Cited by 12Genetic diversity and population structureMarine and fisheries researchForensic and Genetic Research

Genetic Diversity and Demography of Skipjack Tuna (Katsuwonus pelamis) In Southern and Western Part of Indonesian Waters

Open access
Jatmiko, Irwan, Zedta, Raymon Rahmanov, Agustina, Maya, Setyadji, Bram·2019·ILMU KELAUTAN: Indonesian Journal of Marine Sciences

Abstract

Skipjack tuna (Katsuwonus pelamis) is highly migratory species that spread from trophic and sub trophic waters. This species can be found in Atlantic, Indian and Pacific oceans. The genetic information of highly migratory species like skipjack tuna is important to support the sustainability of the fisheries. The objectives of this study are to gain information genetic diversity and population structure of exploited species and to understand the population kinship in Indonesian waters. Tissue samples were collected from six locations, i.e.: Sibolga (North Sumatera), Padang (West Sumatera), Binuangeun (Banten), Pacitan (East Java), Lombok (West Nusa Tenggara) and Kupang (East Nusa Tenggara). Microsatellite analysis was done in this study consisting of extraction, purification, polymerase chain reaction (PCR) amplification and electrophoresis. Three loci used for the analysis i.e.: UTD 172, UTD 523 and UTD 535. The results showed that there are two groups from six locations i.e.: group 1: Sibolga and Padang; group 2: Binuangeun, Pacitan Lombok and Kupang. The variance among these two groups is 0.066 with variance 5.441%. This finding in line with Indonesian Fisheries Management Area of 572 (west of Sumatera waters) and 573 (south of Java waters). However, as highly migratory species across nations, the management strategy for skipjack tuna needs collaboration among countries through regional fisheries management authority like Indian Ocean Tuna Commission (IOTC).

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.14710/ik.ijms.24.2.61-68

Cites

1 of 1 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Research works printed but not linked: 40

