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Mei X, Liu G, Yan J, Zhao C, Wang X, Zhou S, Wei Q, Zhao S, Liu Z, Sha W, Zhang H. A chromosome-level genome assembly of the yellow-throated marten (Martes flavigula). Sci Data 2023; 10:216. [PMID: 37069236 PMCID: PMC10110515 DOI: 10.1038/s41597-023-02120-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 03/29/2023] [Indexed: 04/19/2023] Open
Abstract
The yellow-throated marten (Martes flavigula) is a medium-sized carnivore that is widely distributed across much of Asia and occupies an extensive variety of habitats. We reported a high-quality genome assembly of this organism that was generated using Oxford Nanopore and Hi-C technologies. The final genome sequences contained 215 contigs with a total size of 2,449.15 Mb and a contig N50 length of 68.60 Mb. Using Hi-C analysis, 2,419.20 Mb (98.78%) of the assembled sequences were anchored onto 21 linkage groups. Merqury evaluation suggested that the genome was 94.95% complete with a QV value of 43.75. Additionally, the genome was found to comprise approximately 39.74% repeat sequences, of which long interspersed elements (LINE) that accounted for 26.13% of the entire genome, were the most abundant. Of the 20,464 protein-coding genes, prediction and functional annotation was successfully performed for 20,322 (99.31%) genes. The high-quality, chromosome-level genome of the marten reported in this study will serve as a reference for future studies on genetic diversity, evolution, and conservation biology.
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Affiliation(s)
- Xuesong Mei
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Guangshuai Liu
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Jiakuo Yan
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Chao Zhao
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Xibao Wang
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Shengyang Zhou
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Qinguo Wei
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Shihu Zhao
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Zhao Liu
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Weilai Sha
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China
| | - Honghai Zhang
- School of Life Sciences, Qufu Normal University, Qufu, 273165, Shandong, China.
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2
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Zhu L, Qing-Qing W, Xue-Ting J, Wen-Jing J, Xin-Xu Z, Qian-Qian Y, Jun-Sheng Z, Zhong-Wan P. Sequencing and analysis of the complete mitochondrial genome of the lesser bandicoot rat ( Bandicota bengalensis) from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2021; 6:2063-2065. [PMID: 34212099 PMCID: PMC8218843 DOI: 10.1080/23802359.2021.1942273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 06/07/2021] [Indexed: 11/13/2022] Open
Abstract
The complete mitogenome sequence of the lesser bandicoot rat (Bandicota bengalensis Gray and Hardwicke, 1833) was determined using long PCR. The genome was 16,327 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (34.2%), C (24.9%), T (28.5%) and G (12.4%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. This study verifies the evolutionary status of Bandicota bengalensis in Muridae at the molecular level. The mitochondrial genome would be a significant supplement for the Bandicota bengalensis genetic background. The two Bandicota species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Qing-Qing
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jiang Xue-Ting
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jiang Wen-Jing
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhao Xin-Xu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Yao Qian-Qian
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Piao Zhong-Wan
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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3
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Zhao XX, Piao ZW, Yang QJ, Zhang Q, Yao QQ, Zhang JS, Liu Z. Sequencing and analysis of the complete mitochondrial genome of Ochotona hyperborea from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2021; 6:1805-1807. [PMID: 34124354 PMCID: PMC8174475 DOI: 10.1080/23802359.2021.1934137] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Accepted: 05/15/2021] [Indexed: 12/05/2022] Open
Abstract
The complete mitogenome sequence of Ochotona hyperborea was determined using long PCR. The genome was 17,063 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (31.1%), C (28.7%), T (26.3%), and G (13.9%). The base compositions present clearly the A-T skew, which is most obvious in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. This study verifies the evolutionary status of Ochotona hyperborea in Ochotonidae at the molecular level. The mitochondrial genome would be a significant supplement for the Ochotona hyperborea genetic background. The eight Ochotona species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Xin-Xu Zhao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Zhong-Wan Piao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qiao-Jiang Yang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qi Zhang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Qian-Qian Yao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Jun-Sheng Zhang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Zhu Liu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
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4
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Cai H, Wang QQ, Zhao XX, Yao QQ, Wu N, Zhang JS, Liu Z. Sequencing and analysis of the complete mitochondrial genome of Micromys erythrotis from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2021; 6:1617-1620. [PMID: 34027072 PMCID: PMC8118456 DOI: 10.1080/23802359.2021.1926353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2020] [Accepted: 05/02/2021] [Indexed: 11/04/2022] Open
Abstract
The complete mitogenome sequence of Micromys erythrotis was determined using long PCR. The genome was 16,238 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (33.7%), C (24.8%), T (29.1%) and G (12.4%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. This study verifies the evolutionary status of Micromys erythrotis in Muridae at the molecular level. The mitochondrial genome would be a significant supplement for the Micromys erythrotis genetic background.
