Skip to main content
SpringerLink
Log in

Highly polymorphic microsatellite loci for the Acapulco damselfish, Stegastes acapulcoensis, and cross amplification in three congeneric species

  • Short Communication
  • Published:
Marine Biodiversity Aims and scope Submit manuscript

Abstract

In the present study we report a set of 13 novel microsatellites isolated from and characterized for the Acapulco damselfish Stegastes acapulcoensis, a species endemic to, but widely distributed within, the Eastern Tropical Pacific (ETP) region. The loci were tested in 30 individuals from the Colombian Pacific and were highly polymorphic. The mean allele number per locus was 19.5 (± 4.03 SD) and the observed heterozygosities ranged from 0.192 to 1. Some of the loci were successfully cross-amplified and were polymorphic in three Stegastes species from the ETP: S. arcifrons, S. flavilatus and S. beebei (with 11, three and seven amplified loci, respectively). The high variability and cross-amplification success of the new set of microsatellites reported here allows these markers to be a useful resource for genetic studies of S. acapulcoensis and some of their congeners to address evolutionary, ecological and conservation-related questions in the Eastern Tropical Pacific.

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

References

  • Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B 57:289–300. doi:10.2307/2346101

    Article  Google Scholar 

  • Chistiakov DA, Hellemans B, Volckaert FAM (2006) Microsatellites and their genomic distribution, evolution, function and applications: a review with special reference to fish genetics. Aquaculture 255(1):1–29. doi:10.1016/j.aquaculture.2005.11.031

    Article  CAS  Google Scholar 

  • Estoup A, Angers B (1998) Microsatellites and Minisatellites for Molecular Ecology: Theoretical and Empirical Consideration. In Carvalho GR (ed) Advances in Molecular Ecology. IOS Press & Ohmsha. pp. 55–79

  • Glenn TC, Schable NA (2005) Isolating microsatellite DNA loci. Methods Enzymol 395:202–222. doi:10.1016/S0076-6879(05)95013-1

    Article  CAS  PubMed  Google Scholar 

  • Goudet J (2002) FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3.2). URL: http://www2.unil.ch/popgen/softwares/fstat.htm

  • Grove JS (1984) Influence of the 1982-83 EI Niño on the ichthyofauna on the Galápagos archipelago. Trop. Ocean-Atmosphere Newsletter Nov 1984:18–19

    Google Scholar 

  • Hildebrand CE, Torney DC, Wagner RP (1992) Informativeness of polymorphic DNA markers. Los Alamos Sci 20:100–102

    CAS  Google Scholar 

  • Kalinowski ST, Taper ML, Marshall TC (2007) Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol Ecol 16:1099–1106. doi:10.1111/j.1365-294X.2007.03089.x

    Article  PubMed  Google Scholar 

  • Lischer HEL, Excoffier L (2012) PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs. Bioinformatics 28(2):298–299. doi:10.1093/bioinformatics/btr642

    Article  CAS  PubMed  Google Scholar 

  • Maddox JD, Feldheim KA (2014) A cost-effective size standard for fragment analysis that maximizes throughput on five dye set platforms. Conserv Genet Resour 6(1):5–7. doi:10.1007/s12686-013-0019-1

    Article  Google Scholar 

  • Meekan MG, Ackerman JL, Wellington GM (2001) Demography and age structures of coral reef damselfishes in the tropical eastern Pacific Ocean. Mar Ecol Prog Ser 212:223–232. doi:10.3354/meps212223

    Article  Google Scholar 

  • Raymond M, Rousset F (1995) GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J. Heredity 86:248–249. doi:10.1111/j.0021-8790.2004.00839.x

    Article  Google Scholar 

  • Robertson DR, Allen GR (2015) Shorefishes of the tropical eastern Pacific: online information system. Version 2.0 Smithsonian Tropical Research Institute, Balboa

  • Rodríguez-Moreno M, López-Victoria M, Zapata FA (2011) First record of the Beaubrummel (Stegastes flavilatus) in reef habitats of Malpelo Island. Bull Invest Mar Cost 40:181–184

    Google Scholar 

  • Rousset F (2008) GENEPOP’007: a complete re-implementation of the GENEPOP software for windows and Linux. Mol Ecol Resour 8(1):103–106. doi:10.1111/j.1471-8286.2007.01931.x

    Article  PubMed  Google Scholar 

  • Ruttenberg BI, Lester SE (2015) Patterns and processes in geographic range size in coral reef fishes. In: Mora C (ed) Ecology of fishes on coral reefs. Cambridge University Press, Cambridge, pp 97–103