  1. Allendorf, F.W., England, P.R., Luikart, G., Ritchie, P.A. & Ryman, N. 2008. Genetic effects of harvest on wild animal populations. Trends in Ecol. Evol. 23(6): 327-337.
  2. Avise, J.C., Walker, D. & Johns, G.C. 1998. Speciation durations and Pleistocene effects on vertebrate phylogeography. Proc. Royal Soc. London. 265(1407): 1707-1712. doi: 10.1098/rspb.1998.0492. · DOI
  3. Brown, A.H.D., Feldman, M.W. & Nevo, E. 1980. Multilocus structure of natural populations of Hordeum spontaneum. Genetics. 96(2):523- 536.
  4. Chiang, H.C., Hsu, C.C., Wu, G. C.C., Chang, S.K. & Yang, H.Y. 2008. Population structure of bigeye tuna (Thunnus obesus) in the Indian Ocean inferred from mitochondrial DNA. Fish. Res. 90(1-3): 305-312.
  5. Dammannagoda, S.T., Hurwood, D.A. & Mather, P.B. 2011. Genetic analysis reveals two stocks of skipjack tuna (Katsuwonus pelamis) in the northwestern Indian Ocean. Can. J. Fish. Aqua. Sci. 68(2):210-223. doi: 10.1139/ F10-136. · DOI · Paper page
  6. Davies, T.K., Mees, C.C. & Milner-Gulland, E.J. 2014. The past, present and future use of drifting fish aggregating devices (FADs) in the Indian Ocean. Mar. Pol. 45:163-170. doi: 10.1016/j.marpol. 2013.12.014. · DOI
  7. Ely, B., Viñas, J., Bremer, J.R.A., Black, D., Lucas, L., Covello, K. & Thelen, E. 2005. Consequences of the historical demography on the global population structure of two highly migratory cosmopolitan marine fishes: the yellowfin tuna (Thunnus albacares) and the skipjack tuna (Katsuwonus pelamis). BMC Evolution. Biol. 5(1):19. doi: 10.1186/1471-2148-5-19. · DOI
  8. Excoffier, L. & Lischer, H.E. 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Res. 10(3): 564-567. doi: 10.1111/j.1755-0998.2010.02847.x. · DOI
  9. Fakhri, F., Narayani, I. & Mahardika, I.G.N.K. 2015. Genetic diversity of skipjack tuna (Katsuwonus pelamis) from Jembrana and Karangasem Regencies, Bali. J. Biologi, 19(1): 11-14.
  10. Fujino, K., Sasaki, K. & Okumura, S.I. 1981. Genetic diversity of skipjack tuna in the Atlantic, Indian, and Pacific Oceans. Bull. Japan. Soc. Sci. Fish. 47(2): 215-222.
  11. Govinden, R., Jauhary, R., Filmalter, J., Forget, F., Soria, M., Adam, S. & Dagorn, L. 2013. Movement behaviour of skipjack (Katsuwonus pelamis) and yellowfin (Thunnus albacares) tuna at anchored fish aggregating devices (FADs) in the Maldives, investigated by acoustic telemetry. Aquatic Living Res. 26(1): 69-77. doi: 10.1051/alr/2012022. · DOI
  12. Grande, M., Murua, H., Zudaire, I., Goni, N. & Bodin, N. 2014. Reproductive timing and reproductive capacity of the skipjack tuna (Katsuwonus pelamis) in the western Indian Ocean. Fish. Res. 156:14-22. doi: 10.1016/j.fishres.2014. 04.011. · DOI · Paper page
  13. Graves, J.E., Ferris, S.D. & Dizon, A.E. 1984. Close genetic similarity of Atlantic and Pacific skipjack tuna (Katsuwonus pelamis) demonstrated with restriction endonuclease analysis of mitochondrial DNA. Mar. Biol. 79(3):315-319.
  14. Grunwald, N.J., Goodwin, S.B., Milgroom, M.G. & Fry, W.E. 2003. Analysis of genotypic diversity data for populations of microorganisms. Phytopathology. 93(6): 738-746. doi: 10.1094 /PHYTO.2003.93.6.738. · DOI
  15. Hallier, J. & Gaertner, D. 2008. Drifting fish aggregation devices could act as an ecological trap for tropical tuna species. Mar. Ecol Prog. Ser. 353:255-264. doi: 10.3354/meps07180. · DOI
  16. Iranawati, F. 2014. An assessment of the geo- graphical scale of recurrent gene flow in wild populations of two species of Mekong River carps (Henicorhynchus spp.) (PhD Thesis). Queensland University of Technology, Australia.
  17. Jatmiko, I., Rochman, F. & Agustina, M. 2018. Genetic variation of yellowfin tuna (Thunnus albacares; Bonnaterre, 1788) with microsatellite analysis in Indonesian waters. J. Penelitian Perikanan Ind. 24(2): 157-164.
  18. Jatmiko, I., Hartaty, H. & Bahtiar, A. 2015. Reproduc- tive biology of skipjack tuna (Katsuwonus pelamis) in Eastern Indian Ocean. Bawal Widya Riset Perikanan Tangkap. 7(2):87-94.
  19. Jin, S., Yan, X., Zhang, H. & Fan, W. 2015. Weight- length relationships and Fulton's condition factors of skipjack tuna (Katsuwonus pelamis) in the western and central Pacific Ocean. PeerJ. 3: e758. doi : 10.7717/peerj.758. · DOI
  20. Kleiber, P. & Hampton, J. 2011. Modeling effects of FADs and islands on movement of skipjack tuna (Katsuwonus pelamis): estimating parameters from tagging data. Can. J. Fish. Aqua. Sci. 51(12):2642-2653. doi: 10.1139/ f94-264. · DOI
  21. Ludwig, J.A. & Reynolds, J.F. 1988. Statistical ecology: a primer in methods and computing. New York, USA: John Wiley & Sons. 337p.