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Affiliation(s)
- He Cai
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Qing-Qing Wang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Xin-Xu Zhao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Qian-Qian Yao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Ning Wu
- Ningan Jiangnan School, Ningan, P.R. China
| | - Jun-Sheng Zhang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhu Liu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Jun-Sheng Z, Bo-Qi L, Qiao-Jiang Y, Qi Z, Chen W, Zhu L. Sequencing and analysis of the complete mitochondrial genome of Ochotona coreana from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2020. [DOI: 10.1080/23802359.2020.1731353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
Affiliation(s)
- Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Bo-Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Yang Qiao-Jiang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Chen
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Zhu L, Qiao-Jiang Y, Chun-Yu X, Chen W, Qing-Qing W, Wen-Jing J. Sequencing and analysis of the complete mitochondrial genome of Blarinella griselda from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2020; 5:965-967. [PMID: 33366829 PMCID: PMC7748876 DOI: 10.1080/23802359.2020.1715305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Accepted: 01/07/2020] [Indexed: 11/05/2022] Open
Abstract
The complete mitogenome sequence of Blarinella griselda was determined using long PCR. The genome was 16,947 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (33.1%), C (22.6%), T (31.6%) and G (12.7%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. This study verifies the evolutionary status of Blarinella griselda in Soricidae at the molecular level. The mitochondrial genome would be a significant supplement for the Blarinella griselda genetic background. The three Blarinella species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Yang Qiao-Jiang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Xu Chun-Yu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Chen
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Qing-Qing
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jiang Wen-Jing
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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7
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Zhi-Min J, Ke-Song Q, Bo-Qi L, Jun-Sheng Z, He C, Jin-Xun L, Zhu W, Zhu L. Sequencing and analysis of the complete mitochondrial genome of Crocidura tanakae from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2019; 4:2791-2793. [PMID: 33365730 PMCID: PMC7706458 DOI: 10.1080/23802359.2019.1659118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2019] [Accepted: 07/31/2019] [Indexed: 11/05/2022] Open
Abstract
The complete mitogenome sequence of Crocidura tanakae was determined using long PCR. The genome was 16,969 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (32.5%), C (22.3%), T (31.9%), and G (13.3%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. The five Crocidura species formed a monophyletic group with the high bootstrap value (100%) in all examinations. This study verifies the evolutionary status of C. tanakae in Soricidae at the molecular level. The mitochondrial genome would be a significant supplement for the C. tanakae genetic background.
