Retroposed elements as archives for the evolutionary history of placental mammals

PLoS Biology
Jan Ole KriegsJürgen Schmitz

Abstract

Reconstruction of the placental mammalian (eutherian) evolutionary tree has undergone diverse revisions, and numerous aspects remain hotly debated. Initial hierarchical divisions based on morphology contained many misgroupings due to features that evolved independently by similar selection processes. Molecular analyses corrected many of these misgroupings and the superordinal hierarchy of placental mammals was recently assembled into four clades. However, long or rapid evolutionary periods, as well as directional mutation pressure, can produce molecular homoplasies, similar characteristics lacking common ancestors. Retroposed elements, by contrast, integrate randomly into genomes with negligible probabilities of the same element integrating independently into orthologous positions in different species. Thus, presence/absence analyses of these elements are a superior strategy for molecular systematics. By computationally scanning more than 160,000 chromosomal loci and judiciously selecting from only phylogenetically informative retroposons for experimental high-throughput PCR applications, we recovered 28 clear, independent monophyly markers that conclusively verify the earliest divergences in placental mammalian evolution. Usin...Continue Reading

References

Nov 1, 1979·American Journal of Surgery·R T LewisF M Wiegand
Aug 26, 1998·Proceedings of the National Academy of Sciences of the United States of America·M J StanhopeM S Springer
Feb 2, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·A M Shedlock, N Okada
Jun 1, 2000·Molecular Biology and Evolution·A ReyesC Saccone
Oct 26, 2000·Trends in Ecology & Evolution·A Rokas, P W Holland
Feb 24, 2001·Mammalian Genome : Official Journal of the International Mammalian Genome Society·T L ShayN E Cockett
Feb 24, 2001·Nature·W J MurphyS J O'Brien
Mar 17, 2001·Science·M S Springer, W W de Jong
Jun 23, 2001·Mammalian Genome : Official Journal of the International Mammalian Genome Society·J K KillianR L Jirtle
May 30, 2002·Proceedings of the National Academy of Sciences of the United States of America·Ulfur ArnasonAxel Janke
Aug 30, 2002·Molecular Biology and Evolution·H JowP G Higgs
Sep 25, 2002·Molecular Biology and Evolution·Frédéric DelsucEmmanuel J P Douzery
Nov 2, 2002·Molecular Biology and Evolution·Celine PouxWilfried W de Jong
Nov 26, 2002·Molecular Biology and Evolution·Jürgen SchmitzHans Zischler
Mar 26, 2003·Molecular Biology and Evolution·Masato NikaidoNorihiro Okada
Jul 25, 2003·Molecular Phylogenetics and Evolution·Heather Amrine-MadsenMark S Springer
Jul 25, 2003·Molecular Phylogenetics and Evolution·Wilfried W de JongOle Madsen
Oct 17, 2003·Proceedings of the National Academy of Sciences of the United States of America·Abdel-Halim SalemMark A Batzer
Nov 5, 2003·Molecular Biology and Evolution·Mark P SimmonsMasaki Miya
Apr 15, 2004·Journal of Korean Medical Science·Tae-Min KimMun-Gan Rhyu
Jul 14, 2004·Proceedings of the National Academy of Sciences of the United States of America·Christian RoosHans Zischler
Nov 19, 2004·Molecular Biology and Evolution·Yasuhiro KitazoeYukio Kurihara
Jun 3, 2005·Molecular Biology and Evolution·Hidenori NishiharaNorihiro Okada
Jul 7, 2005·Genome Research·Ali BashirVineet Bafna
May 17, 2006·Trends in Ecology & Evolution·Mark S SpringerWilfried W de Jong
May 17, 2006·Trends in Ecology & Evolution·Andrew M ShedlockNorihiro Okada
Dec 13, 2006·Molecular Biology and Evolution·Peter J WaddellRissa Ota
Nov 30, 2011·PLoS Genetics·Katharina WimmerLudwine Messiaen

❮ Previous
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Citations

Jun 21, 2006·Proceedings of the National Academy of Sciences of the United States of America·Hidenori NishiharaNorihiro Okada
Dec 26, 2006·Proceedings of the National Academy of Sciences of the United States of America·M J ChaissonP A Pevzner
Jul 12, 2007·Proceedings of the National Academy of Sciences of the United States of America·Oliver Piskurek, Norihiro Okada
Aug 31, 2007·Proceedings of the National Academy of Sciences of the United States of America·Derek E WildmanMorris Goodman
Nov 15, 2006·BMC Evolutionary Biology·Robin M D BeckAndy Purvis
Jan 9, 2007·PLoS Genetics·Sergey NikolaevStylianos E Antonarakis
Jan 18, 2007·PloS One·Paul D WatersTerence J Robinson
Jan 25, 2007·BMC Evolutionary Biology·Margaret E KelloggRoscoe Stanyon
Jan 27, 2007·BMC Evolutionary Biology·Karl M Kjer, Rodney L Honeycutt
Feb 27, 2007·Genome Research·William J MurphyWebb Miller
Mar 21, 2007·RNA·Johan OhlsonMarie Ohman
May 1, 2007·PLoS Computational Biology·Gerton Lunter
Jul 5, 2007·BMC Evolutionary Biology·Robert J Asher
Jul 12, 2007·Genome Research·Maren KrullJürgen Schmitz
Aug 9, 2007·PloS One·Yoshihito Niimura, Masatoshi Nei
Sep 22, 2007·Genome Biology·Hidenori NishiharaMasami Hasegawa
Oct 11, 2007·BMC Evolutionary Biology·Jan Ole KriegsJürgen Schmitz
Dec 7, 2007·BMC Evolutionary Biology·Vincent RanwezEmmanuel Jp Douzery
Jan 25, 2008·BMC Evolutionary Biology·Mary Morgan-RichardsDavid Penny
Apr 29, 2008·Molecular Biology and Evolution·Ben-Yang Liao, Jianzhi Zhang
May 6, 2008·Molecular Biology and Evolution·Arjun B PrasadEric D Green
May 9, 2008·Genome Research·Jürgen SchmitzJürgen Brosius
May 10, 2008·Journal of Biology·Robert D Martin
Mar 6, 2009·Genome Research·Gennady ChurakovJürgen Schmitz
Mar 17, 2009·Proceedings of the National Academy of Sciences of the United States of America·Hidenori NishiharaNorihiro Okada
Apr 4, 2009·BMC Evolutionary Biology·Shani Blanga-KanfiDorothée Huchon
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Gregory E SimsSung-Hou Kim
Oct 29, 2009·BMC Evolutionary Biology·Helen J ChatterjeeColin Groves
Jul 30, 2010·PLoS Biology·Maria A NilssonJürgen Schmitz
Oct 13, 2010·BMC Evolutionary Biology·Liang LiuScott V Edwards
Mar 23, 2011·Nucleic Acids Research·Aiping ZhangRandy L Jirtle
May 27, 2011·BMC Evolutionary Biology·Edward L BraunTamaki Yuri
Aug 3, 2011·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Mark S SpringerWilliam J Murphy
Aug 25, 2011·Nature Communications·Alexander SuhJürgen Schmitz
Sep 21, 2011·Biology Direct·Jerzy JurkaKenji K Kojima
Jun 12, 2012·BMC Evolutionary Biology·Elizabeth A PharoKevin R Nicholas

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Datasets Mentioned

BETA
DQ317408

Methods Mentioned

BETA
PCR

Software Mentioned

BLAT
RepeatMasker

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