Conservation Genetics Resources

, Volume 4, Issue 2, pp 265–268 | Cite as

New tetranucleotide microsatellite loci in pink abalone (Haliotis corrugata) isolated via 454 pyrosequencing

  • A. P. Greenley
  • A. Muguia-Vega
  • A. Saenz-Arroyo
  • F. Micheli
Technical Note

Abstract

Microsatellite loci were developed for the pink abalone (Haliotis corrugata) via 454 high-throughput sequencing. From 193 tetranucleotide repeats identified from 77.5 Mb of sequence, we tested 80 loci and successfully amplified and scored 18 microsatellite markers. All loci were polymorphic with number of alleles ranging from 5 to 21. Average observed and expected heterozygosities were 0.745 and 0.844, respectively. Three loci deviated from Hardy–Weinberg equilibrium, two of which had significant deficits of heterozygotes and only one displayed statistical evidence of a null allele. None of the loci exhibited linkage disequilibrium. These loci are a valuable asset for fine-scale population genetic and paternity studies centered on the conservation and management of pink abalone.

Keywords

Baja California Fisheries Haliotis corrugata Abalone Microsatellites Paternity 

References

  1. Amos W, Hoffman JI, Frodsham A, Zhang L, Best S, Hill AVS (2007) Automated binning of microsatellite alleles: problems and solutions. Mol Ecol Notes 7:10–14CrossRefGoogle Scholar
  2. Christie MR, Tissot BN, Albins Ma, Beets JP, Jia Y, Ortiz DM, Thompson SE, Ma Hixon (2010) Larval connectivity in an effective network of marine protected areas. PLoS ONE 5:e15715PubMedCrossRefGoogle Scholar
  3. Díaz-Viloria N, Pérez-Enríquez R, Fiore-Amaral G, Burton RS, Cruz P (2008) Isolation and cross-amplification of microsatellites in pink abalone (Haliotis corrugata). Mol Ecol Resour 8:701–703PubMedCrossRefGoogle Scholar
  4. Gell FR, Roberts CM (2003) Benefits beyond boundaries: the fishery effects of marine reserves. Trends Ecol Evol 18:448–455CrossRefGoogle Scholar
  5. Jones AG, Ardren WR (2003) Methods of parentage analysis in natural populations. Mol Ecol 12:2511–2523PubMedCrossRefGoogle Scholar
  6. Karpov KA, Haaker PL, Taniguchi IK, Rogers-Bennett L (2000) Serial depletion and the collapse of the California abalone (Haliotis spp.) fishery. Fisheries (Bethesda) 200:11–24Google Scholar
  7. Larkin MA, Blackshields G, Brown NP et al (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23:2947–2948PubMedCrossRefGoogle Scholar
  8. Malausa T, Gilles A, Meglécz E, Blanquart H, Duthoy S, Costedoat C, Dubut V, Pech N, Castagnone-Sereno P, Délye C, Feau N, Frey P, Gauthier P, Guillemaud T, Hazard L, Le Corre V, Lung-Escarmant B, Malé P-JG, Ferreira S, Martin J-F (2011) High-throughput microsatellite isolation through 454 GS-FLX titanium pyrosequencing of enriched DNA libraries. Mol Ecol Resour 11:638–644PubMedCrossRefGoogle Scholar
  9. Meglécz E, Costedoat C, Dubut V et al (2010) QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects. Bioinformatics 26:403–404PubMedCrossRefGoogle Scholar
  10. Morales-Bojórquez E, Muciño-Díaz MO, Vélez-Barajas JA (2008) Analysis of the decline of the abalone fishery (Haliotis fulgens and H. corrugata) along the Westcentral coast of the Baja California Peninsula, Mexico. J Shellfish Res 27:865–870CrossRefGoogle Scholar
  11. Munguia-Vega A, Soria G, Pfister T, Cudney-Bueno R (2010) Isolation and characterization of microsatellite loci in the rock scallop (Spondylus calcifer) (Bivalvia: Spondylidae) from the Northern Gulf California, Mexico. Conserv Genet Resour 2:51–54CrossRefGoogle Scholar
  12. Palumbi SR (2003) Population genetics, demographic connectivity, and the design of marine reserves. Ecol Appl 13:146–158CrossRefGoogle Scholar
  13. Peakall R, Smouse PE (2006) GENALEX 6: genetic analysis in excel population genetic software for teaching and research. Mol Ecol Notes 6:288–295CrossRefGoogle Scholar
  14. Planes S, Jones GP, Thorrold SR (2009) Larval dispersal connects fish populations in a network of marine protected areas. Proc Natl Acad Sci USA 106:5693–5697PubMedCrossRefGoogle Scholar
  15. Raymond M, Rousset F (1995) GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J Hered 86:248–249Google Scholar
  16. Rozen S, Skaletsky H (2000) Primer3 on the www for general users and for biologist programmers. In: Misener S, Krawetz SA (eds) Methods in molecular biology. Humana Press Inc., TotowaGoogle Scholar
  17. Sale PF, Cowen RK, Danilowicz BS, Jones GP, Kritzer JP, Lindeman KC, Planes S, Polunin NVC, Russ GR, Sadovy YJ, Steneck RS (2005) Critical science gaps impede use of no-take fishery reserves. Trends Ecol Evol 20:74–80PubMedCrossRefGoogle Scholar
  18. Schuelke M (2000) An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol 18:233–234PubMedCrossRefGoogle Scholar
  19. Selkoe KA, Toonen RJ (2006) Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol Lett 9:615–629PubMedCrossRefGoogle Scholar
  20. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) Micro-Checker: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media B.V. 2011

Authors and Affiliations

  • A. P. Greenley
    • 1
  • A. Muguia-Vega
    • 2
  • A. Saenz-Arroyo
    • 3
  • F. Micheli
    • 1
  1. 1.Hopkins Marine StationStanford UniversityPacific GroveUSA
  2. 2.Conservation Genetics Laboratory, School of Natural Resources and the EnvironmentThe University of ArizonaTucsonUSA
  3. 3.Comunidad y Biodiversidad A.C.GuaymasMexico

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