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Affiliation(s)
- Jin Zhi-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Qin Ke-Song
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Li Bo-Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Cai He
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Li Jin-Xun
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Wang Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
| | - Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, People’s Republic of China
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Zhu L, Ke-Song Q, Bo-Qi L, Cheng-Wen Y, He C, Jun-Sheng Z, Jin-Xun L, Zhu W. The complete mitochondrial genome of the striped hamster ( Cricetulus barabesis) China and its phylogenetic analysis. Mitochondrial DNA B Resour 2019; 4:2593-2595. [PMID: 33365640 PMCID: PMC7706561 DOI: 10.1080/23802359.2019.1641440] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Accepted: 06/22/2019] [Indexed: 11/07/2022] Open
Abstract
The complete mitogenome sequence of the striped hamster was determined using long PCR. The genome was 16,282 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (33.7%), C (22.8%), T (30.5%), and G (13.0%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. Results of phylogenetic analysis showed that Cricetulus had close relationship with Meriones. This study verifies the evolutionary status of the striped hamster in Cricetulus at the molecular level. The mitochondrial genome would be a significant supplement for the striped hamster genetic background. Results of phylogenetic analysis showed that the striped hamster had close relationship with C. griseus in Cricetulus.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Qin Ke-Song
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Bo-Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Yu Cheng-Wen
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Cai He
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Jin-Xun
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Zhu L, Yang B, Yi S, Qi Z, He C, Sheng Z, Jin-Xun L, Zhu W. Sequencing and analysis of the complete mitochondrial genome of Chodsigoa hoffmanni from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2019; 4:2438-2440. [PMID: 33365576 PMCID: PMC7687604 DOI: 10.1080/23802359.2019.1637294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2019] [Accepted: 06/22/2019] [Indexed: 11/22/2022] Open
Abstract
The complete mitogenome sequence of Chodsigoa hoffmanni was determined using long PCR. The genome was 17,138 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (32.8%), C (24.4%), T (29.8%), and G (13.0%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. Chodsigoa hoffmanni is the first species to have been reported on the mitochondrial genome in Chodsigoa genus. This study verifies the evolutionary status of C. hoffmanni in Soricidae at the molecular level. The mitochondrial genome would be a significant supplement for the C. hoffmanni genetic background.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Bai Yang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Sheng Yi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Cai He
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Jin-Xun
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Zhu L, Ao-nan W, Jiao-Jiao L. Sequencing and analysis of the complete mitochondrial genome of the large mole (Mogera robusta) from China. MITOCHONDRIAL DNA PART B 2019. [DOI: 10.1080/23802359.2019.1601520] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Ao-nan
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Jiao-Jiao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Zhu L, Yun-Qi D, Jiao-Jiao L. Sequencing and analysis of the complete mitochondrial genome of the Eurasian least shrew ( Sorex minutissimus) from China. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2018.1545530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Dang Yun-Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Li Jiao-Jiao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
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Zhu L, Song QK, Jiao LJ, Ming D. Sequencing and analysis of the complete mitochondrial genome of the Siberian large-toothed shrew ( Sorex daphaenodon) from China. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2018.1553517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Qin Ke Song
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Li Jiao Jiao
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Dong Ming
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Zhi-Min J, Cheng-Wen Y, Zhu L. Sequencing and analysis of the complete mitochondrial genome of the northern red-backed vole ( Myodes rutilus) from China. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1602013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Jin Zhi-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Yu Cheng-Wen
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
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Zhu L, Qi Z, Wen YC, Min JZ, Song QK. The complete mitochondrial genome of Microtus fortis pelliceus (Arvicolinae, Rodentia) from China and its phylogenetic analysis. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1618212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P. R. China
| | - Zhang Qi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P. R. China
| | - Yu Cheng Wen
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P. R. China
| | - Jin Zhi Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P. R. China
| | - Qin Ke Song
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P. R. China
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Zhu L, Wei B, Ao-Nan W, Xin-Min T, Dian-Wei L. Sequencing and analysis of the complete mitochondrial genome of the taiga shrew ( Sorex isodon) from China. Mitochondrial DNA B Resour 2018; 3:466-468. [PMID: 33474206 PMCID: PMC7800816 DOI: 10.1080/23802359.2018.1462113] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2018] [Accepted: 04/03/2018] [Indexed: 10/26/2022] Open
Abstract
The complete mitogenome sequence of the taiga shrew (Sorex isodon) was determined using long PCR. The genome was 17,008 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication and one control region. The overall base composition of the heavy strand is A (32.5%), C (24.5%), T (28.5%), and G (13.5%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of the taiga shrew. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. The eight Sorex species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Bai Wei
