IHB OpenIR  > 鱼类生物学及渔业生物技术研究中心
Comparative mitogenomic and phylogenetic analysis of Apalone spinifera and Apalone ferox (Testudines: Trionychidae)
Yu, Peng1,2,3; Yang, Xiaoli1; Zhou, Weishang1; Yang, Wentao2,3; Zhou, Li2; Liu, Xuan1; Wan, Quan1; Zhang, Jun1,4
Corresponding AuthorZhang, Jun(junzhang@ahau.edu.cn)
2019-04-01
Source PublicationGENETICA
ISSN0016-6707
Volume147Issue:2Pages:165-176
AbstractThe soft-shell turtles Apalone spinifera (AS) and Apalone ferox (AF) are two important economic species. AF is found in the Yellow River of China, and is a confirmed member of the Trionychidae family. However, the classification of AS was in dispute. Mitochondrial genomes (mitogenomes) have been widely used for species identification, as well as population and phylogenetic analysis. In order to understand the phylogenetic and mitogenomic features of AS and AF, the complete mitogenomes were sequenced, annotated and analyzed in this study. The complete mitogenomes of AS and AF are 16,817bp and 16,756bp in length, respectively. Both mitogenomes contain 37 genes, seven short intergenic spacers and two long intergenic spacers. Comparative analysis showed that there are 1,137 variation sites (6.79%) between the two mitogenomes. AS and AF mitogenomes both show a usage preference in terms of nucleotides, codons and amino acids. In addition, the non-synonymous substitution rate/synonymous substitution rate indicates that all protein-coding genes (PCGs) have undergone a strong purifying selection. Phylogenetic trees constructed by 13 PCGs show a clear phylogenetic relationship of the soft-shell turtles and suggest that AS is a sister species to AF of the genus Apalone. The data could be useful for further research of species identification, population analysis and the mitogenomic features of soft-shell turtles.
KeywordApalone spinifera Apalone ferox MtDNA Ka Ks Phylogenetic analysis
DOI10.1007/s10709-019-00059-1
Funding OrganizationAnhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University
Indexed BySCI ; SCI
Language英语
Funding ProjectAnhui Natural Science Foundation of the Colleges and Universities[KJ2016A241] ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences[2016FB16] ; National Natural Science Foundation of China[31802273] ; Key Youth Fund of Anhui Agricultural University[2015ZD05]
WOS Research AreaGenetics & Heredity
WOS SubjectGenetics & Heredity
WOS IDWOS:000467474100006
WOS KeywordCOMPLETE MITOCHONDRIAL GENOME ; DNA ; TURTLE ; SEQUENCE ; EVOLUTION ; PROGRAM
PublisherSPRINGER
Funding OrganizationAnhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Anhui Natural Science Foundation of the Colleges and Universities ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; Open Project of National Key Laboratory of the Ecological and Biological Technology for Institute of Hydrobiology of Chinese Academy of Sciences ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University ; Key Youth Fund of Anhui Agricultural University
Citation statistics
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/27589
Collection鱼类生物学及渔业生物技术研究中心
Corresponding AuthorZhang, Jun
Affiliation1.Anhui Agr Univ, Coll Anim Sci & Technol, Hefei 230036, Anhui, Peoples R China
2.Chinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Hubei, Peoples R China
3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
4.Mingguang Modern Agr Sci & Technol Cooperat Promo, Mingguang 239400, Peoples R China
Recommended Citation
GB/T 7714
Yu, Peng,Yang, Xiaoli,Zhou, Weishang,et al. Comparative mitogenomic and phylogenetic analysis of Apalone spinifera and Apalone ferox (Testudines: Trionychidae)[J]. GENETICA,2019,147(2):165-176.
APA Yu, Peng.,Yang, Xiaoli.,Zhou, Weishang.,Yang, Wentao.,Zhou, Li.,...&Zhang, Jun.(2019).Comparative mitogenomic and phylogenetic analysis of Apalone spinifera and Apalone ferox (Testudines: Trionychidae).GENETICA,147(2),165-176.
MLA Yu, Peng,et al."Comparative mitogenomic and phylogenetic analysis of Apalone spinifera and Apalone ferox (Testudines: Trionychidae)".GENETICA 147.2(2019):165-176.
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