting of the Society-for-Integrative-and-Comparative-Biology (SICB), TX, Austin, 03 January 2020 - 07 January 2020, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000536432400263&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Working Papers

Youngson NA; Castino MR; Stuart A; Kershaw KA; Holmes NM; Waters PD; Morris KV; Clemens KJ, 2019, A natural antisense to brain-derived neurotrophic factor impairs extinction of drug seeking, Cold Spring Harbor Laboratory, http://dx.doi.org10.1101/851949

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