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Wang Ao-Nan
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
| | - Tian Xin-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
- College of Wildlife Resources, Northeast Forestry University, Harbin, PR China
| | - Li Dian-Wei
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, PR China
- College of Wildlife Resources, Northeast Forestry University, Harbin, PR China
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Zhu L, Xin-Min T, Zhi-Min J, Ming D, Jun-Sheng Z, Jian-Yu D. Sequencing and analysis of the complete mitochondrial genome of the Ussuri shrew ( Sorex mirabilis) from China. MITOCHONDRIAL DNA PART B-RESOURCES 2017; 2:645-647. [PMID: 33473932 PMCID: PMC7800820 DOI: 10.1080/23802359.2017.1375873] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
The complete mitogenome sequence of the Ussuri shrew (Sorex mirabilis) was determined using long PCR. The genome was 17,315 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (32.6%), C (25.2%), T (28.8%), and G (13.4%). The base compositions present clearly the A–T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of the Ussuri shrew. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. The five Sorex species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Tian Xin-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
| | - Jin Zhi-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
| | - Dong Ming
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Du Jian-Yu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
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Zhu L, Xin-Min T, Jian-Li J, Zhi-Min J, Dian-Wei L, Jun-Sheng Z. Sequencing and analysis of the complete mitochondrial genome of the slender shrew ( Sorex gracillimus) from China. MITOCHONDRIAL DNA PART B-RESOURCES 2017; 2:642-644. [PMID: 33473931 PMCID: PMC7799885 DOI: 10.1080/23802359.2017.1375871] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The complete mitogenome sequence of the slender shrew (Sorex gracillimus) was determined using long PCR. The genome was 17,002 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (32.5%), C (25.5%), T (28.5%), and G (13.5%). The base compositions present clearly the A–T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of the slender shrew. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. The five Sorex species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Tian Xin-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
| | - Jin Jian-Li
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jin Zhi-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
| | - Li Dian-Wei
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
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Jin ZM, Zhu L, Ma JZ. Sequencing and analysis of the complete mitochondrial genome of the masked shrew ( Sorex caecutiens) from China. MITOCHONDRIAL DNA PART B-RESOURCES 2017; 2:486-488. [PMID: 33473872 PMCID: PMC7799685 DOI: 10.1080/23802359.2017.1361354] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
The complete mitogenome sequence of the masked shrew (Sorex caecutiens) was determined using long PCR. The genome was 17,096 bp in length and contained 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, one origin of L strand replication, and one control region. The overall base composition of the heavy strand is A (32.9%), C (24.5%), T (29.3%), and G (13.3%). The base compositions present clearly the A–T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of the masked shrew. Mitochondrial genome analyses based on MP, ML, NJ, and Bayesian analyses yielded identical phylogenetic trees. The five Sorex species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Zhi-Min Jin
- College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China.,College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jian-Zhang Ma
- College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
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Zhu L, Ao-Nan W, Jun-Sheng Z, Xi Y, Huan L, Zhi-Min J. Sequencing and analysis of the complete mitochondrial genome of flat-skulled shrew ( Sorex roboratus) from China. MITOCHONDRIAL DNA PART B-RESOURCES 2017; 2:369-371. [PMID: 33473831 PMCID: PMC7800013 DOI: 10.1080/23802359.2017.1334517] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The complete mitogenome sequence of flat-skulled shrew (Sorex roboratus) was determined using long PCR. The genome was 17,153 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (33.1%), C (24.4%), T (29.4%), and G (13.1%). The base compositions present clearly the A–T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of flat-skulled shrew. Mitochondrial genome analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. The five Sorex species formed a monophyletic group with the high bootstrap value (100%) in all examinations.
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Affiliation(s)
- Liu Zhu
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Wang Ao-Nan
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Zhang Jun-Sheng
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Yang Xi
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Liu Huan
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China
| | - Jin Zhi-Min
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, P.R. China.,College of Wildlife Resources, Northeast Forestry University, Harbin, P.R. China
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Liu Z, Zhao W, Liu P, Li S, Xu C. The complete mitochondrial genome of Eurasian water shrew (Neomys fodiens). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2381-2. [PMID: 26006281 DOI: 10.3109/19401736.2015.1028040] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitogenome sequence of Eurasian water shrew (Neomys fodiens) was determined using long PCR. The genome was 17,260 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes and 1 control region. The overall base composition of the heavy strand is A (33.0%), C (23.2%), T (30.9%) and G (12.9%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of Eurasian water shrew. Mitochondrial genomes analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. Neomys elegans, Soriculus fumidus, and N. fodiens formed a monophyletic group with the high bootstrap value (100%) in all examinations. This clade with the Anourosorex squamipes as the sister taxon to Sorex.
