Select Publications


Deakin JE; Waters PD; Graves JAM, 2010, Marsupial genetics and genomics,

Waters PD, 2010, Part IV: Marsupial sex chromosomes,

Waters PD, 2010, Part V: Marsupial epigenetics,

Waters PD; Deakin JE, 2010, Part VIII: Marsupial genes and gene evolution,

Deakin JE; Waters PD; Graves JAM, 2010, Preface,

Book Chapters

Lister NC; Johnsson P; Waters PD; Morris KV, 2021, 'Pseudogenes: A Novel Source of Trans-Acting Antisense RNAs', in Methods in Molecular Biology, United States, pp. 219 - 236,

McIntyre K; Waters S; Waters P, 2018, 'Sex Chromosomes', in Skinner MK (ed.), Encyclopedia of Reproduction, edn. 2, Academic Press, pp. 238 - 244,

Waters PD; Robinson TJ, 2013, 'Evolution of the Mammalian X Chromosome', in , Wiley,

Murtagh VJ; Waters PD; Marshall Graves JA, 2010, 'Compact but complex - The marsupial Y chromosome', in Marsupial Genetics and Genomics, pp. 207 - 228,

Al Nadaf S; Waters PD; Deakin JE; Graves JAM, 2010, 'Marsupial genetics reveals insights into evolution of mammalian X chromosome inactivation', in Marsupial Genetics and Genomics, pp. 259 - 280,

Journal articles

Marín-Gual L; González-Rodelas L; Pujol G; Vara C; Martín-Ruiz M; Berríos S; Fernández-Donoso R; Pask A; Renfree MB; Page J; Waters PD; Ruiz-Herrera A, 2022, 'Strategies for meiotic sex chromosome dynamics and telomeric elongation in Marsupials', PLoS Genetics, vol. 18, pp. e1010040,

Ruiz-Herrera A; Waters PD, 2022, 'Fragile, unfaithful and persistent Ys—on how meiosis can shape sex chromosome evolution', Heredity,

Youngson NA; Castino MR; Stuart A; Kershaw KA; Holmes NM; Heffernan EC; Waters PD; Morris KV; Clemens KJ, 2022, 'A role for a novel natural antisense-BDNF in the maintenance of nicotine-seeking', Addiction Neuroscience, vol. 2, pp. 100010 - 100010,

Lister NC; Milton AM; Hanrahan BJ; Waters PD, 2021, 'Between the devil and the deep blue sea: Non-coding rnas associated with transmissible cancers in tasmanian devil, domestic dog and bivalves', Non-coding RNA, vol. 7, pp. 72 - 72,

Waters PD; Patel HR; Ruiz-Herrera A; Alvarez-Gonzalez L; Lister NC; Simakov O; Ezaz T; Kaur P; Frere C; Grutzner F; Georges A; Marshall Graves JA, 2021, 'Microchromosomes are building blocks of bird, reptile, and mammal chromosomes', Proceedings of the National Academy of Sciences of the United States of America, vol. 118,

Harding EF; Russo AG; Yan GJH; Waters PD; White PA, 2021, 'Ancient viral integrations in marsupials: A potential antiviral defence', Virus Evolution, vol. 7, pp. veab076,

Sarma RR; Edwards RJ; Crino OL; Eyck HJF; Waters PD; Crossland MR; Shine R; Rollins LA, 2020, 'Do epigenetic changes drive corticosterone responses to alarm cues in larvae of an invasive Amphibian?', Integrative and Comparative Biology, vol. 60, pp. 1481 - 1494,

Capraro A; O‘Meally D; Waters SA; Patel HR; Georges A; Waters PD, 2020, 'MicroRNA dynamics during hibernation of the Australian central bearded dragon (Pogona vitticeps)', Scientific Reports, vol. 10,

Waters PD; Ruiz-Herrera A, 2020, 'Meiotic Executioner Genes Protect the Y from Extinction', Trends in Genetics, vol. 36, pp. 728 - 738,

Vara C; Paytuví-Gallart A; Cuartero Y; Le Dily F; Garcia F; Salvà-Castro J; Gómez-H L; Julià E; Moutinho C; Aiese Cigliano R; Sanseverino W; Fornas O; Pendás AM; Heyn H; Waters PD; Marti-Renom MA; Ruiz-Herrera A, 2019, 'Three-Dimensional Genomic Structure and Cohesin Occupancy Correlate with Transcriptional Activity during Spermatogenesis', Cell Reports, vol. 28, pp. 352 - 367.e9,

Waters S; Waters P; Capraro A, 2019, 'Waking the sleeping dragon: gene expression profiling reveals adaptive strategies of the hibernating reptile Pogona vitticeps', BMC Genomics,

Sprague D; Waters SA; Kirk JM; Wang JR; Samollow PB; Waters PD; Calabrese JM, 2019, 'Nonlinear sequence similarity between the Xist and Rsx long noncoding RNAs suggests shared functions of tandem repeat domains', RNA, vol. 25, pp. 1004 - 1019,

