본문 바로가기
KERD
논문KCI 등재

Assessment of genetic diversity among wild and captive-bred Labeo rohita through microsatellite markers and mitochondrial DNA

0

조회

0

다운로드

0

인용

0

참고문헌

키워드

주제분류수산학

초록

Genetic diversity serves as the basis for selecting and genetically enhancing any culturable species in aquaculture. Here, two different strains of wild (River Ravi and River Kabul) and six captive-bred strains of Labeo rohita from various provinces were selected, and genetic diversity among them was evaluated using three different microsatellite markers, i.e., Lr-28, Lr-29, and Lr-37, and one mitochondrial CO1 (Cytochrome c oxidase subunit 1) gene. Different strains of L. rohita were collected, and part of their caudal fin was cut and preserved in ethanol for DNA extraction and determination of genetic diversity among them. Results indicated that selected markers were polymorphic with polymorphic information content (PIC) content values above 0.5 with the highest in Lr-28 followed by Lr-29 and then Lr-37. The observed heterozygosity (Ho) of all strains was higher (Avg: 0.731) but less than the expected heterozygosity (He). Moreover, TMs and WRs showed the highest He, while TKs showed the lowest, He. Overall, inbreeding coefficient (FIS) values observed for all strains with selected markers were positive. The DNA barcoding with the CO1 gene revealed genetic variation among various strains, as demonstrated by the clades in the phylogenetic tree separating the strains into two distinct clusters that then divided into sub-clusters. In conclusion, TMs showed the highest heterozygosity as compared to other strains. Overall results provide the baseline data for the initiation of the genetic improvement program.

Abstract

Genetic diversity serves as the basis for selecting and genetically enhancing any culturable species in aquaculture. Here, two different strains of wild (River Ravi and River Kabul) and six captive-bred strains of Labeo rohita from various provinces were selected, and genetic diversity among them was evaluated using three different microsatellite markers, i.e., Lr-28, Lr-29, and Lr-37, and one mitochondrial CO1 (Cytochrome c oxidase subunit 1) gene. Different strains of L. rohita were collected, and part of their caudal fin was cut and preserved in ethanol for DNA extraction and determination of genetic diversity among them. Results indicated that selected markers were polymorphic with polymorphic information content (PIC) content values above 0.5 with the highest in Lr-28 followed by Lr-29 and then Lr-37. The observed heterozygosity (Ho) of all strains was higher (Avg: 0.731) but less than the expected heterozygosity (He). Moreover, TMs and WRs showed the highest He, while TKs showed the lowest, He. Overall, inbreeding coefficient (FIS) values observed for all strains with selected markers were positive. The DNA barcoding with the CO1 gene revealed genetic variation among various strains, as demonstrated by the clades in the phylogenetic tree separating the strains into two distinct clusters that then divided into sub-clusters. In conclusion, TMs showed the highest heterozygosity as compared to other strains. Overall results provide the baseline data for the initiation of the genetic improvement program.

참고문헌 (42)

