Population genetic structure of the bentfin devil ray (Mobula thurstoni) in the South Indonesia Sea with limited sample based on ND5 gene
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ERICA DENISE WARDANA
I NYOMAN GIRI PUTRA
MUHAMMAD DANIE AL MALIK
♥
https://orcid.org/0000-0002-3989-3593
NI LUH ASTRIA YUSMALINDA
https://orcid.org/0000-0002-0402-4275
ENEX YUNIARTI NINGSIH
https://orcid.org/0000-0002-3219-5899
NI PUTU DIAN PERTIWI
https://orcid.org/0000-0002-6933-3917
MUHAMMAD GHOZALY SALIM
MEUTHIA MAHARANI KANEDI
MOCHAMAD IQBAL HERWATA PUTRA
https://orcid.org/0000-0001-9202-7857
ANDRIANUS SEMBIRING
https://orcid.org/0000-0001-8139-6083
Abstract
Abstract. Wardana ED, Putra ING, Al Malik MD, Yusmalinda NLA, Ningsih EY, Pertiwi NPD, Salim MG, Kanedi MM, Putra MIH, Sembiring A. 2023. Population genetic structure of the bentfin devil ray (Mobula thurstoni) in the South Indonesia Sea with limited sample based on ND5 gene. Biodiversitas 24: 3743-3749. Bentfin devil ray (Mobula thurstoni) is one of five Mobula rays with a worldwide distribution. This species has high economic value and play an essential ecological role. However, due to their biological characteristics, such as low reproductive rates and late maturity, these species are highly vulnerable to overfishing and slow to recover from depletion. Genetic information, such as this species's population structure and genetic diversity is limited. This study aimed to determine the genetic variation and population structure of M. thurstoni in the South Indonesia Sea based on mitochondrial DNA from ND5 gene. Twenty-two samples of M. thurstoni were successfully collected from three locations Palabuhanratu (n=5), Muncar (n=13), and Savu Sea (n= 4). The haplotype diversity (Hd) ranged from 0.782 to 1.00 (mean=0.839), and Nucleotide diversity (?) ranged from 0.004 to 0.018 (mean=0.007). Then, no significant population differences (P-value > 0.05) were observed between locations, indicating that M. thurstoni population in the South Indonesian Sea represents a single genetic population. Additionally, the haplotype distribution also indicated the presence of two shared haplotypes between locations. Consequently, co-management strategies for sustainable fishing and conservation must be implemented across these three locations to ensure the sustainability of this species in the nature habitat.
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References
Alfaro-Cordova, E., Del Solar, A., Alfaro-Shigueto, J., Mangel, J. C., Diaz, B., Carrillo, O., & Sarmiento, D. (2017). Captures of manta and devil rays by small-scale gillnet fisheries in northern Peru. Fisheries research, 195, 28-36. https://doi.org/10.1016/j.fishres.2017.06.012
Anggraeni, R. I., Rahyono, R., & Widagdo, S. (2017). Hubungan Upwelling dengan Jumlah Tangkapan Ikan Cakalang Pada Musim Timur Di Perairan Tamperan, Pacitan. Seminar Nasional Kelautan XII.
Aradea, O., Kusuma, B., Bengen, D. G., Madduppa, H., Subhan, B., & Arafat, D. D. (2016). Keanekaragaman Genetik Karang Lunak Sarcophyton trocheliophorum pada Populasi Laut Jawa. Nusa Tenggara dan Sulawesi. In Jurnal Enggano (Vol. 1, Issue 1). http://www.livestockusa.org/
Atmadipoera, A. S., Jasmine, A. S., Purba, M., & Kuswardani, A. R. (2020. Karakteristik Upwelling di Perairan Selatan Jawa pada Tahun Strong La Nina 2010 dan Super El Nino 2015. Jurnal Ilmu dan Teknologi Kelautan Tropis, 12(1), 257-276.
