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Chen XH, Yang S, Yang W, Si YY, Xu RW, Fan B, Wang L, Meng ZN. First genetic assessment of brackish water polychaete Tylorrhynchus heterochaetus: mitochondrial COI sequences reveal strong genetic differentiation and population expansion in samples collected from southeast China and north Vietnam. Zool Res 2020; 41:61-69. [PMID: 31709784 PMCID: PMC6956720 DOI: 10.24272/j.issn.2095-8137.2020.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2019] [Accepted: 10/29/2019] [Indexed: 11/10/2022] Open
Abstract
Tylorrhynchus heterochaetus is a widespread benthic polychaete worm found in coastal brackish waters of the west Pacific. It has high ecological and economic value as a biomarker of water quality and as a high-quality feed in aquaculture and fisheries and is considered a delicacy in some areas of Asia. However, it has experienced a marked reduction in recent years due to overexploitation as well as changes in the environment and climate. Here, to comprehensively understand its genetic background and thus provide insights for better conservation and utilization of this species, we assessed the genetic variability and demographic history of T. heterochaetus individuals sampled from eight locations along the coasts of southeast China and north Vietnam based on mitochondrial cytochrome c oxidase I ( COI) sequences. We observed high haplotype diversity ( Hd), with an average of 0.926, but relatively low nucleotide diversity ( π), with a mean of 0.032 across all samples. A total of 94 polymorphic sites and 85 haplotypes were identified among 320 individuals. The pairwise genetic distances among haplotypes ranged from 0.001 to 0.067, with the high intraspecific divergence possibly reflecting geographic isolation and gene pool fragmentation. Significant genetic structures were revealed among the studied locations; specifically, the eight locations could be treated as six genetically different populations based on pairwise Φ ST results (0.026-0.951, P<0.01). A significant pattern of isolation-by-distance was detected between the genetic and geographic distances ( r=0.873, P=0.001). Three geographic lineages were defined based on phylogenetic tree and network analyses of COI haplotypes. AMOVA results indicated that genetic variations mainly occurred among the three lineages (89.96%). Tests of neutrality and mismatch distribution suggested that T. heterochaetus underwent recent population expansion. These results provide the first report on the genetic status of T. heterochaetus and will be valuable for the management of genetic resources and better understanding of the ecology and evolution in this species.
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Affiliation(s)
- Xing-Han Chen
- Department of Food and Environmental Engineering, Key Laboratory for Marine Estuary Fishery Resources Protection of Yangjiang City, Yangjiang Polytechnic, Yangjiang, Guangdong 529500, China
| | - Sen Yang
- College of Animal Science and Technology, Zhongkai University of Agriculture and Engineering, Guangzhou, Guangdong 520175, China
| | - Wei Yang
- Department of Food and Environmental Engineering, Key Laboratory for Marine Estuary Fishery Resources Protection of Yangjiang City, Yangjiang Polytechnic, Yangjiang, Guangdong 529500, China
| | - Yuan-Yuan Si
- Department of Food and Environmental Engineering, Key Laboratory for Marine Estuary Fishery Resources Protection of Yangjiang City, Yangjiang Polytechnic, Yangjiang, Guangdong 529500, China
| | - Rui-Wen Xu
- Department of Food and Environmental Engineering, Key Laboratory for Marine Estuary Fishery Resources Protection of Yangjiang City, Yangjiang Polytechnic, Yangjiang, Guangdong 529500, China
| | - Bin Fan
- Department of Food and Environmental Engineering, Key Laboratory for Marine Estuary Fishery Resources Protection of Yangjiang City, Yangjiang Polytechnic, Yangjiang, Guangdong 529500, China
| | - Le Wang
- Temasek Life Sciences Laboratory, National University of Singapore, Singapore 117604, Singapore
| | - Zi-Ning Meng
- State Key Laboratory of Biocontrol, Institute of Aquatic Economic Animals, and the Guangdong Province Key Laboratory for Aquatic Economic Animals, Life Science School, Sun Yet-Sen University, Guangzhou, Guangdong 510275, China
- Southern Laboratory of Ocean Science and Engineering, Zhuhai, Guangdong 519000, China. E-mail:
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Chen X, Li M, Liu H, Li B, Guo L, Meng Z, Lin H. Mitochondrial genome of the polychaete Tylorrhynchus heterochaetus (Phyllodocida, Nereididae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3372-3. [PMID: 25714146 DOI: 10.3109/19401736.2015.1018226] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
We firstly reported the complete mitochondrial genome (mitogenome) of the polychaete Tylorrhynchus heterochaetus. Illumina next-generation sequencing generated a total of 19,796 reads with an average depth of 122.91×. The mitogenome is 16,106 bp in length including the typical structure of 13 protein coding genes, two rRNA genes, 22 tRNA genes and a putative control region. However, T. heterochaetus differs from other Nereididae species in the positions of four genes (tRNA-Met, tRNA-Asp, ATP8, tRNA-Tyr). All 37 genes are encoded on the heavy strand whose nucleotide composition is 32.20 % A, 13.67% C, 21.33% G and 32.80% T.
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Affiliation(s)
- Xinghan Chen
- a State Key Laboratory of Biocontrol , Institute of Aquatic Economic Animals, and Guangdong Province Key Laboratory for Aquatic Economic Animals, Sun Yat-Sen University , Guangzhou , P.R. China and.,b Life Science and Technology Department , Yangjiang Vocational and Technical College , Yangjiang , P.R. China
| | - Mingming Li
- a State Key Laboratory of Biocontrol , Institute of Aquatic Economic Animals, and Guangdong Province Key Laboratory for Aquatic Economic Animals, Sun Yat-Sen University , Guangzhou , P.R. China and
| | - Heping Liu
- b Life Science and Technology Department , Yangjiang Vocational and Technical College , Yangjiang , P.R. China
| | - Bo Li
- b Life Science and Technology Department , Yangjiang Vocational and Technical College , Yangjiang , P.R. China
| | - Liang Guo
- a State Key Laboratory of Biocontrol , Institute of Aquatic Economic Animals, and Guangdong Province Key Laboratory for Aquatic Economic Animals, Sun Yat-Sen University , Guangzhou , P.R. China and
| | - Zining Meng
- a State Key Laboratory of Biocontrol , Institute of Aquatic Economic Animals, and Guangdong Province Key Laboratory for Aquatic Economic Animals, Sun Yat-Sen University , Guangzhou , P.R. China and
| | - Haoran Lin
- a State Key Laboratory of Biocontrol , Institute of Aquatic Economic Animals, and Guangdong Province Key Laboratory for Aquatic Economic Animals, Sun Yat-Sen University , Guangzhou , P.R. China and
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