A Molecular Perspective on the Systematics and Evolution of the GenusArvicanthis(Rodentia, Muridae): Inferences from Complete CytochromebGene Sequences

Ducroz, Jean-François; Volobouev, V.; Granjon, Laurent

doi:10.1006/mpev.1997.0477

Cited by 69 publications

(87 citation statements)

References 29 publications

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“…Even though these positions are biased towards certain bases, the low species-to-species variation seen within this bias permits a valid phylogenetic analysis. Therefore, the compositional biases observed for first and second positions should not interfere with the phylogenetic analysis (Ducroz et al, 1998). The general bias of transitions over transversions (Brown et al, 1982) was found only for the third position.…”

Section: Discussionmentioning

confidence: 97%

Partial sequence analysis of the actin gene and its potential for studying the phylogeny of Candida species and their teleomorphs.

Daniel¹,

Sorrell²,

Meyer³

2001

International Journal of Systematic and Evolutionary Microbiology

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The actin gene has been studied as a potential phylogenetic marker for selected members of the anamorphic genus Candida and seven related teleomorphic genera (Debaryomyces, Issatchenkia, Kluyveromyces, Saccharomyces and Pichia from the Saccharomycetaceae ; Clavispora and Metschnikowia from the Metschnikowiaceae). The nucleotide sequences of 36 fungal taxa were analysed with respect to their molecular evolution and phylogenetic relationships. A total of 460 bp (47 %) of the coding 979 bp were variable and 396 bp (40 %) of these were found to be phylogenetically informative. Further analysis of the sequences showed that the genic GMC contents were higher than the nuclear GMC contents for most of the taxa. A strong positive correlation was found between GMC content over all codon positions and third positions. First and second codon positions were considered to be independent of the genic GMC content. The expected transition/transversion bias was detected only for third positions. Pairwise comparisons of transitional and transversional changes (substitutions) with total percentage sequence divergences revealed that the third position transitions showed no saturation for ingroup comparisons. A specific weighting scheme was set up, combining codon-position weights with changefrequency weights to enable the inclusion of distant outgroup taxa. Parsimony analyses of the investigated taxa showed four groups, three of which corresponded to major clusters that had been established previously in Candida by rDNA analysis. Interrelationships among the species groups in this heterogeneous anamorphic genus were determined. The polyphyletic origin of the selected Candida species and their close associations with several ascomycete genera were verified and known anamorph/teleomorph pairs confirmed. The actin gene was established as a valuable phylogenetic marker with the particular advantage of an unambiguous alignment.

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Section: Discussionmentioning

confidence: 97%

Partial sequence analysis of the actin gene and its potential for studying the phylogeny of Candida species and their teleomorphs.

Daniel¹,

Sorrell²,

Meyer³

2001

International Journal of Systematic and Evolutionary Microbiology

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“…Generally, the resolution of relationships among different species within one genus was quite good. In other studies, the resolution among closely related species with cytochrome b data is good (Barome et al, 1998;Ducroz et al, 1998). On the other hand, there are species, such as Acomys and Micromys, which cannot be assigned a firm phylogenetic position with these data and the recovered topologies are different with different phylogenetic methods.…”

Section: Divergence Timesmentioning

confidence: 94%

Molecular Phylogeny of European Muroid Rodents Based on Complete Cytochrome b Sequences

Martin

Gerlach

Schlötterer

et al. 2000

Molecular Phylogenetics and Evolution

140

113

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Phylogenetic relationships among 18 species of mainly European muroid rodents that belong to three subfamilies were estimated using complete sequences of the mitochondrial cytochrome b gene. The inferred monophyly of the subfamilies Murinae (mice and rats) and Arvicolinae (voles, lemmings, and muskrats) is in agreement with previous studies. Within the Murinae, the morphology-based division of the genus Apodemus into three subgenera is supported by these DNA sequence data. The relationships among the different genera of the Murinae were generally poorly resolved, and the relationships of Micromys and Acomys to the other murine genera remained unresolved. Within the subfamily Arvicolinae, the relations of the genera Arvicola, Clethrionomys, and Microtus remained tentative with our data. However, within the Microtus group, there is a good molecular support for the phylogenetic relationships. These findings suggest that the origin of the different murine and arvicoline lineages was rapid, indicating an adaptive radiation with fast speciation.

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“…The chronogram (Fig. 7) reveals that the observed cladogenetic events during the Plio-Pleistocene within the F. mechowii, F. whytei, F. damarensis and F. micklemi clades appear to coincide with climatically mediated speciation bursts in other savannah dwelling mammals, including hominids (Ducroz et al, 1998;Bobe and Behrensmeyer, 2004;Trauth et al, 2005;Veyrunes et al, 2005).…”

Section: Biogeographical and Temporal Implicationsmentioning

confidence: 99%

Cytochrome b sequence analysis reveals differential molecular evolution in African mole-rats of the chromosomally hyperdiverse genus Fukomys (Bathyergidae, Rodentia) from the Zambezian region

Daele

Verheyen

Brunain

et al. 2007

Molecular Phylogenetics and Evolution

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African mole-rats (Bathyergidae, Rodentia) of the (eu)social genus Fukomys are one of the most speciose mammal genera endemic to Sub-Saharan Africa. Fukomys distributed in the Zambezian phytochorion is characterized by extreme chromosomal variation (2n = 40-78). We inferred a molecular phylogeny of Zambezian Fukomys to resolve the interrelationships and the evolutionary history of the known chromosomal races. We sequenced the entire cytochrome b gene (1140 bp) for a total of 66 specimens representing 18 karyotypical races from Zambia. An additional 31 sequences were retrieved from GenBank including data on all other chromosomal races. The haplotypes belonging to a small chromosomal race from Salujinga cluster with the Fukomys mechowii (Giant mole-rat) haplotypes. Differential degrees of chromosomal variation are observed among the major mole-rat clades, which is most pertinent when comparing the central Zambezian Fukomys micklemi and the northern Zambezian Fukomys whytei clades. The karyotypically hyper-diverse (12 known chromosomal races) Fukomys micklemi clade shows low levels of cytochrome b sequence divergence. Within the F. whytei clade we find a more conservative pattern of chromosomal diversification (three known chromosomal races) while the levels of sequence divergence are much higher then in the F. micklemi clade. Our results suggest that chromosomal changes may drive phyletic divergence and, eventually, speciation. The observed cladogenetic events during the Plio-Pleistocene within the F. mechowii, F. whytei, F. damarensis and F. micklemi clades appear to coincide with climatically mediated speciation bursts in other savannah dwelling mammals, including hominids. Based on the molecular data presented, combined with morphological and chromosomal data, the taxonomic implication seems to be that Fukomys may contain several (undescribed) cryptic species.

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A Molecular Perspective on the Systematics and Evolution of the GenusArvicanthis(Rodentia, Muridae): Inferences from Complete CytochromebGene Sequences

Cited by 69 publications

References 29 publications

Partial sequence analysis of the actin gene and its potential for studying the phylogeny of Candida species and their teleomorphs.

Partial sequence analysis of the actin gene and its potential for studying the phylogeny of Candida species and their teleomorphs.

Molecular Phylogeny of European Muroid Rodents Based on Complete Cytochrome b Sequences

Cytochrome b sequence analysis reveals differential molecular evolution in African mole-rats of the chromosomally hyperdiverse genus Fukomys (Bathyergidae, Rodentia) from the Zambezian region

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