Skip to main content
SpringerLink
Log in

Genetic characterization of Metapenaeus affinis (H. M. Edwards, 1837) using RAPD markers

  • Published:
Molecular Biology Reports Aims and scope Submit manuscript

Abstract

Genetic structure of four populations of Metapenaeus affinis from Maharashtra, Orissa, Kerala and Tamil Nadu in India was studied using RAPD markers. Five selective primers provided distinct and consistent RAPD profiles in all the four populations. The bands in the range 225–1,900 bp were scored for consistent results. The RAPD profiles generated by all the five primers revealed varying degrees of polymorphism, ranging from 25.00% (primer E-03) to 65.00% (primer E-06). Nei’s (Nei M, Natl Acad Sci Proc USA 70:3321–3323, 1973) genetic diversity (h) among the four populations varied from 0.2565 ± 0.2146 (Orissa population) to 0.3576 ± 0.1897 (Maharashtra population).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3
Fig. 4

Similar content being viewed by others

References

  1. Edwards HM (1837) Synopsis of biological data on the penaeid prawn metapenaeus affinis. FAO fisheries synopsis no. 98

  2. Lakra WS, Goswami M, Gopalakrishnan A (2009) Molecular identification and phylogenetic relationships of seven Indian Sciaenids (Pisces: Perciformes, Sciaenidae) based on 16S rRNA and cytochrome c oxidase subunit I mitochondrial genes. Mol Biol Rep. 2009 May; 36(5):831–839. Epub 2008 Apr 16. PubMed PMID: 18415704

    Google Scholar 

  3. Persis M, Chandra Sekhar Reddy A, Rao LM, Khedkar GD, Ravinder K, Nasruddin K (2009) COI (cytochrome oxidase-I) sequence based studies of Carangid fishes from Kakinada coast, India. Mol Biol Rep. 2009 Sep; 36(7):1733–1740. Epub 2008 Oct 12. PubMed PMID: 18850326

  4. Munasinghe H, Burridge C, Austin C (2004) The systematics of freshwater crayfish of the genus Cherax Erichson (Decapoda:Parastacidae) in eastern Australia re-examined using nucleotide sequences from 12S rRNA and 16S rRNA genes. Invertebr Syst Aust J Sci Res 18:215–225

    Article  CAS  Google Scholar 

  5. Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18:7213–7218

    Article  CAS  PubMed  Google Scholar 

  6. Williams JGK, Kubilik AR, Livak KL, Rafaski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535

    Article  CAS  PubMed  Google Scholar 

  7. Bardakci F, Skibinski DOF (1994) Applications of the RAPD technique in tilapia fish: species and subspecies identification. Heredity 73:117–123

    Article  CAS  PubMed  Google Scholar 

  8. Garcia DK, Benzie JAH (1995) RAPD markers of potential use in penaeid prawn (Penaeus monodon) breeding programs. Aquaculture 130:137–144

    Article  CAS  Google Scholar 

  9. Naish KA, Warren M, Bardakci F, Skibinski DOF, Carvalho GR, Mair GC (1995) Multilocus DNA fingerprinting and RAPD reveal similar genetic relationships between strains of Oreochromis niloticus (Pisces: Cichlidae). Mol Ecol 4:271–274

    Article  CAS  PubMed  Google Scholar 

  10. Dahle G, Rahman M, Eriksen AG (1997) RAPD fingerprinting used for discriminating among three populations of Hilsa shad (Tenualosa ilisha). Fish Res 32:263–269

    Article  Google Scholar 

  11. Lakra WS, Goswami M, Mohindra V, Lal KK, Punia P (2007) Molecular identification of five Indian sciaenids (Pisces: Perciformes, Sciaenidae) using RAPD markers. Hydrobiologia 583:359–363

    Article  CAS  Google Scholar 

  12. Mishra PS, Chaudhari A, Krishna G, Kumar D, Lakra WS (2009) Genetic diversity in Metapenaeus dobsonii using RAPD analysis. Biochem Genet 47:421–426

    Article  CAS  PubMed  Google Scholar 

  13. Saini A, Dua A, Mohindra V, Lakra WS (2010) Molecular discrimination of six species of Bagrid catfishes from Indus river system using randomly amplified polymorphic DNA markers. Mol Biol Rep. 2010 Feb 2. [Epub ahead of print] PubMed PMID: 20127179

