• P-ISSN 0974-6846 E-ISSN 0974-5645

Indian Journal of Science and Technology


Indian Journal of Science and Technology

Year: 2020, Volume: 13, Issue: 13, Pages: 1412-1422

Original Article

Genetic diversity and toxic genes analysis of vibrio spp. isolated from white leg shrimp and marine fishes cultured in Tam G iang lagoon in Thua Thien Hue province, Vietnam

Received Date:16 April 2020, Accepted Date:23 April 2020, Published Date:23 May 2020


Objective: This study was done to report the results of genetic diversity and toxic genes analysis of Vibrio pathogen isolated from white leg shrimp and marine fishes cultured in Thua Thien Hue province, Vietnam. Methods/statistical analysis: Pathogen Vibrio spp. were isolated from shrimps and fishes, and were identified by 16S rRNA sequencing. The presence of toxin genes in Vibrio spp. strains were determined through the presence of genes encoding toxic proteins (pirAvp, pir-Bvp, tlh, tdh and trh) based on specific primers for these genes. Genetic diversity of Vibrio strains was analysed by RAPD technique. Findings: A total of 120 Vibrio colonies from shrimps (with Acute Hepatopancreatic Necrosis Disease) and fishes (with hemorrhagic disease) cultured in Tam Giang lagoon in Thua Thien Hue, Vietnam were isolated. Of which, 14/54 strains from shrimps had pirAvp and pirBvp genes and 18/66 strains from fishes had tlh gene, and none of Vibrio strains had tdh and trh genes. Randomly amplified polymorphic DNA (RAPD) analysis of 36 Vibrio samples showed the 148 polymorphic DNA fragments from ten random primers. The genetic diversity is high within studied species. In there, V. parahaemolyticus has the highest diversity level (h=0.1645 and I=0.2695) while V. shilonii is lowest (h=0.0136) and I=0.0207). The degree of genetic differentiation among species is also high (Gst=0.4827). Genetic identity between V. parahaemolyticus and V. vulnificus (0.9545) is highest while between V. shilonii and V. harveyi (0.7416) is lowest. The dendrogram also showed that V. parahaemolyticus is closely related to V. vulnificus whereas V. shilonii and V. harveyi have large distance. Application/improvements: This study is aimed to provide scientific data as the basis for the study and production of rapid diagnostic kits in the future.

Keywords: AHPND; Genetic diversity; RAPD; toxic genes; Vibrio; Vietnam


  1. Sudheesh PS, Al-Ghabshi A, Al-Mazrooei N, Al-Habsi S. Comparative Pathogenomics of Bacteria Causing Infectious Diseases in Fish. International Journal of Evolutionary Biology. 2012;2012:1–16. doi: 10.1155/2012/457264
  2. Dard. 2014.
  3. Behura BB, Samantray BR, Samal SK, Mukherjee SC, Das BK. Use of randomly amplified polymorphic DNA analysis to differentiate Vibrio anguillarum and Vibrio parahaemolyticus. Int J Curr Microbiol App Sci. 2015;4(10):816–828.
  4. Hayat Mahmud Z, Kassu A, Mohammad A, Yamato M, Bhuiyan NA, Balakrish Nair G, et al. Isolation and molecular characterization of toxigenic Vibrio parahaemolyticus from the Kii Channel, Japan. Microbiological Research. 2006;161(1):25–37. doi: 10.1016/j.micres.2005.04.005
  5. Quang HT, Thoa C, Tan TH, Giang NT, Huy ND, Phuong T. Study on genetic diversity of Paris polyphylla population from Vietnam and China. Plant Cell Biotechnol Mol Biol. 2016;17(1&2):57–63.
  6. Nei M. Genetic Distance between Populations. The American Naturalist. 1972;106(949):283–292. doi: 10.1086/282771
  7. Strauss C, Long H, Patterson CE, Te R, Lynch M. Genome-Wide Mutation Rate Response to pH Change in the Coral Reef Pathogen Vibrio shilonii AK1. American Society for Microbiology. 2017. doi: 10.1128/mbio.01021-17
  8. Al-Othrubi SM, Hanafiah A, Radu S, Neoh H, Jamal R. Rapid detection and E-test antimicrobial susceptibility testing of Vibrio parahaemolyticus isolated from seafood and environmental sources in Malaysia. Saudi Med J. 2011;32(4):400–406.
  9. Hasrimi AN, Budiharjo A, Jannah SN. Detection of tlh and tdh genes in Vibrio parahaemolyticus inhabiting farmed water ecosystem used for L. vannamei aquaculture. Journal of Physics: Conference Series. 1025.
  10. Chonsin K, Matsuda S, Theethakaew C, Kodama T, Junjhon J, Suzuki Y, et al. Genetic diversity ofVibrio parahaemolyticusstrains isolated from farmed Pacific white shrimp and ambient pond water affected by acute hepatopancreatic necrosis disease outbreak in Thailand. FEMS Microbiology Letters. 2016;363(2):fnv222. doi: 10.1093/femsle/fnv222
  11. Ahmmed S, Khan MAAK, Eshik MME, Punom NJ, Islam ABMMK, Rahman MS. Genomic and evolutionary features of two AHPND positive Vibrio parahaemolyticus strains isolated from shrimp (Penaeus monodon) of south-west Bangladesh. BMC Microbiology. 2019;19(1). doi: 10.1186/s12866-019-1655-8
  12. M. Kurdi Al-Dulaimi M, Abd. Mutalib S, Abd. Ghani M, Mohd. Zaini NA, Ariffin AA. Multiple Antibiotic Resistance (MAR), Plasmid Profiles, and DNA Polymorphisms among Vibrio vulnificus Isolates. Antibiotics. 2019;8(2):68. doi: 10.3390/antibiotics8020068
  13. Giang N, Toan PV, Hung PQ. Hepatopancreatic necrosis syndrome in whiteleg shrimp (Litopenaeus vannamei) farmed in Ninh Thuan. Journal of Sciences and Tachnology in Aquaculture. 2016;1:32–38.
  14. Quang NN, Linh NQ, Linh N, Ha TN. Study on hepatopancreas necrosis disease in white shrimp cultured in Thua Thien Hue province. Journal of Agriculture and Rural Development. 2013;17(1):69–76.
  15. Restrepo L, Bayot B, Arciniegas S, Bajaña L, Betancourt I, Panchana F, et al. PirVP genes causing AHPND identified in a new Vibrio species (Vibrio punensis) within the commensal Orientalis clade. Springer Science and Business Media LLC. 2018. doi: 10.1038/s41598-018-30903-x


Copyright: © 2020 Quang, Lan, Hai, Yen, Van, Tung, Binh, Son, Linh, Tram. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Published By Indian Society for Education and Environment (iSee)


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