Skip Navigation


MBE Advance Access originally published online on June 1, 2005
Molecular Biology and Evolution 2005 22(9):1823-1833; doi:10.1093/molbev/msi179
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (PDF) Freely available
Right arrow Supplementary Material
Right arrow All Versions of this Article:
22/9/1823    most recent
msi179v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (25)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Nishihara, H.
Right arrow Articles by Okada, N.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Nishihara, H.
Right arrow Articles by Okada, N.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2005. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oupjournals.org

Research Article

A Retroposon Analysis of Afrotherian Phylogeny

Hidenori Nishihara*, Yoko Satta{dagger}, Masato Nikaido*, J. G. M. Thewissen{ddagger}, Michael J. Stanhope§,|| and Norihiro Okada*,¶

* Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Yokohama, Japan; {dagger} Department of Biosystems Science, Graduate University for Advanced Studies (Sokendai), Kanagawa, Japan; {ddagger} Department of Anatomy, Northeastern Ohio Universities College of Medicine; § School of Biology and Biochemistry, Queen's University of Belfast, Belfast, United Kingdom; || Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University; and Division of Speciation Mechanism, National Institute of Basic Biology, Okazaki, Japan

E-mail: nokada{at}bio.titech.ac.jp.

Recent comprehensive studies of DNA sequences support the monophyly of Afrotheria, comprising elephants, sirenians (dugongs and manatees), hyraxes, tenrecs, golden moles, aardvarks, and elephant shrews, as well as that of Paenungulata, comprising elephants, sirenians, and hyraxes. However, phylogenetic relationships among paenungulates, as well as among nonpaenungulates, have remained ambiguous. Here we applied an extensive retroposon analysis to these problems to support the monophyly of aardvarks, tenrecs, and golden moles, with elephant shrews as their sister group. Regarding phylogenetic relationships in Paenungulata, we could characterize only one informative locus, although we could isolate many insertions specific to each of three lineages, namely, Proboscidea, Sirenia, and Hyracoidea. These data prompted us to reexamine phylogenetic relationships among Paenungulata using 19 nuclear gene sequences resulting in three different analyses, namely, short interspersed element (SINE) insertions, nuclear sequence analyses, and morphological cladistics, supporting different respective phylogenies. We concluded that these three lineages diverged very rapidly in a very short evolutionary period, with the consequence that ancestral polymorphism present in the last common ancestor of Paenungulata results in such incongruence. Our results suggest the rapid fixation of many large-scale morphological synapomorphies for Tethytheria; implications of this in relation to the morphological evolution in Paenungulata are discussed.

Key Words: mammalian phylogeny • Afrotheria • Paenungulata • Tethytheria • retroposons • SINEs


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Proc. Natl. Acad. Sci. USAHome page
G. E. Sims, S.-R. Jun, G. A. Wu, and S.-H. Kim
Whole-genome phylogeny of mammals: Evolutionary information in genic and nongenic regions
PNAS, October 6, 2009; 106(40): 17077 - 17082.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
A. Schneider and G. M. Cannarozzi
Support Patterns from Different Outgroups Provide a Strong Phylogenetic Signal
Mol. Biol. Evol., June 1, 2009; 26(6): 1259 - 1272.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
G. Churakov, J. O. Kriegs, R. Baertsch, A. Zemann, J. Brosius, and J. Schmitz
Mosaic retroposon insertion patterns in placental mammals
Genome Res., May 1, 2009; 19(5): 868 - 875.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Nishihara, S. Maruyama, and N. Okada
Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals
PNAS, March 31, 2009; 106(13): 5235 - 5240.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
T. J. Robinson, A. Ruiz-Herrera, and J. C. Avise
Hemiplasy and homoplasy in the karyotypic phylogenies of mammals
PNAS, September 23, 2008; 105(38): 14477 - 14481.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
A. B. Prasad, M. W. Allard, NISC Comparative Sequencing Program, and E. D. Green
Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Data Sets
Mol. Biol. Evol., September 1, 2008; 25(9): 1795 - 1808.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
A. Rokas and S. B. Carroll
Frequent and Widespread Parallel Evolution of Protein Sequences
Mol. Biol. Evol., September 1, 2008; 25(9): 1943 - 1953.
[Abstract] [Full Text] [PDF]

Home page
 Proc R Soc BHome page
A.T Pardini, P.C.M O'Brien, B Fu, R.K Bonde, F.F.B Elder, M.A Ferguson-Smith, F Yang, and T.J Robinson
Chromosome painting among Proboscidea, Hyracoidea and Sirenia: support for Paenungulata (Afrotheria, Mammalia) but not Tethytheria
Proc R Soc B, May 22, 2007; 274(1615): 1333 - 1340.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
W. J. Murphy, T. H. Pringle, T. A. Crider, M. S. Springer, and W. Miller
Using genomic data to unravel the root of the placental mammal phylogeny
Genome Res., April 1, 2007; 17(4): 413 - 421.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
G. C. Gibb, O. Kardailsky, R. T. Kimball, E. L. Braun, and D. Penny
Mitochondrial Genomes and Avian Phylogeny: Complex Characters and Resolvability without Explosive Radiations
Mol. Biol. Evol., January 1, 2007; 24(1): 269 - 280.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
V. B. Kaiser, M. van Tuinen, and H. Ellegren
Insertion Events of CR1 Retrotransposable Elements Elucidate the Phylogenetic Branching Order in Galliform Birds
Mol. Biol. Evol., January 1, 2007; 24(1): 338 - 347.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Nishihara, M. Hasegawa, and N. Okada
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions
PNAS, June 27, 2006; 103(26): 9929 - 9934.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.