Johnson RN; O’Meally D; Chen Z; Etherington GJ; Ho SYW; Nash WJ; Grueber CE; Cheng Y; Whittington CM; Dennison S; Peel E; Haerty W; O’Neill RJ; Colgan D; Russell TL; Alquezar-Planas DE; Attenbrow V; Bragg JG; Brandies PA; Chong AYY; Deakin JE; Di Palma F; Duda Z; Eldridge MDB; Ewart KM; Hogg CJ; Frankham GJ; Georges A; Gillett AK; Govendir M; Greenwood AD; Hayakawa T; Helgen KM; Hobbs M; Holleley CE; Heider TN; Jones EA; King A; Madden D; Graves JAM; Morris KM; Neaves LE; Patel HR; Polkinghorne A; Renfree MB; Robin C; Salinas R; Tsangaras K; Waters PD; Waters SA; Wright B; Wilkins MR; Timms P; Belov K, 2018, 'Adaptation and conservation insights from the koala genome', Nature Genetics, vol. 50, pp. 1102 - 1111,

Waters SA; Capraro A; McIntyre KL; Graves JAM; Waters PD, 2018, 'The methylome of vertebrate sex chromosomes', Genes, vol. 9,

Waters SA; Livernois AM; Patel H; O’Meally D; Craig JM; Marshall Graves JA; Suter CM; Waters PD, 2018, 'Landscape of DNA methylation on the marsupial x', Molecular Biology and Evolution, vol. 35, pp. 431 - 439,

Waters PD, 2017, 'Fragile Y Chromosomes (retrospective on DOI 10.1002/bies.201500040)', BioEssays, vol. 39,

Deveson IW; Holleley CE; Blackburn J; Marshall Graves JA; Mattick JS; Waters PD; Georges A, 2017, 'Differential intron retention in Jumonji chromatin modifier genes is implicated in reptile temperature-dependent sex determination', Science Advances, vol. 3,

Munroe SH; Morales CH; Duyck TH; Waters PD, 2015, 'Evolution of the antisense overlap between genes for thyroid hormone receptor and rev-erbα and characterization of an exonic G-rich element that regulates splicing of TRα2 mRNA', PLoS ONE, vol. 10,

Waters PD, 2015, 'The loss of fragile Y chromosomes (comment on 10.1002/bies.201500040)', BioEssays, vol. 37, pp. 933 - 933,

Mills JD; Chen J; Kim WS; Waters PD; Prabowo AS; Aronica E; Halliday GM; Janitz M, 2015, 'Long intervening non-coding RNA 00320 is human brain-specific and highly expressed in the cortical white matter', Neurogenetics, vol. 16, pp. 201 - 213,

Mills JD; Kavanagh T; Kim WS; Chen BJ; Waters PD; Halliday GM; Janitz M, 2015, 'High expression of long intervening non-coding RNA OLMALINC in the human cortical white matter is associated with regulation of oligodendrocyte maturation', Molecular brain, vol. 8, pp. 2,

Georges A; Li Q; Lian J; O'Meally D; Deakin J; Wang Z; Zhang P; Fujita M; Patel HR; Holleley CE; Zhou Y; Zhang X; Matsubara K; Waters P; Graves JAM; Sarre SD; Zhang G, 2015, 'High-coverage sequencing and annotated assembly of the genome of the Australian dragon lizard Pogona vitticeps', GigaScience, vol. 4,

Waters SA; Waters PD, 2015, 'Imprinted X chromosome inactivation: evolution of mechanisms in distantly related mammals', AIMS GENETICS, vol. 2, pp. 110 - 126,

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, vol. 508, pp. 488 - 493,

Rodríguez-Delgado CL; Waters SA; Waters DP, 2014, 'Paternal X inactivation does not correlate with X chromosome evolutionary strata in marsupials', BMC Evolutionary Biology, vol. 14,

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, vol. 9,

Gilbert C; Waters P; Feschotte C; Schaack S, 2013, 'Horizontal transfer of OC1 transposons in the Tasmanian devil', BMC Genomics, vol. 14,

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, vol. 23, pp. 1486 - 1495,

Livernois AM; Graves JAM; Waters PD, 2012, 'The origin and evolution of vertebrate sex chromosomes and dosage compensation', Heredity, vol. 108, pp. 50 - 58,

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, vol. 12,

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, vol. 6, pp. e19040,

Al Nadaf S; Deakin JE; Gilbert C; Robinson TJ; Graves JA; Waters PD, 2011, 'A cross-species comparison of escape from X inactivation in Eutheria: implications for evolution of X chromosome inactivation.', Chromosoma, vol. 121, pp. 71 - 78,

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, vol. 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, vol. 22, pp. 498 - 507,

Al Nadaf S; Waters PD; Koina E; Deakin JE; Jordan KS; Graves JAM, 2010, 'Activity map of the tammar X chromosome shows that marsupial X inactivation is incomplete and escape is stochastic', Genome Biology, vol. 11,

Mohammadi A; Delbridge ML; Waters PD; Graves JA, 2009, 'Conservation of a chromosome arm in two distantly related marsupial species.', Cytogenetic and Genome Research, vol. 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, vol. 19, pp. 1350 - 1360,

Waters PD; Graves JA, 2009, 'Monotreme sex chromosomes – implications for the evolution of amniote sex chromosomes', Reproduction Fertility and Development, vol. 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, vol. 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, vol. 17, pp. 965 - 973,

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