Coates, D. J., Byrne, M., & Moritz, C. (2018). Genetic diversity and conservation units: dealing with the species-population continuum in the age of genomics. Frontiers in Ecology and Evolution, 6, 165. https://doi.org/10.3389/fevo.2018.00165
Dulvy, N. K., Fowler, S. L., Musick, J. A., Cavanagh, R. D., Kyne, P. M., Harrison, L. R., Carlson, J. K., Davidson, L. N., Fordham, S. v, Francis, M. P., Pollock, C. M., Simpfendorfer, C. A., Burgess, G. H., Carpenter, K. E., Compagno, L. J., Ebert, D. A., Gibson, C., Heupel, M. R., Livingstone, S. R., White, W. T. (2014). Extinction risk and conservation of the world's sharks and rays. ELife, 3. https://doi.org/10.7554/elife.00590
Excoffier, L., & Lischer, H. E. L. (2010). Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10(3), 564–567. https://doi.org/10.1111/j.1755-0998.2010.02847.x
Germanov ES, Marshall AD (2014). Running the Gauntlet: Regional Movement Patterns of Manta alfredi through a Complex of Parks and Fisheries. PLoS ONE 9(10): e110071. doi:10.1371/journal.pone.0110071
Harris. J. L., McGregor P. K., Oates, Y. Stevens G. M. W. 2020. Gone with the wind: Seasonal distribution and habitatuse by the reef manta ray (Mobula alfredi) in the Maldives,implications for conservation. Aquatic Conserv: Mar Freshw Ecosyst.2020;30:1649–1664. https://doi.org/10.1002/aqc.3350
Hosegood, J. (2020). Genomic tools for conservation and management of manta and devil rays (Mobula Spp.). Bangor University (United Kingdom).
Kashiwagi, T., Marshall, A. D., Bennett, M. B., & Ovenden, J. R. (2012). The genetic signature of recent speciation in manta rays (Manta alfredi and M. birostris). Molecular Phylogenetics and Evolution, 64(1), 212–218. https://doi.org/10.1016/j.ympev.2012.03.020
Kumar, S., & Sudhindra R. Gadakar. (2000). Efficiency of the neighbor-joining method in reconstructing deep and shallow evolutionary relationships in large phylogenies. Journal of Molecular Evolution, 51(6), 544–553. https://doi.org/10.1007/s002390010118
Kumar, S., Stecher, G., Li, M., Knyaz, C., & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution, 35(6), 1547–1549. https://doi.org/10.1093/molbev/msy096
Laily, F. K. (2016). Deskripsi By-catch Ikan Hiu dan Pari Hasil Tangkapan Gill Net Dasar di Pelabuhan Perikanan Samudera (PPS) Cilacap. Fakultas Perikanan dan Ilmu Kelautan Universitas Brawijaya.
Malik, M. D.A., Putra, M. I. H., Topan, E., Pertiwi, N. P. D., Artiningsih, E. Y., Sari, S. K., Lewis, S., Prabuning, D., & Sembiring, A. (2022). Genetic variation of oceanic manta ray (Mobula birostris) based on mtDNA data in the Savu Sea, Indonesia. Biodiversitas, 23(3), 1700–1706. https://doi.org/10.13057/biodiv/d230362
Marshall, A., Barreto, R., Bigman, J.S., Carlson, J., Fernando, D., Fordham, S., Francis, M.P., Herman, K., Jabado, R.W., Liu, K.M., Pardo, S.A., Rigby, C.L., Romanov, E., Smith, W.D. & Walls, R.H.L. 2022. Mobula thurstoni (amended version of 2019 assessment). The IUCN Red List of Threatened Species 2022: e.T60200A214368409. https://dx.doi.org/10.2305/IUCN.UK.2022-1.RLTS.T60200A214368409.en.
Meirinawati, H., & Iskandar, M. R. (2019). Karakteristik Fisika dan Kimia Perairan di Laut Jawa. Oseanologi Dan Limnologi Di Indonesia, 4(1), 41. https://doi.org/10.14203/oldi.2019.v4i1.140
Moore, J. W., Yeakel, J. D., Peard, D., Lough, J., & Beere, M. (2014). Life-history diversity and its importance to population stability and persistence of a migratory fish: steelhead in two large North American watersheds. Journal of Animal Ecology, 83(5), 1035–1046. doi:10.1111/1365-2656.12212
Muhartono, R., & Subhechanis Saptanto. (2018). Bisnis Olahan Ikan di Pantura Jawa Tengah. Prosiding Simposium Nasional Hiu Pari Indonesia Ke-2 Tahun 2018, 153–160.