    Chapter  Google Scholar 

  • Schuelke M (2000) An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol 18(2):233–234. doi:10.1038/72708

    Article  CAS  Google Scholar 

  • Selkoe KA, Toonen RJ (2006) Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol Lett 9:615–629. doi:10.1111/j.1461-0248.2006.00889.x

    Article  PubMed  Google Scholar 

  • Sunnucks P, Hales DF (1996) Numerous transposed sequences of mitochondrial cytochrome oxidase I-II in aphids of the genus Sitobion (Hemiptera: Aphididae). Mol Biol Evol 13(3):510–524. doi:10.1093/oxfordjournals.molbev.a025612

    Article  CAS  PubMed  Google Scholar 

  • Thiessen RJ, Heath DD (2007) Characterization of one trinucleotide and six dinucleotide microsatellite markers in bicolor damselfish, Stegastes partitus, a common coral reef fish. Conserv Genet 8:983–985. doi:10.1007/s10592-006-9207-9

    Article  CAS  Google Scholar 

  • Urbiola-Rangel E, Chassin-Noria O (2013) Genetic connectivity of Stegastes acapulcoensis (Pomacentridae) on Mexican central Pacific. Hidrobiológica 23(3):415–419

    Google Scholar 

  • 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(3):535–538. doi:10.1111/j.1471-8286.2004.00684.x

    Article  CAS  Google Scholar 

  • Victor BC, Wellington GM, Robertson DR, Ruttenberg BI (2001) The effect of the el Niño-southern oscillation event on the distribution of reef-associated labrid fishes in the eastern Pacific Ocean. Bull Mar Sci 69:279–288

    Google Scholar 

  • Wellington GM (1982) Depth zonation of corals in the Gulf of Panama: control and facilitation by resident reef fishes. Ecol Monogr 52:223–241. doi:10.2307/2937329

    Article  Google Scholar 

  • Williams DA, Purcell J, Hughes CR, Cowen RK (2003) Polymorphic microsatellite loci for population studies of the bicolor damselfish, Stegastes partitus (Pomacentridae). Mol Ecol Notes 3:547–549. doi:10.1046/j.1471-8286.2003.00506.x

    Article  CAS  Google Scholar 

Download references

Acknowledgements

This project was supported with funds from COLCIENCIAS (Colombian Administrative Department of Science, Technology and Innovation) grant No. FP44842-540-2014 awarded to FAZ and the Coral Reef Ecology Research Group of Universidad del Valle, Colombia. We are grateful for the technical support provided by the Human Genetic Lab and the Ichthyology Lab of Universidad del Valle, and the Molecular Ecology and Evolution Laboratory (MEEL) of James Cook University, Townsville, Australia. Thanks also to Floriaan Devlo-Delva for his assistance in the lab. We thank the System of National Natural Parks of Colombia and Malpelo and other Marine Ecosystems Foundation for logistical support in the field. We also thank the Marine and Coastal Research institute of Colombia, INVEMAR, for their support within the academic and scientific cooperation agreement No. 010-12. Microsatellite enrichment was performed in the Pritzker Laboratory for Molecular Systematics and Evolution operated with support from the Pritzker Foundation.

Author information

Authors and Affiliations

  1. Coral Reef Ecology Research Group, Department of Biology, Universidad del Valle, Calle 13 No. 100-00, A.A, 25360, Cali, Colombia

    Melina Rodríguez-Moreno, Fernando A. Zapata & Sandra Ramírez-Calero

  2. Fundación Ecomares, Calle 39N # 3CN-89, Cali, Colombia

    Melina Rodríguez-Moreno

  3. College of Science and Engineering, Discipline of Marine and Tropical Biology, James Cook University, Townsville, 4811, Australia

    Lynne van Herwerden

  4. Pritzker Laboratory for Molecular Systematics and Evolution, The Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA

    Kevin Feldheim

Authors
  1. Melina Rodríguez-Moreno
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Fernando A. Zapata
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Sandra Ramírez-Calero
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Lynne van Herwerden
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Kevin Feldheim
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Melina Rodríguez-Moreno.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Additional information

Communicated by H. Stuckas

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Rodríguez-Moreno, M., Zapata, F.A., Ramírez-Calero, S. et al. Highly polymorphic microsatellite loci for the Acapulco damselfish, Stegastes acapulcoensis, and cross amplification in three congeneric species. Mar Biodiv 49, 481–486 (2019). https://doi.org/10.1007/s12526-017-0761-9

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12526-017-0761-9

Keywords

Search

Navigation