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De Novo Transcriptome Analysis of Two Seahorse Species (Hippocampus erectus and H. mohnikei) and the Development of Molecular Markers for Population Genetics
Lin, Qiang; Luo, Wei; Wan, Shiming; Gao, Zexia; Lin, Q (reprint author), Chinese Acad Sci, South China Sea Inst Oceanol, Key Lab Trop Marine Bioresources & Ecol, Guangzhou 510275, Guangdong, Peoples R China.
2016
Source PublicationPLOS ONE
Volume11Issue:4Pages:e0154096
AbstractSeahorse conservation has been performed utilizing various strategies for many decades, and the deeper understanding of genomic information is necessary to more efficiently protect the germplasm resources of seahorse species. However, little genetic information about seahorses currently exists in the public databases. In this study, high-throughput RNA sequencing for two seahorse species, Hippocampus erectus and H. mohnikei, was carried out, and de novo assembly generated 37,506 unigenes for H. erectus and 36,113 unigenes for H. mohnikei. Among them, 17,338 (46.23%) unigenes for H. erectus and 17,900 (49.57%) for H. mohnikei were successfully annotated based on the information available from the public databases. Through comparing the unigenes of two seahorse species, 7,802 candidate orthologous genes were identified and 5,268 genes among them could be annotated. In addition, gene ontology analysis of two species was similarly performed on biological processes, cellular components, and molecular functions. Twenty-four and twenty-one unigenes in H. erectus and H. mohnikei were annotated in the biosynthesis of unsaturated fatty acids pathways, and both seahorses lacked the Delta 12 and Delta 15 desaturases. Total of 8,992 and 9,116 SSR loci were obtained from H. erectus and H. mohnikei unigenes, respectively. Dozens of SSR were developed and then applied to assess the population genetic diversity, as well as cross-amplified in a related species, H. trimaculatus. The H-O and H-E values of the tested populations for H. erectus, H. mohnikei, and H. trimaculatus were medium. These resources would facilitate the conservation of the species through a better understanding of the genomics and comparative genome analysis within the Hippocampus genus.
Department[Lin, Qiang; Luo, Wei] Chinese Acad Sci, South China Sea Inst Oceanol, Key Lab Trop Marine Bioresources & Ecol, Guangzhou 510275, Guangdong, Peoples R China; [Wan, Shiming; Gao, Zexia] Huazhong Agr Univ, Freshwater Aquaculture Collaborat Innovat Ctr Hub, Key Lab Agr Anim Genet Breeding & Reprod,Coll Fis, Minist Educ,Key Lab Freshwater Anim Breeding,Mini, Wuhan 430070, Peoples R China ; LTO
Subject AreaScience & Technology - Other Topics
Document Type期刊论文
Identifierhttp://ir.scsio.ac.cn/handle/344004/15373
Collection热带海洋环境国家重点实验室(LTO)
Corresponding AuthorLin, Q (reprint author), Chinese Acad Sci, South China Sea Inst Oceanol, Key Lab Trop Marine Bioresources & Ecol, Guangzhou 510275, Guangdong, Peoples R China.
Recommended Citation
GB/T 7714
Lin, Qiang,Luo, Wei,Wan, Shiming,et al. De Novo Transcriptome Analysis of Two Seahorse Species (Hippocampus erectus and H. mohnikei) and the Development of Molecular Markers for Population Genetics[J]. PLOS ONE,2016,11(4):e0154096.
APA Lin, Qiang,Luo, Wei,Wan, Shiming,Gao, Zexia,&Lin, Q .(2016).De Novo Transcriptome Analysis of Two Seahorse Species (Hippocampus erectus and H. mohnikei) and the Development of Molecular Markers for Population Genetics.PLOS ONE,11(4),e0154096.
MLA Lin, Qiang,et al."De Novo Transcriptome Analysis of Two Seahorse Species (Hippocampus erectus and H. mohnikei) and the Development of Molecular Markers for Population Genetics".PLOS ONE 11.4(2016):e0154096.
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