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Research: Chromosome-wide profiling of X-chromosome inactivation and epigenetic states in fetal brain and placenta of the opossum, Monodelphis domestica
- Xu Wang,
- Kory C. Douglas,
- John L. VandeBerg,
- Andrew G. Clark,
- and Paul B. Samollow
Genome Res. January 2014 24: 70-83; Published in Advance September 24, 2013, doi:10.1101/gr.161919.113
...chromosomes, and expression was exclusively from the inactive (paternal) X chromosome. Our study provides the first comprehensive catalog of parent-of-origin expression status for X-linked genes in a marsupial and sheds light on the regulation and evolution of imprinted XCI in mammals. [Supplemental material...
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Resource: The pig X and Y Chromosomes: structure, sequence, and evolution
- Benjamin M. Skinner,
- Carole A. Sargent,
- Carol Churcher,
- Toby Hunt,
- Javier Herrero,
- Jane E. Loveland,
- Matt Dunn,
- Sandra Louzada,
- Beiyuan Fu,
- William Chow,
- James Gilbert,
- Siobhan Austin-Guest,
- Kathryn Beal,
- Denise Carvalho-Silva,
- William Cheng,
- Daria Gordon,
- Darren Grafham,
- Matt Hardy,
- Jo Harley,
- Heidi Hauser,
- Philip Howden,
- Kerstin Howe,
- Kim Lachani,
- Peter J.I. Ellis,
- Daniel Kelly,
- Giselle Kerry,
- James Kerwin,
- Bee Ling Ng,
- Glen Threadgold,
- Thomas Wileman,
- Jonathan M.D. Wood,
- Fengtang Yang,
- Jen Harrow,
- Nabeel A. Affara,
- and Chris Tyler-Smith
Genome Res. January 2016 26: 130-139; Published in Advance November 11, 2015, doi:10.1101/gr.188839.114
...The pig X and Y Chromosomes: structure, sequence, and evolution Benjamin M. Skinner 1 , 5 , Carole A. Sargent 1 , 5 , Carol Churcher 2 , 5 , 6 , Toby Hunt 2 , Javier Herrero 3 , 4 , Jane E. Loveland 2 , Matt Dunn 2...
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Method: Efficient identification of Y chromosome sequences in the human and Drosophila genomes
- Antonio Bernardo Carvalho and
- Andrew G. Clark
Genome Res. November 2013 23: 1894-1907; Published in Advance August 6, 2013, doi:10.1101/gr.156034.113
...chromosome sequences; due to its high content of repetitive DNA, in most projects, the Y chromosome sequence is fragmented into a large number of small, unmapped scaffolds. Identification of Y-linked genes among these fragments has yielded important insights about the origin and evolution of Y chromosomes...
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LETTER: Complex Events in the Evolution of the Human Pseudoautosomal Region 2 (PAR2)
- Fadi J. Charchar,
- Marta Svartman,
- Nisrine El-Mogharbel,
- Mario Ventura,
- Patrick Kirby,
- Maria R. Matarazzo,
- Alfredo Ciccodicola,
- Mariano Rocchi,
- Maurizio D'Esposito,
- and Jennifer A. Marshall Graves
Genome Res. February 1, 2003 13: 281-286; Published in Advance January 14, 2003, doi:10.1101/gr.390503
..., the cat, and a marsupial, the tammar wallaby. None of the human PAR2 genes colocalized with human PAR1 genes in the marsupial genome, confirming that the human PAR1 and PAR2 evolved independently. Of the four PAR2 genes, only SYBL1 was located on the X chromosome in all species, including marsupials, so...
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Platypus Special/Letter: Defensins and the convergent evolution of platypus and reptile venom genes
- Camilla M. Whittington,
- Anthony T. Papenfuss,
- Paramjit Bansal,
- Allan M. Torres,
- Emily S.W. Wong,
- Janine E. Deakin,
- Tina Graves,
- Amber Alsop,
- Kyriena Schatzkamer,
- Colin Kremitzki,
- Chris P. Ponting,
- Peter Temple-Smith,
- Wesley C. Warren,
- Philip W. Kuchel,
- and Katherine Belov
Genome Res. June 2008 18: 986-994; Published in Advance May 7, 2008, doi:10.1101/gr.7149808
..., P. , Rofe, R. , Koina, E. , Sankovic, N. , Deakin, J. , Haines, H. , Rapkins, R. , Graves, J. ( 2005 ) Characterizing the chromosomes of the Australian model marsupial Macropus eugenii (tammar wallaby) Chromosome Res. 13 : 627 – 636 . ↵ Altschul, S. , Madden, T. , Schäffer, A. , Zhang, J. , Zhang, Z...
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Platypus Special/Letter: Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes
- Frédéric Veyrunes,
- Paul D. Waters,
- Pat Miethke,
- Willem Rens,
- Daniel McMillan,
- Amber E. Alsop,
- Frank Grützner,
- Janine E. Deakin,
- Camilla M. Whittington,
- Kyriena Schatzkamer,
- Colin L. Kremitzki,
- Tina Graves,
- Malcolm A. Ferguson-Smith,
- Wes Warren,
- and Jennifer A. Marshall Graves
Genome Res. June 2008 18: 965-973; Published in Advance May 7, 2008, doi:10.1101/gr.7101908
...to platypus chromosome 6. Instead, we find that regions homologous to the chicken Z are scattered throughout the chain, principally on X5 and X3. These results have major implications for our understanding of mammalian sex chromosome evolution. Results Identification and localization of BACs on platypus sex...
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Letter: Extreme variability among mammalian V1R gene families
- Janet M. Young,
- Hillary F. Massa,
- Li Hsu,
- and Barbara J. Trask
Genome Res. January 2010 20: 10-18; Published in Advance December 1, 2009, doi:10.1101/gr.098913.109
...show that species-specific expansions previously observed in only eight species were prevalent throughout mammalian evolution, resulting in “semi-private” V1R repertoires for most mammals. The largest families are found in mouse and platypus, whose V1R repertoires have been published previously...
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PERSPECTIVE: The opossum genome: Insights and opportunities from an alternative mammal
- Paul B. Samollow
Genome Res. August 2008 18: 1199-1215; doi:10.1101/gr.065326.107
...), whereas overall recombination rates in cattle ( Bos taurus ) are sex equal ( Ihara et al. 2004 ). Evidence for reduced female recombination has also been detected in two Australian metatherians, the fat-tailed dunnart, Sminthopsis crassicaudata ( Bennett et al. 1986 ), and tammar wallaby, Macropus eugenii...
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LETTER: Evolutionary dynamics of transposable elements in the short-tailed opossum Monodelphis domestica
- Andrew J. Gentles,
- Matthew J. Wakefield,
- Oleksiy Kohany,
- Wanjun Gu,
- Mark A. Batzer,
- David D. Pollock,
- and Jerzy Jurka
Genome Res. July 2007 17: 992-1004; Published in Advance May 10, 2007, doi:10.1101/gr.6070707
...is an old RTE, indicated by its presence in bacterial artificial chromosome (BAC) sequences from the Tamar wallaby Macropus eugenii and high divergence of copies from the consensus sequence (∼30%). It comprises ∼1.4% of the Monodelphis . The youngest element, RTE-1 is slightly over 4 kb in length...

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