Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers
The population genetic diversity and demographic history of the longtail tuna Thunnus tonggol in Malaysian waters was investigated using mitochondrial DNA D-loop and NADH dehydrogenase subunit 5 (ND5). A total of 203 (D-loop) and 208 (ND5) individuals of T. tonggol were sampled from 11 localities ar...
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PeerJ Inc.
2020-08-01
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| Online Access: | https://peerj.com/articles/9679.pdf |
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| author | Noorhani Syahida Kasim Tun Nurul Aimi Mat Jaafar Rumeaida Mat Piah Wahidah Mohd Arshaad Siti Azizah Mohd Nor Ahasan Habib Mazlan Abd. Ghaffar Yeong Yik Sung Muhd Danish-Daniel Min Pau Tan |
| author_facet | Noorhani Syahida Kasim Tun Nurul Aimi Mat Jaafar Rumeaida Mat Piah Wahidah Mohd Arshaad Siti Azizah Mohd Nor Ahasan Habib Mazlan Abd. Ghaffar Yeong Yik Sung Muhd Danish-Daniel Min Pau Tan |
| author_sort | Noorhani Syahida Kasim |
| collection | DOAJ |
| description | The population genetic diversity and demographic history of the longtail tuna Thunnus tonggol in Malaysian waters was investigated using mitochondrial DNA D-loop and NADH dehydrogenase subunit 5 (ND5). A total of 203 (D-loop) and 208 (ND5) individuals of T. tonggol were sampled from 11 localities around the Malaysian coastal waters. Low genetic differentiation between populations was found, possibly due to the past demographic history, dispersal potential during egg and larval stages, seasonal migration in adults, and lack of geographical barriers. The gene trees, constructed based on the maximum likelihood method, revealed a single panmictic population with unsupported internal clades, indicating an absence of structure among the populations studied. Analysis on population pairwise comparison ФST suggested the absence of limited gene flow among study sites. Taken all together, high haplotype diversity (D-loop = 0.989–1.000; ND5 = 0.848–0.965), coupled with a low level of nucleotide diversity (D-loop = 0.019–0.025; ND5 = 0.0017–0.003), “star-like” haplotype network, and unimodal mismatch distribution, suggests a recent population expansion for populations of T. tonggol in Malaysia. Furthermore, neutrality and goodness of fit tests supported the signature of a relatively recent population expansion during the Pleistocene epoch. To provide additional insight into the phylogeographic pattern of the species within the Indo-Pacific Ocean, we included haplotypes from GenBank and a few samples from Taiwan. Preliminary analyses suggest a more complex genetic demarcation of the species than an explicit Indian Ocean versus Pacific Ocean delineation. |
| first_indexed | 2024-03-09T07:06:40Z |
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| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T07:06:40Z |
| publishDate | 2020-08-01 |
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| spelling | doaj.art-cde8751bf9b241bebb1488ae1d2b033e2023-12-03T09:30:41ZengPeerJ Inc.PeerJ2167-83592020-08-018e967910.7717/peerj.9679Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markersNoorhani Syahida Kasim0Tun Nurul Aimi Mat Jaafar1Rumeaida Mat Piah2Wahidah Mohd Arshaad3Siti Azizah Mohd Nor4Ahasan Habib5Mazlan Abd. Ghaffar6Yeong Yik Sung7Muhd Danish-Daniel8Min Pau Tan9Faculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaFaculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaFaculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaMarine Fishery Resources Development and Management Department (MFRDMD), Taman Perikanan, Chendering, Kuala Terengganu, MalaysiaInstitute Marine Biotechnology (IMB), Universiti Malaysia Terengganu, Terengganu, MalaysiaFaculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaInstitute Marine Biotechnology (IMB), Universiti Malaysia Terengganu, Terengganu, MalaysiaInstitute Marine Biotechnology (IMB), Universiti Malaysia Terengganu, Terengganu, MalaysiaFaculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaFaculty of Fisheries and Food Science, Universiti Malaysia Terengganu, Terengganu, MalaysiaThe population genetic diversity and demographic history of the longtail tuna Thunnus tonggol in Malaysian waters was investigated using mitochondrial DNA D-loop and NADH dehydrogenase subunit 5 (ND5). A total of 203 (D-loop) and 208 (ND5) individuals of T. tonggol were sampled from 11 localities around the Malaysian coastal waters. Low genetic differentiation between populations was found, possibly due to the past demographic history, dispersal potential during egg and larval stages, seasonal migration in adults, and lack of geographical barriers. The gene trees, constructed based on the maximum likelihood method, revealed a single panmictic population with unsupported internal clades, indicating an absence of structure among the populations studied. Analysis on population pairwise comparison ФST suggested the absence of limited gene flow among study sites. Taken all together, high haplotype diversity (D-loop = 0.989–1.000; ND5 = 0.848–0.965), coupled with a low level of nucleotide diversity (D-loop = 0.019–0.025; ND5 = 0.0017–0.003), “star-like” haplotype network, and unimodal mismatch distribution, suggests a recent population expansion for populations of T. tonggol in Malaysia. Furthermore, neutrality and goodness of fit tests supported the signature of a relatively recent population expansion during the Pleistocene epoch. To provide additional insight into the phylogeographic pattern of the species within the Indo-Pacific Ocean, we included haplotypes from GenBank and a few samples from Taiwan. Preliminary analyses suggest a more complex genetic demarcation of the species than an explicit Indian Ocean versus Pacific Ocean delineation.https://peerj.com/articles/9679.pdfGenetic diversityMitochondrial DNAControl region (D-loop)Thunnus tonggolNADH dehydrogenase subunit 5 (ND5)Population expansion |
| spellingShingle | Noorhani Syahida Kasim Tun Nurul Aimi Mat Jaafar Rumeaida Mat Piah Wahidah Mohd Arshaad Siti Azizah Mohd Nor Ahasan Habib Mazlan Abd. Ghaffar Yeong Yik Sung Muhd Danish-Daniel Min Pau Tan Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers PeerJ Genetic diversity Mitochondrial DNA Control region (D-loop) Thunnus tonggol NADH dehydrogenase subunit 5 (ND5) Population expansion |
| title | Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers |
| title_full | Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers |
| title_fullStr | Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers |
| title_full_unstemmed | Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers |
| title_short | Recent population expansion of longtail tuna Thunnus tonggol (Bleeker, 1851) inferred from the mitochondrial DNA markers |
| title_sort | recent population expansion of longtail tuna thunnus tonggol bleeker 1851 inferred from the mitochondrial dna markers |
| topic | Genetic diversity Mitochondrial DNA Control region (D-loop) Thunnus tonggol NADH dehydrogenase subunit 5 (ND5) Population expansion |
| url | https://peerj.com/articles/9679.pdf |
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