  22. Menezes, M.R., Ikeda, M. & Taniguchi, N. 2006. Genetic variation in skipjack tuna Katsuwonus pelamis (L.) using PCR-RFLP analysis of the mitochondrial DNA D-loop region. J. Fish Biol. 68(A):156-161. doi: 10.1111/j.1095-8649. 2006.00993. · DOI
  23. Natsir, M., Widodo, A. & Prisantoso, B. I. (2012). Fishing activity, size distribution, tag released and recapture of tuna tagging in eastern Indonesian waters. Ind. Fish. Res. J. 18(1): 47- 56. doi: 10.15578/ifrj.18.1.2012.47-56. · DOI
  24. Nei, M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics. 89(3): 583-590.
  25. Nurdin, E. & Nugraha, B. 2008. Catch of tuna and skipjack with hand line based in fish landing of Pondokdadap, Sendang Biru, Malang. Bawal Widya Riset Perikanan Tangkap. 2(1): 27-33.
  26. Pielou, E.C. 1976. Ecological diversity. New York, USA: John Wiley & Sons. 165 p.
  27. Rochman, F., Nugraha, B. & Wujdi, A. 2015. The estimation on population parameters of skipjack (Katsuwonus pelamis, Linnaeus, 1758) in the Indian Ocean, south of Java. BAWAL Widya Riset Perikanan Tangkap. 7(2): 77-85.
  28. Rodriguez-Tress, P., Capello, M., Forget, F., Soria, M., Beeharry, S. P., Dussooa, N. & Dagorn, L. 2017. Associative behavior of yellowfin Thunnus albacares, skipjack Katsuwonus pelamis, and bigeye tuna T. obesus at anchored fish aggregating devices (FADs) off the coast of Mauritius. Mar. Ecol. Prog. Ser. 570: 213-222. doi: 10.3354/meps12101 · DOI
  29. Satria, F. & Sadiyah, L. 2018. The development of harvest strategies for tropical tuna in Indonesia's achipelagic waters. Ind. Fish. Res. J. 24(1): 39-48. doi: 10.15578/ifrj.24.1.2018. 53-63. · DOI
  30. Setiyawan, A. 2016. The estimation of skipjack utilization rate in Prigi waters, East Java. DEPIK 5(1):7-11. doi: 10.13170/depik. 5.1.3831. · DOI
  31. Setyadji, B., Pranowo, W.S. & Amri, K. 2018. Sea-air impacts on fishing season of hand line skipjack tuna Katsuwonus pelamis (Linnaeus, 1758) in Pacitan coastal waters of the south eastern Indian Ocean. Omni-Akuatika. 14(1):1-10.
  32. Shannon, C.E. 1948. A mathematical theory of communication. Bell System Technical J. 27(3): 379-423.
  33. Smith, J.M., Smith, N.H., O'Rourke, M. & Spratt, B.G. 1993. How clonal are bacteria? Proc. National Academy Sci. 90(10):4384-4388.
  34. Stoddart, J.A. & Taylor, J.F. 1988. Genotypic diversity :estimation and prediction in samples. Genetics. 118(4):705-711.
  35. Walsh, P.S., Metzger, D.A. & Higuchi, R. 1991. Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. Biotechniques. 10(4): 506-513.
  36. Wright, A.F. 2005. Genetic variation: polymorphisms and mutations. In: ELS. John Wiley & Sons Ltd, Chichester. doi : 10.1038/npg.els. 0005005 · DOI
  37. Wujdi, A., Setyadji, B. & Nugroho, S C. 2017. Stock structure identification of skipjack tuna (Katsuwonus pelamis Linnaeus, 1758) in Indian Ocean (Indonesian territory of FMA 573) using otolith shape analysis. J. Penelitian Perikanan Ind. 23(2):77-88.
  38. Yusfiandayani, R., Baskoro, M.S. & Monintja, D. 2015. Impact of fish aggregating device on sustainable capture fisheries. KnE Life Sci. 1: 224-237. doi : 10.18502/kls.v1i0.107 · DOI
  39. Zardoya, R., Castilho, R., Grande, C., Favre-Krey, L., Caetano, S., Marcato, S., Krey, G. & Patarnello, T. 2004. Differential population structuring of two closely related fish species, the mackerel (Scomber scombrus) and the chub mackerel (Scomber japonicus), in the Mediterranean Sea: Population Structure of Mediterranean Sea Scomber spp. Mol. Ecol. 13(7): 1785- 1798. doi:10.1111/j.1365-294X.2004.0219 · DOI
  40. x Zedta, R.R., Rintar, P.A. & Novianto, D.N. 2018. Population parameters estimation of skipjack tuna (Katsuwonus pelamis, Linnaeus, 1758) in Indian Ocean. BAWAL Widya Riset Perikanan Tangkap. 9(3): 163-173. doi: 10.15578/ bawal.9.3.2017.163-173. · DOI

Authors
Jatmiko, I., Zedta, R. R., Agustina, M., & Setyadji, B.
Venue
ILMU KELAUTAN: Indonesian Journal of Marine Sciences
Published
2019-06-02
Volume
24
Issue
2
Pages
61
ISSN
  • 0853-7291 (ISSN-L)
  • 2406-7598
OpenAlex
W2963391054
Cited by
12
References
1
Citations by year
2025: 2 · 2024: 2 · 2023: 5 · 2022: 1 · 2021: 1 · 2020: 1
FWCI
0.45
Type
journal article
Language
en
Open access
Locations
  • ILMU KELAUTAN Indonesian Journal of Marine Sciences (publishedVersion, cc-by-sa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
  • Physical Sciences › Environmental Science › Global and Planetary Change › Marine and fisheries research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Forensic and Genetic Research
Keywords
skipjack tuna, genetic diversity, population structure, demography, microsatellite markers, highly migratory species, fisheries management, Indian Ocean Tuna Commission, Indonesian waters

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review