Complete mitochondrial genomes confirm the generic placement of the plateau vole,<i>Neodon fuscus</i>

Li, Jian-Qiu; Li, Li; Fu, Bao‐Quan; Yan, Hong‐Bin; Jia, Wan‐Zhong

doi:10.1042/bsr20182349

Cited by 9 publications

(10 citation statements)

References 47 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In our study, the subfamily Arvicolinae was supported as a monophyletic group based on the molecular data of Cytb , COX1 , GHR , CLOCK , and BMAL1 ( Abramson et al, 2009b ; Buzan et al, 2008 ; Liu et al, 2017 ; Martin et al, 2000 ; Sun et al, 2018 ). Our results suggest that N. ( Lasiopodomys ) fuscus within the genus Neodon forms a sister relationship with N. irene , consistent with the results reported by Chen et al (2012) and Li et al (2019) . The stable clustering of L. brandtii , L. mandarinus , and L. gregalis into one group confirms the systematic positions of Lasiopodomys .…”

Section: Discussionsupporting

confidence: 91%

“…The stable clustering of L. brandtii, L. mandarinus, and L. gregalis into one group confirms the systematic positions of Lasiopodomys. This topology was consistent with that of other phylogenetic studies based on nuclear genes (Sun et al, 2018), mitochondrial DNA (Abramson et al, 2009a;Liu et al, 2012b;Martínková & Moravec, 2012;Petrova et al, 2016), and whole genomes (Li, Lu & Wang, 2016a;Li et al, 2019;Tian et al, 2020). However, it contradicts with the systematic position based on the morphological characteristics of these species (Allen, 1940;Corbet, 1978;Wilson & Reeder , 2005).…”

Section: Phylogenetic Relationships Of Lasiopodomyssupporting

confidence: 91%

“…Although N. fuscus showed similar characteristics to previously sequenced mitogenomes (GenBank no. MG833880), L. mandarinus exhibited a longer sequence than that previously reported (Cong et al, 2016;Li, Lu & Wang, 2016a;Li et al, 2016b;Li et al, 2019). This difference may be due to nucleotide errors, particularly in tandem repeats, caused by different sequencing technologies: Sanger sequencing versus high-throughput sequencing (Pfeiffer et al, 2018).…”

Section: Structural Features Of the Whole Mitochondrial Genome Of Lasmentioning

confidence: 82%

“…Morphological characteristics, such as karyotype (Gladkikh et al, 2016) and mating behavior (Zorenko & Atanasov, 2017), supported its current taxonomic status as L. gregalis. On the other hand, L. fuscus is nested in the genus Neodon Hodgson 1849 clade based on the longer length of ear and tail and greater number of inner angles in M 1 and M 3 compared with the genus Lasiopodomys (Liu et al, 2012a); moreover, CLOCK, BMA1, and Cytb gene sequences and their complete mitochondrial genomes supported this taxonomical status (Abramson et al, 2009a;Bannikova et al, 2010;Li, Lu & Wang, 2016a;Li et al, 2019;Liu et al, 2017). Recent studies have typically recognized Lasiopodomys as a separate genus that includes the species L. mandarinus and L. brandtii; L. gregalis was not widely accepted, whereas L. fuscus has been transferred to the genus Neodon and named Neodon fuscus.…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Phylogeny and evolution ofLasiopodomysin subfamily Arvivolinae based on mitochondrial genomics

Shi

Liu

et al. 2021

PeerJ

View full text Add to dashboard Cite

The species of Lasiopodomys Lataste 1887 with their related genera remains undetermined owing to inconsistent morphological characteristics and molecular phylogeny. To investigate the phylogenetic relationship and speciation among species of the genus Lasiopodomys, we sequenced and annotated the whole mitochondrial genomes of three individual species, namely Lasiopodomys brandtii Radde 1861, L. mandarinus Milne-Edwards 1871, and Neodon (Lasiopodomys) fuscus Büchner 1889. The nucleotide sequences of the circular mitogenomes were identical for each individual species of L. brandtii, L. mandarinus, and N. fuscus. Each species contained 13 protein-coding genes (PCGs), 22 transfer RNAs, and 2 ribosomal RNAs, with mitochondrial genome lengths of 16,557 bp, 16,562 bp, and 16,324 bp, respectively. The mitogenomes and PCGs showed positive AT skew and negative GC skew. Mitogenomic phylogenetic analyses suggested that L. brandtii, L. mandarinus, and L. gregalis Pallas 1779 belong to the genus Lasiopodomys, whereas N. fuscus belongs to the genus Neodon grouped with N. irene. Lasiopodomys showed the closest relationship with Microtus fortis Büchner 1889 and M. kikuchii Kuroda 1920, which are considered as the paraphyletic species of genera Microtus. TMRCA and niche model analysis revealed that Lasiopodomys may have first appeared during the early Pleistocene epoch. Further, L. gregalis separated from others over 1.53 million years ago (Ma) and then diverged into L. brandtii and L. mandarinus 0.76 Ma. The relative contribution of climatic fluctuations to speciation and selection in this group requires further research.

