Whole mitochondrial genome of long-clawed mole vole (Prometheomys schaposchnikowi) from Turkey, with its phylogenetic relationships

İbiş, Osman; Selçuk, Ahmet Yesari; Sacks, Benjamin N.; Yildiz, Barış Doğu; Özcan, Servet; Kefelioğlu, Haluk; Tez, Coşkun

doi:10.1016/j.ygeno.2020.06.008

Cited by 9 publications

(3 citation statements)

References 41 publications

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“…It is important to underline that in each case this clustering has no support. In a number of other reconstructions [3,6,21,23] Prometheomys is the earliest split within the subfamily. To check if this inconsistency may be related to nucleotide composition bias we withdrew three species from the outgroup of the genus Cricetulus, (C. longicaudatus, C. migratorius and C. griseus) that demonstrated approximately 10% lower percentage of C3 and 10% higher percentage in T3 than most Arvicolinae and left in the outgroup only Urocricetus kamensis and Akodon montensis that showed similar base composition with species of Arvicolinae and carried out 4 variants Bayesian (on full and RY-coded alignment) and ML, respectively.…”

Section: Plos Onementioning

confidence: 99%

“…The recent review of Muroid rodent phylogeny based on mitochondrial cytochrome b and five nuclear genes confirmed [21] findings of previous studies [7] that the proper taxonomic sampling is crucial to build the large-scale tree reconstructions. The broad introduction of next-generation sequencing (NGS) resulted in constant accumulation of published mitochondrial genomes of Arvicolinae [22][23][24][25][26][27][28][29][30][31][32][33][34][35][36][37]. As a result, mitochondrial genome sequences of nearly one-fifth of the total species diversity of the subfamily (ca.…”

Section: Introductionmentioning

confidence: 99%

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A mitochondrial genome phylogeny of voles and lemmings (Rodentia: Arvicolinae): Evolutionary and taxonomic implications

et al. 2021

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Arvicolinae is one of the most impressive placental radiations with over 150 extant and numerous extinct species that emerged since the Miocene in the Northern Hemisphere. The phylogeny of Arvicolinae has been studied intensively for several decades using morphological and genetic methods. Here, we sequenced 30 new mitochondrial genomes to better understand the evolutionary relationships among the major tribes and genera within the subfamily. The phylogenetic and molecular dating analyses based on 11,391 bp concatenated alignment of protein-coding mitochondrial genes confirmed the monophyly of the subfamily. While Bayesian analysis provided a high resolution across the entire tree, Maximum Likelihood tree reconstruction showed weak support for the ordering of divergence and interrelationships of tribal level taxa within the most ancient radiation. Both the interrelationships among tribes Lagurini, Ellobiusini and Arvicolini, comprising the largest radiation and the position of the genus Dinaromys within it also remained unresolved. For the first time complex relationships between genus level taxa within the species-rich tribe Arvicolini received full resolution. Particularly Lemmiscus was robustly placed as sister to the snow voles Chionomys in the tribe Arvicolini in contrast with a long-held belief of its affinity with Lagurini. Molecular dating of the origin of Arvicolinae and early divergences obtained from the mitogenome data were consistent with fossil records. The mtDNA estimates for putative ancestors of the most genera within Arvicolini appeared to be much older than it was previously proposed in paleontological studies.

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Section: Plos Onementioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

A mitochondrial genome phylogeny of voles and lemmings (Rodentia: Arvicolinae): Evolutionary and taxonomic implications

et al. 2021

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“…With the development of PCR technology and DNA sequencing technology, the usage of DNA sequences to study the phylogeny and evolution of insects has become a popular method [ 4 , 11 , 12 , 13 , 14 , 15 ]. There are also a few reports on the related studies of Pamphagidae.…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of Mitogenomes among Five Species of Filchnerella (Orthoptera: Acridoidea: Pamphagidae) and Their Phylogenetic and Taxonomic Implications

Zheng

Shi

Yao

et al. 2021

Insects

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Mitogenomes have been widely used for exploring phylogenetic analysis and taxonomic diagnosis. In this study, the complete mitogenomes of five species of Filchnerella were sequenced, annotated and analyzed. Then, combined with other seven mitogenomes of Filchnerella and four of Pamphagidae, the phylogenetic relationships were reconstructed by maximum likelihood (ML) and Bayesian (BI) methods based on PCGs+rRNAs. The sizes of the five complete mitogenomes are Filchnerella sunanensis 15,656 bp, Filchnerella amplivertica 15,657 bp, Filchnerella nigritibia 15,661 bp, Filchnerella pamphagoides 15,661 bp and Filchnerella dingxiensis 15,666 bp. The nucleotide composition of mitogenomes is biased toward A+T. All tRNAs could be folded into the typical clover-leaf structure, except that tRNA Ser (AGN) lacked a dihydrouridine (DHU) arm. The phylogenetic relationships of Filchnerella species based on mitogenome data revealed a general pattern of wing evolution from long wing to increasingly shortened wing.

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Complete mitochondrial genomes of Chionomys roberti and Chionomys nivalis (Mammalia: Rodentia) from Turkey: Insight into their phylogenetic position within Arvicolinae

et al. 2022

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Whole mitochondrial genome of long-clawed mole vole (Prometheomys schaposchnikowi) from Turkey, with its phylogenetic relationships

Cited by 9 publications

References 41 publications

A mitochondrial genome phylogeny of voles and lemmings (Rodentia: Arvicolinae): Evolutionary and taxonomic implications

A mitochondrial genome phylogeny of voles and lemmings (Rodentia: Arvicolinae): Evolutionary and taxonomic implications

Comparative Analysis of Mitogenomes among Five Species of Filchnerella (Orthoptera: Acridoidea: Pamphagidae) and Their Phylogenetic and Taxonomic Implications

Complete mitochondrial genomes of Chionomys roberti and Chionomys nivalis (Mammalia: Rodentia) from Turkey: Insight into their phylogenetic position within Arvicolinae

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