Phylogenetic relationships within mammalian order Carnivora indicated by sequences of two nuclear DNA genes

Yu, Li; Li, Qingwei; Ryder, Oliver A.; Zhang, Yaping

doi:10.1016/j.ympev.2004.08.001

Cited by 62 publications

(47 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Support for this relationship was, however, relatively weak. Most of the former multilocus molecular analyses have recovered the same phylogenetic arrangement between these two subfamilies Marmi et al, 2004;Fulton and Strobeck, 2006;Sato, 2006;Árnason et al, 2007;Schröder et al, 2009;Eizirik et al, 2010;Ki et al, 2010;Wolsan and Sato, 2010;Yamada and Masuda, 2010), whereas others placed Guloninae outside a clade containing Melinae and the morecrownward mustelids Yu and Zhang, 2006;Yu et al, 2008), hypothesized a sister relation between Melinae and Guloninae Yu et al, 2004;Fulton and Strobeck, 2006;Koepfli et al, 2008;Wolsan and Sato, 2010), or failed to resolve the relationship between the two subfamilies Fulton and Strobeck, 2006;Yu et al, 2008). The ferret-badgers (Melogale, Helictidinae) were strongly recovered as sister to a clade composed of Mustelinae, Ictonychinae, and Lutrinae (Figs.…”

Section: Establishment and Interrelationships Of Mustelid Subfamiliesmentioning

confidence: 99%

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea)

Sato

Wolsan

Prevosti

et al. 2012

Molecular Phylogenetics and Evolution

140

122

View full text Add to dashboard Cite

We analyzed a concatenated (8492 bp) nuclear-mitochondrial DNA data set from 44 musteloids The early offshoots of this radiation largely evolved into badger and marten ecological niches (Taxidiinae, Melinae, Mellivorinae, Guloninae, and Helictidinae), whereas the later divergences have adapted to other niches including those of weasels, polecats, minks, and otters (Mustelinae, Ictonychinae, and Lutrinae). Notably, and contrary to traditional beliefs, the morphological adaptations of badgers, martens, weasels, polecats, and minks each evolved independently more than once within Mustelidae. Ictonychinae (which is most closely related to Lutrinae) arose approximately 9.5-8.9 MYA, most likely in Asia, where it diverged into the Old World and Poecilogale, respectively, we propose that Pekania and Poecilictis be treated as valid genera and that -Martes‖ pennanti and -Ictonyx‖ libyca, respectively, be assigned to these genera.

show abstract

Section: Establishment and Interrelationships Of Mustelid Subfamiliesmentioning

confidence: 99%

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea)

Sato

Wolsan

Prevosti

et al. 2012

Molecular Phylogenetics and Evolution

140

122

View full text Add to dashboard Cite

show abstract

“…The possible sister species status of N. nebulosa and P. tigris was proposed by Janczewski et al [18] from mt 12SrRNA and cyt b. However, N. nebulosa was included within Panthera genus as sister species of (P. leo (P. pardus, P. uncia)) by Yu et al [52] based on the sequences of two nuclear DNA genes. Phylogenetic analyses in the present study were deduced from combined mtDNA sequences using MP, ML, and Bayesian method, and resulted in a new monophyly relationship of the Panthera genus: N. nebulosa (P. tigris (P. onca (P. pardus (P. leo, P. uncia)))) (Figures 2-4).…”

Section: Monophyly and Phylogenetic Placement Of Neofelis Nebulosamentioning

confidence: 99%

Mitogenomic analysis of the genus Panthera

Wei

Xiao-bing

Zhu

et al. 2011

Sci. China Life Sci.

View full text Add to dashboard Cite

The complete sequences of the mitochondrial DNA genomes of Panthera tigris, Panthera pardus, and Panthera uncia were determined using the polymerase chain reaction method. The lengths of the complete mitochondrial DNA sequences of the three species were 16990, 16964, and 16773 bp, respectively. Each of the three mitochondrial DNA genomes included 13 protein-coding genes, 22 tRNA, two rRNA, one O L R, and one control region. The structures of the genomes were highly similar to those of Felis catus, Acinonyx jubatus, and Neofelis nebulosa. The phylogenies of the genus Panthera were inferred from two combined mitochondrial sequence data sets and the complete mitochondrial genome sequences, by MP (maximum parsimony), ML (maximum likelihood), and Bayesian analysis. The results showed that Panthera was composed of Panthera leo, P. uncia, P. pardus, Panthera onca, P. tigris, and N. nebulosa, which was included as the most basal member. The phylogeny within Panthera genus was N. nebulosa (P. tigris (P. onca (P. pardus, (P. leo, P. uncia)))). The divergence times for Panthera genus were estimated based on the ML branch lengths and four well-established calibration points. The results showed that at about 11.3 MYA, the Panthera genus separated from other felid species and then evolved into the several species of the genus. In detail, N. nebulosa was estimated to be founded about 8.66 MYA, P. tigris about 6.55 MYA, P. uncia about 4.63 MYA, and P. pardus about 4.35 MYA. All these estimated times were older than those estimated from the fossil records. The divergence event, evolutionary process, speciation, and distribution pattern of P. uncia, a species endemic to the central Asia with core habitats on the Qinghai-Tibetan Plateau and surrounding highlands, mostly correlated with the geological tectonic events and intensive climate shifts that happened at 8, 3.6, 2.5, and 1.7 MYA on the plateau during the late Cenozoic period.