show abstract

Section: Discussionsupporting

confidence: 91%

Section: Phylogenetic Relationships Of Lasiopodomyssupporting

confidence: 91%

Section: Structural Features Of the Whole Mitochondrial Genome Of Lasmentioning

confidence: 82%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Phylogeny and evolution ofLasiopodomysin subfamily Arvivolinae based on mitochondrial genomics

Shi

Liu

et al. 2021

PeerJ

View full text Add to dashboard Cite

show abstract

“…Analyses of complete mitochondrial genomes have been successfully used to reconstruct robust phylogenies in many animal groups [19][20][21][22][23] and other. The number of published mitogenomes of voles, lemmings and muskrats is permanently increasing [24][25][26][27][28][29][30][31][32][33][34][35][36][37][38] and other, and data on nearly one-fifth of the total species diversity (ca. 30 species) is already available.…”

Section: Introductionmentioning

confidence: 99%

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

Abramson

Bodrov

Bondareva

et al. 2021

Preprint

View full text Add to dashboard Cite

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.

show abstract

Mitochondrial DNA Diversity of Mesocricetus auratus and Other Cricetinae Species among Cricetidae Family

et al. 2022

View full text Add to dashboard Cite

Unique anatomical and physiological features have made hamster species desirable research models. Comparative genomics and phylogenetic analysis of the hamster family members to clarify their evolution and genetic relationship, can provide a genetic basis for the comprehension of the variable research results obtained using different hamster models. The Syrian golden hamster ( Mesocricetus auratus ) is the most widely used species. In this study, we sequenced the complete mitochondrial genome (mitogenome) of M. auratus , compared it with the mitogenome of other Cricetinae subfamily species, and defined its phylogenetic position in the Cricetidae family. Our results show that the mitogenome organization, gene arrangement, base composition, and genetic analysis of the protein coding genes (PCGs) of M. auratus are similar to those observed in previous reports on Cricetinae species. Nonetheless, our analysis clarifies some striking differences of M. auratus relative to other subfamily members, namely distinct codon usage frequency of TAT (Tyr), AAT (Asn), and GAA (Glu) and the presence of the conserved sequence block 3 (CSB-3) in the control region of M. auratus mitogenome and other hamsters (not found in Arvicolinae). These results suggest the particularity of amino acid codon usage bias of M. auratus and special regulatory signals for the heavy strand replication in Cricetinae. Additionally, Bayesian inference/maximum likelihood (BI/ML) tree shows that Cricetinae and Arvicolinae are sister taxa sharing a common ancestor, and Neotominae split prior to the split between Cricetinae and Arvicolinae. Our results support taxonomy revisions in Cricetulus kamensis and Cricetulus migratorius , and further revision is needed within the other two subfamilies. Among the hamster research models, Cricetulus griseus is the species with highest sequence similarity and closer genetic relationship with M. auratus . Our results show mitochondrial DNA diversity of M. auratus and other Cricetinae species and provide genetic basis for judgement of different hamster models, promoting the development and usage of hamsters with regional characteristics. Supplementary Information The online version contains supplementary material available at 10.1007/s10528-022-10195-7.

show abstract

Complete mitochondrial genomes confirm the generic placement of the plateau vole,Neodon fuscus

Cited by 9 publications

References 47 publications

Phylogeny and evolution ofLasiopodomysin subfamily Arvivolinae based on mitochondrial genomics

Phylogeny and evolution ofLasiopodomysin subfamily Arvivolinae based on mitochondrial genomics

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

Mitochondrial DNA Diversity of Mesocricetus auratus and Other Cricetinae Species among Cricetidae Family

Contact Info

Product

Resources

About