Abstract
Forty-one microsatellite markers were developed for the poplar rust fungus Melampsora larici-populina. The genome sequence of M. larici-populina strain 98AG31 was screened in silico for microsatellite loci using Magellan software. Thirty-nine loci, evaluated on a sexual population of 35 M. larici-populina isolates sampled on larch trees in the French Alps, were identified to be highly polymorphic. These markers revealed two to 34 alleles, with an average of 7.23 alleles per locus. The estimated heterozygosity ranged from 0.029 to 0.958 across the 41 microsatellite loci. These markers will be highly useful for population genetics studies of M. larici-populina.
This is a preview of subscription content, log in via an institution to check access.
References
Barrès B, Dutech C, Andrieux A, Caron H, Pinon J, Frey P (2006) Isolation and characterization of 15 microsatellite loci in the poplar rust fungus, Melampsora larici-populina, and cross-amplification in related species. Mol Ecol Notes 6:60–64. doi:10.1111/j.1471-8286.2005.01137.x
Barrès B, Halkett F, Dutech C, Andrieux A, Pinon J, Frey P (2008) Genetic structure of the poplar rust fungus Melampsora larici-populina: evidence for isolation by distance in Europe and recent founder effects overseas. Infect Genet Evol 8:577–587. doi:10.1016/j.meegid.2008.04.005
Belkhir K, Borsa P, Goudet J, Chikhi L, Bonhomme F (2000) Genetix v. 4.05. Logiciel Sous Windows TM, Pour la Génétique Des Populations. Laboratoire Génome, Populations, Interactions. CNRS UMR 5000, Université de Montpellier II, Montpellier, France
Dutech C, Enjalbert J, Fournier E, Delmotte F, Barrès B, Carlier J, Tharreau D, Giraud T (2007) Challenges of microsatellite isolation in fungi. Fungal Genet Biol 44:933–949. doi:10.1016/j.fgb.2007.05.003
Gérard P, Husson C, Pinon J, Frey P (2006) Comparison of genetic and virulence diversity of Melampsora larici-populina populations on wild and cultivated poplar and influence of the alternate host. Phytopathology 96:1027–1036. doi:10.1094/PHYTO-96-1027
Raymond M, Rousset F (1995) GenePop (Version 1.2): population genetics software for exact tests and ecumenicism. J Heredity 86:248–249
Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologists programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, pp 365–386
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 4:535–538. doi:10.1111/j.1471-8286.2004.00684.x
Acknowledgements
This research was supported by grants from ECOGER (AIP 00295-298, InterPopGer program), ANR (ANR 07-BDIV-003, Emerfundis program), INRA, and a fellowship from the French Ministry of Education and Research (MESR) to CX. We would like to thank the US Department of Energy Joint Genome Institute (http://www.jgi.doe.gov/) and the Melampsora Genome Consortium (http://mycor.nancy.inra.fr/genomeResources.php) for access to the M. larici-populina genome sequence prior to publication. We are grateful to Sébastien Duplessis, Francis Martin, Jessy Labbé and Marie-Pierre Oudot-Le Secq (INRA, Nancy) for fruitful discussions.
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Xhaard, C., Andrieux, A., Halkett, F. et al. Characterization of 41 microsatellite loci developed from the genome sequence of the poplar rust fungus, Melampsora larici-populina . Conservation Genet Resour 1, 21 (2009). https://doi.org/10.1007/s12686-009-9005-z
Received:
Accepted:
Published:
DOI: https://doi.org/10.1007/s12686-009-9005-z