  1. Ahammad AKS, "Diallel cross application and histomolecular characterization : an attempt to develop reference stock of Labeo ariza", Biology, 11, pp.691~ (2022)
  2. Ahmad M, "Identification and determination of phylogenetic relationship among Labeo rohita, Labeo catla and their reciprocal hybrids by traditional and molecular tools", Aquac Res, 53, pp.2686~2696 (2022)
  3. Md. Samsul Alam, "Population Genetic Structure of Three Major River Populations of Rohu, Labeo rohita (Cyprinidae: Cypriniformes) Using Microsatellite DNA Markers", Genes & Genomics, 31(1), pp.43~51 (2009), 한국유전학회
  4. Allendorf FW, "Population genetics", Fish Physiol, 8, pp.407~454 (1979)
  5. Chauhan T, "Molecular markers and their applications in fisheries and aquaculture", Adv Biosci Biotechnol, 1, pp.281~291 (2010)
  6. Costa-Urrutia P, "Population genetic structure and social kin associations of Franciscana dolphin, Pontoporia blainvillei", J Hered, 103, pp.92~102 (2012)
  7. Figueras A, "Whole genome sequencing of turbot(Scophthalmus maximus; Pleuronectiformes) : a fish adapted to demersal life", DNA Res, 23, pp.181~192 (2016)
  8. Gandra M, "Reduced global genetic differentiation of exploited marine fish species", Mol Biol Evol, 38, pp.1402~1412 (2021)
  9. Gariboldi MC, "Patterns of population structure at microsatellite and mitochondrial DNA markers in the franciscana dolphin(Pontoporia blainvillei)", Ecol Evol, 6, pp.8764~8776 (2016)
  10. Goudet J., "FSTAT (version 1.2): a computer program to calculate F-statistics", J Hered, 86, pp.485~486 (1995)
  11. Habib A., "Possible economic impact on coastal fish stock resources in Bangladesh in the case of climate change", M.S., pp.2010
  12. Hebert PD, "Identification of birds through DNA barcodes", PLoS Biol, 2, pp.e312~ (2004)
  13. Hussain M, "Genetic diversity of rohu, Labeo rohita(Hamilton, 1822)from Chenab river and its reservoirs", J Biotechnol Res, 12, pp.177~185 (2021)
  14. Islam MS, "Randomly amplified polymorphic DNA analysis of four different populations of the Indian major carp, Labeo rohita(Hamilton)", J Appl Ichthyol, 20, pp.407~412 (2004)
  15. Kamran M, "Comparative analysis of genetic diversity, growth performance, disease resistance and expression of growth and immune related genes among five different stocks of Labeo rohita(Hamilton, 1822)", Aquaculture, 567, pp.739277~ (2023)
  16. Kamran M, "Identification and phylogenetic analysis of Channa species from riverine system of Pakistan using COI gene as a DNA barcoding marker", J Bioresour Manag, 7, pp.10~ (2020)
  17. Kumar NP, "DNA barcodes can distinguish species of Indian mosquitoes(Diptera : Culicidae)", J Med Entomol, 44, pp.1~7 (2007)
  18. Lie HC, "Genetic dissimilarity, genetic diversity, and mate preferences in humans", Evol Hum Behav, 31, pp.48~58 (2010)
  19. Lu YF, "Personalized medicine and human genetic diversity", Cold Spring Harb Perspect Med, 4, pp.a008581~ (2014)
  20. Luhariya RK, "Genetic divergence in wild population of Labeo rohita(Hamilton, 1822)from nine Indian rivers, analyzed through MtDNA cytochrome b region", Mol Biol Rep, 39, pp.3659~3665 (2012)
  21. Mandal A, "Mitochondrial DNA variation in natural populations of endangered Indian Feather-Back fish, Chitala chitala", Mol Biol Rep, 39, pp.1765~1775 (2012)
  22. Nabeela F, "Microbial contamination of drinking water in Pakistan—a review", Environ Sci, 21, pp.13929~13942 (2014)
  23. Nash JHE, "DNAfrag, program version 3.03" (1991), National Research Council of Canada
  24. Nei M, "Genetic distance between populations", Am Nat, 106, pp.283~292 (1972)
  25. Okumuş İ, "Fish population genetics and molecular markers : II-molecular markers and their applications in fisheries and aquaculture", Turk J Fish Aquat Sci, 3, pp.51~79 (2003)
  26. Patel A, "Utility of cross-species amplification of 34 rohu microsatellite loci in Labeo bata, and their transferability in six other species of the cyprinidae family", Aquac Res, 41, pp.590~593 (2010)
  27. Qadeer I, "Microsatellite markers based genetic structure of rohu(Labeo rohita)in selected riverine populations of Punjab, Pakistan", Pak J Agric Sci, 54, pp.865~872 (2017)
  28. Rahman MA, "Effect of stocking density on survival and growth of critically endangered mahseer, Tor putitora(Hamilton), in nursery ponds", Aquaculture, 249, pp.275~284 (2005)
  29. Riaz R, "Spatial distribution, compositional profile, sources, ecological and human health risks of legacy and emerging per-and polyfluoroalkyl substances(PFASs)in freshwater reservoirs of Punjab, Pakistan", Sci Total Environ, 856, pp.159144~ (2023)
  30. Rousset F, "Genepop’007 : a complete re-implementation of the GENEPOP software for Windows and Linux", Mol Ecol Resour, 8, pp.103~106 (2008)
  31. Sah U, "Comparative evaluation of genetically improved and farmed rohu(Labeo rohita)on growth and yield at initial stage of rearing", Int J Fish Aquat Stud, 6, pp.47~50 (2018)
  32. Serrote CML, "Determining the polymorphism information content of a molecular marker", Gene, 726, pp.144175~ (2020)
  33. Shah MS, "Management improvement of hatchery and brood stocks of Indian major carps, rohu (Labeo rohita), mrigal (Cirrhinus cirrhosus) and catla (Catla catla)" (2004), University Grant Commission
  34. Sharma P, "Effects of thyroid endocrine manipulation on sex-related gene expression and population sex ratios in Zebrafish", Gen Comp Endocrinol, 235, pp.38~47 (2016)
  35. Sultana F, "Microsatellite markers reveal genetic degradation in hatchery stocks of Labeo rohita", Pak J Agric Sci, 52, pp.775~781 (2015)
  36. Thompson KG, "Long-term effects of electrofishing on growth and body condition of brown trout and rainbow trout", N Am J Fish Manag, 17, pp.154~159 (1997)
  37. Ullah A, "Population genetic characterization and family reconstruction in brood bank collections of the Indian major carp Labeo rohita(Cyprinidae : Cypriniformes)", Springerplus, 4, pp.774~ (2015)
  38. Ward RD, "DNA barcoding Australia’s fish species", Philos Trans R Soc B Biol Sci, 360, pp.1847~1857 (2005)
  39. Wattanadilokchatkun P, "Characterization of microsatellite distribution in siamese fighting fish genome to promote conservation and genetic diversity", Fishes, 7, pp.251~ (2022)
  40. Yaqub A, "Mitochondrial COI gene based molecular identification and phylogenetic analysis in exotic fish(Oreochromis mossambicus)of Pakistan", J Anim Plant Sci, 29, pp.1501~1508 (2019)
  41. Yılmaz A, "The effects of cobalt-60 applications on yield and yield components of cotton (Gossypium barbadense L.)", Pak J Biol Sci, 9, pp.2761~2769 (2006)
  42. Zhang DX, "Nuclear DNA analyses in genetic studies of populations : practice, problems and prospects", Mol Ecol, 12, pp.563~584 (2003)

