The complete mitochondrial genome sequence of<i>Lepus tolai</i>in Xinjiang

Shan, Wenjuan; Tursun, Mayinur; Zhou, Shiyu; Zhang, Yucong; Dai, Huiying

doi:10.1080/23802359.2020.1735267

Cited by 5 publications

(4 citation statements)

References 8 publications

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“…The total length of PCGs in the L. yarkandensis mitogenome was 11,417 bp, and its base composition was 30.50% for A, 30.90% for T, 12.00% for G, and 26.50% for C with an A+T bias of 61.40%. Among the 13 PCGs , 12 were located on the heavy strand (H strand), whereas ND6 was located on the light strand (Tables 2 , 3 ), as observed in other Lepus species ( Ding et al 2014 ; Shan et al 2020 ).…”

Section: Resultssupporting

confidence: 54%

“…Moreover, A and C were more popular than T and G with overall AT skew = 0.034 and GC skew = –0.320 in the entire L. yarkandensis mitogenome (Table 3 ). These overall genome composition and skewness are highly similar to those of other Lepus spp., such as L. yarkandensis ( MN450151 ), Lepus coreanus and Lepus tolai ( Yu et al 2015 ; Huang et al 2019 ; Shan et al 2020 ). However, in species such as Caenorhabditis elegans , Ascaris suum , and Mytilus edulis , different AT and GC skew values were determined-negative AT skew and positive GC skew (Perna et al 1995).…”

Section: Resultsmentioning

confidence: 99%

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Complete mitochondrial genome sequence of Lepus yarkandensis Günther, 1875 (Lagomorpha, Leporidae): characterization and phylogenetic analysis

Shan¹,

Tursun²,

Zhou³

et al. 2021

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Lepus yarkandensis is a national second-class protected animal endemic to China and distributed only in the hot and arid Tarim Basin in Xinjiang. We sequenced and described the complete mitogenome of L. yarkandensis to analyze its characteristics and phylogeny. The species’ DNA is a 17,047 bp circular molecule that includes 13 protein-coding genes (PCGs), two rRNA genes, 22 tRNA genes, and one control region. The overall base composition was as follows: A, 31.50%; T, 29.40%; G, 13.30% and C, 25.80%, with a high A+T bias of 60.9%. In the PCGs, ND6 had deviation ranges for AT skew (–0.303) and GC skew (0.636). The Ka/Ks values of ND1 (1.067) and ND6 (1.352) genes were >1, indicating positive selection, which might play an important role in the adaptation of L. yarkandensis to arid and hot environments. The conserved sequence block, the central conserved domain, and the extended termination-associated sequences of the control region and their features were identiﬁed and described. The phylogenetic tree based on the complete mitogenome showed that L. yarkandensis was closely related to the sympatric Lepus tibetanus pamirensis. These novel datasets of L. yarkandensis can supply basic data for phylogenetic studies of Lepus spp., apart from providing essential and important resource for further genetic research and the protection of this species.

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Section: Resultssupporting

confidence: 54%

Section: Resultsmentioning

confidence: 99%

Complete mitochondrial genome sequence of Lepus yarkandensis Günther, 1875 (Lagomorpha, Leporidae): characterization and phylogenetic analysis

Shan¹,

Tursun²,

Zhou³

et al. 2021

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“…However, since the low differences in morphology, and hybridization among hares, their classification has been challenging (Liu et al, 2011). Tolai hares were once classified as Cape hares (L. capensis) or Brown hares, but studies based on molecular biology (Wu et al, 2005;Wang and Yang, 2012;Shan et al, 2020b) and skull measurements (Cheng et al, 2012) did not support the classification of "L. capensis" in China as L. capensis. Therefore, the original Xinjiang's "L. capensis" population was divided into L. tibetanus and L. tolai, and the population distributed in the north of the Tianshan Mountains was classified as L. tolai (Shan et al, 2020a).…”