show abstract

“…In addition, considering that growing genetic (Yu & Zhang, 2005b) AY882026 (Yu & Zhang, 2006) AY525044 (Yu & Zhang, 2004b) AF039732 (Flynn & Nedbal, 1998) AY170044 (Yoder et al, 2003 (Yu & Zhang, 2005b) AY882028 (Yu & Zhang, 2006) AY525029 (Yu & Zhang, 2004b) AF039736 (Flynn & Nedbal, 1998) AY170046 (Yoder et al, 2003) Potos flavus Kinkajou San Diego Zoo, USA AY882046 (Yu & Zhang, 2006) AY882029 (Yu & Zhang, 2006) AY525030 (Yu & Zhang, 2004b) AF039737 (Flynn & Nedbal, 1998) AY882059 (Yu & Zhang, 2006) Nasua narica White-nosed coati San Diego Zoo, USA AY882047 (Yu & Zhang, 2006) AY882030 (Yu & Zhang, 2006) AY525031 (Yu & Zhang, 2004b) AY525054 (Yu & Zhang, 2004b) AY882060 (Yu & Zhang, 2006) Mustelidae Mustelinae Martes flavigula Yellow-throated Marten Kunming Zoo, China AY726654 (Yu & Zhang, 2005b) AY882031 (Yu & Zhang, 2006) AY525048 (Yu & Zhang, 2004b) AY525050 (Yu & Zhang, 2004b) AY882061 (Yu & Zhang, 2006) Martes zibellina Sable Haerbin Zoo, China AY882048 (Yu & Zhang, 2006) AY882032 (Yu & Zhang, 2006) AY525047 (Yu & Zhang, 2004b) AY525051 (Yu & Zhang, 2004b) AY88...…”

Section: Dna Samples and Pcr Amplificationmentioning

confidence: 99%

“…Sichuan Province, China AY882053 (Yu & Zhang, 2006) AY882038 (Yu & Zhang, 2006) AY303836 (Yu et al, 2004a) AF039738 (Flynn & Nedbal, 1998) AY882066 (Yu & Zhang, 2006) Ailuridae Ailurus fulgens Red panda Yunnan Province, China AY882054 (Yu & Zhang, 2006) AY882039 (Yu & Zhang, 2006) AY525045 (Yu et al, 2004b) AF039739 (Flynn & Nedbal, 1998) AY882067 (Yu & Zhang, 2006 (Yu & Zhang, 2006) AY882040 (Yu & Zhang, 2006) AY525043 (Yu et al, 2004b) AF039745 (Flynn & Nedbal, 1998) AY750639 (Flynn et al, 2005) Phocidae Phoca vitulina Harbor seal China AY882057 (Yu & Zhang, 2006) AY882042 (Yu & Zhang, 2006) AB188518 (Sato et al ,2006) AY750599 (Flynn et al, 2005) AY750640 (Flynn et al, 1998 DQ205892 (Fulton & Strobeck, 2006) AF039743 (Flynn & Nedbal, 1998) AY750637 (Flynn et al, 2005) * Conservation Genome Resource Bank for Korean Wildlife, Seoul National University. Data were exchanged after sequencing was conducted in each laboratory.…”

Section: Giant Pandamentioning

confidence: 99%

“…In the end, 514 and 618 nucleotide positions in the β-fibrinogen intron 4 and 7 alignment were used in the phylogenetic analyses, respectively (see Supplemental Material). We designated Canidae as the outgroup on the basis of the consensus that Canidae was the earliest diverging lineage within Caniformia (Wyss and Flynn, 1993;Vrana et al, 1994;Flynn and Nedbal, 1998;Yu et al, 2004bYu et al, , 2006Delisle and Strobeck, 2005;Flynn et al, 2005;Fulton and Strobeck, 2006). In MP analyses, a branch-and-bound search strategy with furthest sequence addition and MULPARS was employed.…”

Section: Sequencing and Data Analysismentioning

confidence: 99%

See 1 more Smart Citation

New Insights into the Evolution of Intronic Sequences of the β-fibrinogen Gene and Their Application in Reconstructing Mustelid Phylogeny

Yu¹,

Liu²,

Luan³

et al. 2008

Zoological Science

Self Cite

View full text Add to dashboard Cite

Mustelidae is the largest and most diverse family in the order Carnivora. The phylogenetic relationships among the subfamilies have especially long been a focus of study. Herein we are among the first to employ two new introns (4 and 7) of the nuclear β-fibrinogen gene to clarify these enigmatic problems. In addition, two previously available nuclear (IRBP exon 1 and TTR intron 1) and one mt (ND2) data sets were also combined and analyzed simultaneously with the newly obtained sequence data in this study. Detailed characterizations of the two intronic regions not only reveal the remarkable occurrences of short interspersed element (SINE) insertion events, providing a new example supporting the attractive hypothesis that attrition of an earlier retroposition may offer a proper environment for successive retropositions by forming a "dimer-like" structure, but also demonstrate their utility in the resolution of mustelid phylogeny. All of our analyses confirm the assemblage of Mustelinae, Lutrinae, and Melinae with confidence; moreover, two clades within Mustelinae were clearly recognized, i.e., genera Mustela and Martes. Notably, genus Martes of Mustelinae was found to branch off first, followed by Melinae and then a clade containing Lutrinae and genus Mustela of Mustelinae, indicating paraphyly of Mustelinae. In addition, Mephitinae diverges before the other mustelids and the monophyletic Procyonidae in all cases, supporting its elevation to a separate family. Additional independent genetic markers are still in need to resolve the trichotomy among Mephitinae and the other two carnivoran clades, Ailuridae and Procyonidae/non-mephitine Mustelidae.

show abstract

Phylogenetic relationships within mammalian order Carnivora indicated by sequences of two nuclear DNA genes

Cited by 62 publications

References 36 publications

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea)

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea)

Mitogenomic analysis of the genus Panthera

New Insights into the Evolution of Intronic Sequences of the β-fibrinogen Gene and Their Application in Reconstructing Mustelid Phylogeny

Contact Info

Product

Resources

About