Mukharror, D. A., Baiti, I. T., Harahap, S. A., Prihadi, D. J., Ichsan, M., & Pridina, N. (2018). First records of bentfin devil ray (Mobula thurstoni) and the examination in physical factors of its habitat in the western waters of Morotai Island (North Moluccas). IOP Conference Series: Earth and Environmental Science, 137(1). https://doi.org/10.1088/1755-1315/137/1/012048
Nontji. (1987). Laut Nusantara. Djambatan
Notarbartolo di Sciara, G., Adnet, S., Bennett, M., Broadhurst, M. K., Fernando, D., Jabado, R. W., ... & Stevens, G. (2020). Taxonomic status, biological notes, and conservation of the longhorned pygmy devil ray Mobula eregoodoo (Cantor, 1849). Aquatic Conservation: Marine and Freshwater Ecosystems, 30(1), 104-122. https://doi.org/10.1002/aqc.3230
Novianto. D, Prawira. R. P. Tampubolon, & Bram Setyadji. (2015). Beberapa Aspek Biologi Pari Famili Mobulidae Pada Perikanan Tuna di Samudera Hindia Selatan Jawa. Simposium Hiu & Pari Di Indonesia, 83–89.
O'Malley, M. P., Townsend, K. A., Hilton, P., Heinrichs, S., & Stewart, J. D. (2017). Characterization of the trade in manta and devil ray gill plates in China and South?east Asia through trader surveys. Aquatic Conservation: Marine and Freshwater Ecosystems, 27(2), 394-413. https://doi.org/10.1002/aqc.2670
Pardo, S. A., Kindsvater, H. K., Cuevas-Zimbrón, E., Sosa-Nishizaki, O., Pérez-Jiménez, J. C., & Dulvy, N. K. (2016). Growth, productivity and relative extinction risk of a data-sparse devil ray. Scientific reports, 6(1), 33745. https://doi.org/10.1038/srep33745
Pierson, J. C., Coates, D. J., Oostermeijer, J. G. B., Beissinger, S. R., Bragg, J. G., Sunnucks, P., ... & Young, A. G. (2016). Genetic factors in threatened species recovery plans on three continents. Frontiers in Ecology and the Environment, 14(8), 433-440. https://doi.org/10.1002/fee.1323
Rivers, M. C., Brummitt, N. A., Lughadha, E. N., & Meagher, T. R. (2014). Do species conservation assessments capture genetic diversity?. Global ecology and conservation, 2, 81-87. https://doi.org/10.1016/j.gecco.2014.08.005
Romiguier, J., Gayral, P., Ballenghien, M., Bernard, A., Cahais, V., Chenuil, A., ... & Galtier, N. (2014). Comparative population genomics in animals uncovers the determinants of genetic diversity. Nature, 515(7526), 261-263. https://doi.org/10.1038/nature13685
Rozas, J., Ferrer-Mata, A., Sanchez-DelBarrio, J. C., Guirao-Rico, S., Librado, P., Ramos-Onsins, S. E., & Sanchez-Gracia, A. (2017). DnaSP 6: DNA sequence polymorphism analysis of large data sets. Molecular Biology and Evolution, 34(12), 3299–3302. https://doi.org/10.1093/molbev/msx248
Sciara. G. N., Lauriano. G., Pierantonio. N., Cañadas. A., Donovan. G., Panigada. S. 2015. The Devil We Don't Know: Investigating Habitat and Abundance of Endangered Giant Devil Rays in the North-Western Mediterranean Sea. PLOS ONE November 18, 2015. https://doi.org/10.1371/journal.pone.0141189
Setiawan. 2022. KKP Kendalikan Pedagangan Hiu dan Pari. https://kkp.go.id/artikel/42781-kkp-kendalikan-perdagangan-hiu-dan-pari. accessed on 29 May 2023
Ward-Paige, C. A., Davis, B., & Worm, B. (2013). Global population trends and human use patterns of Manta and Mobula rays. PloS one, 8(9), e74835. https://doi.org/10.1371/journal.pone.0074835
White, W. T., Giles, J., Dharmadi, & Potter, I. C. (2006). Data on the bycatch fishery and reproductive biology of mobulid rays (Myliobatiformes) in Indonesia. Fisheries Research, 82(1–3), 65–73. https://doi.org/10.1016/j.fishres.2006.08.008
van Oppen, M. J., & Coleman, M. A. (2022). Advancing the protection of marine life through genomics. PLoS Biology, 20(10), e3001801. https://doi.org/10.1371/journal.pbio.3001801
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