Section: Introductionmentioning

confidence: 99%

“…Wu et al (Wu et al, 2011) found extensive bidirectional mitochondrial DNA and SRY gene introgression in hybrids of Yarkand hare and Xinjiang "L. capensis". Recently, some studies have mapped the full mitochondrial genome of the Xinjiang Tolai hare (Shan et al, 2020b). However, there has been no comprehensive evaluation of their genetic diversity and structure related to habitat and climate changes, and research on the biology of this species is scarce.…”

Section: Introductionmentioning

confidence: 99%

Population genetics analysis of Tolai hares (Lepus tolai) in Xinjiang, China using genome-wide SNPs from SLAF-seq and mitochondrial markers

et al. 2023

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The main topic of population genetics and evolutionary biology is the influence of the ecological environment, geographical isolation, and climatic factors on population structure and history. Here, we estimated the genetic diversity, genetic structure, and population history of two subspecies of Tolai hares (Lepus tolai Pallas, 1778), L. t. lehmanni inhabiting Northern and Northwest Xinjiang and L. t. centrasiaticus inhabiting Central and Eastern Xinjiang using SNP of specific-length amplified fragment sequencing (SLAF-seq) and four mitochondrial DNA (mtDNA). Our results showed a relatively high degree of genetic diversity for Tolai hares, and the diversity of L. t. lehmanni was slightly higher than that of L. t. centrasiaticus, likely due to the more favorable ecological environment, such as woodlands and plains. Phylogenetic analysis from SNP and mtDNA indicated a rough phylogeographical distribution pattern among Tolai hares. Strong differentiation was found between the two subspecies and the two geographical groups in L. t. centrasiaticus, possibly due to the geographical isolation of mountains, basins, and deserts. However, gene flow was also detected between the two subspecies, which might be attributed to the Tianshan Corridor and the strong migration ability of hares. Tolai hare population differentiation occurred at approximately 1.2377 MYA. Population history analysis based on SNP and mtDNA showed that the Tolai hare population has a complex history and L. t. lehmanni was less affected by the glacial event, possibly because its geographic location and terrain conditions weaken the drastic climate fluctuations. In conclusion, our results indicated that the joint effect of ecological environment, geographic events, and climatic factors might play important roles in the evolutionary process of L. t. lehmanni and L. t. centrasiaticus, thus resulting in differentiation, gene exchange, and different population history.

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The mitochondrial genome sequence of Manchurian Hare ( Lepus mandshuricus )

Lin,

Fan,

Bai

2024

Mitochondrial DNA Part B

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The Manchurian hare ( Lepus mandshuricus ) is widely distributed in eastern Russia and northeastern China, but due to limited research, its taxonomic status remains somewhat ambiguous. The mitochondrial genome of the Manchurian hare was 16,705 bp in length, which was consisted of 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes and one control region. The overall nucleotide composition is 31.7% A, 29.4% T, 13.3% G, and 25.6% C, indicating a high AT content. Phylogenetic analysis reveals a closer relationship of the Manchurian hare with the Korean hare ( Lepus coreanus ) and the Iberian hare ( Lepus granatensis ), while its relationship with the Hainan rabbit ( Lepus hainanus ), European hare ( Lepus europaeus ) and the snowshoe hare ( Lepus americanus ) is more distant. The mitochondrial genome of the Manchurian hare is of vital importance for the phylogenetic analysis of lagomorphs and provides valuable data for deeper evolutionary inquiries.

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The complete mitochondrial genome sequence ofLepus tolaiin Xinjiang

Cited by 5 publications

References 8 publications

Complete mitochondrial genome sequence of Lepus yarkandensis Günther, 1875 (Lagomorpha, Leporidae): characterization and phylogenetic analysis

Complete mitochondrial genome sequence of Lepus yarkandensis Günther, 1875 (Lagomorpha, Leporidae): characterization and phylogenetic analysis

Population genetics analysis of Tolai hares (Lepus tolai) in Xinjiang, China using genome-wide SNPs from SLAF-seq and mitochondrial markers

The mitochondrial genome sequence of Manchurian Hare ( Lepus mandshuricus )

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