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Affiliation(s)
- Zhitao Liu
- a College of Life Science and Technology, Harbin Normal University , Harbin , P.R. China and
| | - Wenge Zhao
- a College of Life Science and Technology, Harbin Normal University , Harbin , P.R. China and
| | - Peng Liu
- a College of Life Science and Technology, Harbin Normal University , Harbin , P.R. China and
| | - Shulan Li
- a College of Life Science and Technology, Harbin Normal University , Harbin , P.R. China and
| | - Chunzhu Xu
- b College of Life Science, Northeast Agricultural University , Harbin , P.R. China
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Xu C, Zhao S, Wu H, Wu S, Zhang Z, Wang B, Dou H. Sequencing and analysis of the complete mitochondrial genome of tundra shrew (Sorex tundrensis) from China. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2354-5. [PMID: 25812054 DOI: 10.3109/19401736.2015.1025261] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitogenome sequence of tundra shrew (Sorex tundrensis) was determined using long PCR. The genome was 17,444 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 23 transfer RNA genes, 1 origin of L strand replication and 1 control region. The overall base composition of the heavy strand is A (32.9%), C (24.8%), T (29.0%), and G (13.3%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of tundra shrew. Mitochondrial genome analyses based on MP, ML, NJ and Bayesian analyses yielded identical phylogenetic trees. The three Sorex species formed a monophyletic group with the high bootstrap value (100 %) in all examinations.
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Affiliation(s)
- Chunzhu Xu
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China
| | - Shuai Zhao
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China
| | - Hualin Wu
- b College of Animal Science and Technology, Northeast Agricultural University , Harbin , P.R. China , and
| | - Shengyang Wu
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China
| | - Zhongwen Zhang
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China
| | - Bo Wang
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China
| | - Huashan Dou
- c Dalai Lake Nature Reserve , Hailar , P.R. China
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Jang KH, Hwang UW. Complete mitochondrial genome of Korean yellow-throated marten, Martes flavigula (Carnivora, Mustelidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1785-6. [PMID: 25264839 DOI: 10.3109/19401736.2014.963812] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitogenome sequence of Martes flavigula, which is an endangered and endemic species in South Korea, was determined. The genome is 16,533 bp in length and its gene arrangement pattern, gene content, and gene organization is identical to those of martens. The control region was located between the tRNAPro and tRNAPhe genes and is 1087 bp in length. This mitogenome sequence data might be an important role in the preservation of genetic resources by allowing researchers to conduct phylogenetic and systematic analyses of Mustelidae.
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Affiliation(s)
- Kuem Hee Jang
- a Institute for Phylogenomics and Evolution, Kyungpook National University , Daegu , South Korea and
| | - Ui Wook Hwang
- a Institute for Phylogenomics and Evolution, Kyungpook National University , Daegu , South Korea and.,b Department of Biology , Teachers College & Institute for Phylogenomics and Evolution, Kyungpook National University , Daegu , South Korea
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Xu C, Zhang X, Zhao S, Liu F, Jin W, Dou H. The complete mitochondrial genome of Vespertilio sinensis from China. Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1719-20. [PMID: 25242183 DOI: 10.3109/19401736.2014.961138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitogenome sequence of Vespertilio sinensis was determined using long PCR. The genome was 17,146 bp in length and contained 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes and 1 control region. The overall base composition of the heavy strand is A (32.73%), C (23.64%), T (29.72%), and G (13.91%). The base compositions present clearly the A-T skew, which is most obviously in the control region and protein-coding genes. The extended termination-associated sequence domain, the central conserved domain and the conserved sequence block domain are defined in the mitochondrial genome control region of V. sinensis.
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Affiliation(s)
- Chunzhu Xu
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China and
| | - Xue Zhang
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China and
| | - Shuai Zhao
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China and
| | - Furong Liu
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China and
| | - Wenjie Jin
- a College of Life Science, Northeast Agricultural University , Harbin , P.R. China and
| | - Huashan Dou
- b Dalai Lake Nature Reserve , Hailar , P.R. China
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Zhang H, Zhang J, Zhao C, Chen L, Sha W, Liu G. Complete mitochondrial genome ofCanis lupus campestris. ACTA ACUST UNITED AC 2013; 26:255-6. [DOI: 10.3109/19401736.2013.823186] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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