  14. Abdul Muneer PM, Gopalakrishnan A, Musammilu KK, Mohindra V, Lal KK, Basheer VS, Lakra WS (2009) Genetic variation and population structure of endemic yellow catfish, Horabagrus brachysoma (Bagridae) among three populations of Western Ghat region using RAPD and microsatellite markers. Mol Biol Rep. 2009 Sep;36(7):1779–1791. Epub 2008 Nov 2. PubMed PMID: 18979230

    Google Scholar 

  15. Sambrook J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY

    Google Scholar 

  16. Yeh FC, Yang RC, Boyle T (1999) Popgene version 1.31: Microsoft windows-based freeware for population genetic analysis

  17. Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York

    Google Scholar 

  18. Sneath PHA, Sokal RR (1973) Numerical taxonomy. Freeman, San Francisco

    Google Scholar 

  19. Miller MP (1997) Tools for Population Genetic Analyses (TFPGA), version 1.3. A windows program for the analysis of allozyme and molecular population genetic data. Computer software distributed by author

  20. Nei M (1973) Analysis of genetic diversity in subdivided populations. Proc Natl Acad Sci USA 70:3321–3323

    Article  CAS  PubMed  Google Scholar 

  21. Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583–590

    CAS  PubMed  Google Scholar 

  22. Carvalho GR, Hauser L (1994) Molecular genetics and the stock concept in fisheries. Rev Fish Biol Fish 4(3): 326–350. ISSN: 0960-3166

    Google Scholar 

  23. Lester LJ (1983) Developing a selective breeding program for penaeid shrimp mariculture. Aquaculture 33:41–50

    Article  Google Scholar 

  24. Dimmock A, Williamson I, Mather P (2002) Environmental effects on morphology of mature male Macrobrachium australiense (Decapoda: Palaemonidae), European Aquaculture Society, Belgium. Special publication no. 32:208–209

  25. Avise JC (1994) Molecular markers, natural history, and evolution. Chapman and Hall, New York

    Google Scholar 

  26. Garcia DK, Faggart MA, Rhodes L, Alcivar-Warren AA, Wyban JA, Carr WH, Sweeney JN, Ebert KM (1994) Genetic diversity of cultured Penaeus vannamei shrimp using three molecular genetic techniques. Mol Mar Biol Biotechnol 3:270–280

    CAS  PubMed  Google Scholar 

  27. Klinbunga S, Siludjai D, Wuthijinda W, Tassanakajon A, Jarayabhand A, Menasveta P (2001) Genetic heterogeneity of the giant tiger shrimp (Penaeus monodon) in Thailand revealed by RAPD and mtDNA-RFLP analyses. Mar Biotechnol 3:428–438

    Article  CAS  PubMed  Google Scholar 

  28. Tassanakajon A, Pongsomboon S, Rimphanitchayakit V, Jarayabhand P, Boonsaeng V (1998) Genetic structure in wild populations of black tiger shrimp (Penaeus monodon) using randomly amplified polymorphic DNA analysis. J Mar Biotechnol 6:249–254

    PubMed  Google Scholar 

  29. Liu Z, Jarret RL, Duncan RR, Kresovich S (1994) Genetic relationships and variation among ecotypes of seashore paspalum (Paspalum vaginatum) determined by random polymorphic DNA markers. Genome 37:1011–1017

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgements

The authors are grateful to Dr. Mangala Rai, Director General, Indian Council of Agricultural Research and Dr. S. Ayyappan, Dy. Director General (Fisheries) for the encouragement and support.

Author information

Authors and Affiliations

  1. National Bureau of Fish Genetic Resources, Canal Ring Road, Dilkusha, Lucknow, 226002, India

    W. S. Lakra, M. Goswami, Akhilesh Singh & N. S. Nagpure

  2. Central Institute of Fisheries Education, Versova, Andheri (W), Mumbai, 400061, India

    Premsagar Mishra & N. Gayathri

Authors
  1. W. S. Lakra
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. M. Goswami
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Akhilesh Singh
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Premsagar Mishra
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. N. Gayathri
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. N. S. Nagpure
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to W. S. Lakra.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Lakra, W.S., Goswami, M., Singh, A. et al. Genetic characterization of Metapenaeus affinis (H. M. Edwards, 1837) using RAPD markers. Mol Biol Rep 37, 3757–3761 (2010). https://doi.org/10.1007/s11033-010-0029-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11033-010-0029-y

Keywords

Search

Navigation