관련 논문AI추천

Genetic Variability Comparison of Wild and Cultured Far Eastern Catfish (Silurus asotus) of Korea using Microsatellite MarkerHyeong Su Kim, Jeong-Ho Lee, Ju-Ae Hwang, Jung Eun Kim한국발생생물학회 · 발생과 생식2020 · 제24권 제4호Investigation of Genetic Diversity between Wild-caught and Hatchery-reared Rock Bream (Oplegnathus fasciatus) Using Microsatellite DNA Analysis김미정, 박중연, 안혜숙, 홍성완한국수산과학회 · Fisheries and Aquatic Sciences2008 · 제11권 제2호Morphometric and genetic diversity of Rasbora several species from farmed and wild stocksArif Wibowo, Bambang Retnoaji, Boby Muslimin, Ike Trismawanti한국수산과학회 · Fisheries and Aquatic Sciences2023 · 제26권 제9호Genetic diversity of spotted scat (Scatophagus argus) in Vietnam based on COI genesHuy Van Nguyen, Minh Tu Nguyen, Nghia Duc Vo, Nguyen Thi Thao Phan, Quang Tan Hoang한국수산과학회 · Fisheries and Aquatic Sciences2022 · 제25권 제12호Genetic Variation in Wild and Cultured Populations of the Sea Squirt Halocynthia roretzi Inferred from Microsatellite DNA Analysis강정하, 김이경, 남보혜, 윤문근, 지영주, 한현섭, 허영백한국수산과학회 · Fisheries and Aquatic Sciences2012 · 제15권 제2호Genetic diversity analysis of fourteen geese breeds based on microsatellite genotyping techniqueAlwasella Abdallah, Guohong Chen, Hebatallah Abdel Moniem, Yang Yao Zong아세아·태평양축산학회 · Animal Bioscience2019 · 제32권 제11호

이 간행물의 다른 논문 (6건)