High-throughput microsatellite isolation through 454 GS-FLX Titanium pyrosequencing of enriched DNA libraries

Molecular Ecology Resources

Volumn 11, Issue 4, 2011, Pages 638-644

  Malausa, Thibaut ^a   Gilles, André ^b   Meglécz, Emese ^b   Blanquart, Hélène ^c   Duthoy, Stéphanie ^c   Costedoat, Caroline ^b   Dubut, Vincent ^b   Pech, Nicolas ^b   Castagnone Sereno, Philippe ^a   Délye, Christophe ^d   Feau, Nicolas ^e   Frey, Pascal ^f   Gauthier, Philippe ^g   Guillemaud, Thomas ^a   Hazard, Laurent ^h   Le Corre, Valérie ^d   Lung Escarmant, Brigitte ^e   Malé, Pierre Jean G ⁱ   Ferreira, Stéphanie ^c   Martin, Jean François ^g  

^a CNRS   (France)

^b AIX MARSEILLE UNIVERSITY   (France)

^c INSTITUT PASTEUR DE LILLE   (France)

^d CEMAGREF   (France)

^e UMR 1202 BIOGECO   (France)

^f UNIVERSITÉ DE LORRAINE   (France)

^g INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^h UNIVERSITÉ DE TOULOUSE   (France)

ⁱ École Nationale de Formation Agronomique   (France)

Author keywords

Enriched library; Genetic marker; Genotyping; Microsatellite isolation; Next generation sequencing; Primer design; Pyrosequencing

Indexed keywords

ANIMALIA; APIS MELLIFERA; FUNGI;

EID: 79959250426     PISSN: 1755098X     EISSN: 17550998     Source Type: Journal    
DOI: 10.1111/j.1755-0998.2011.02992.x     Document Type: Article

References (16)

1. Abdelkrim J, Robertson BC, Stanton JAL, Gemmell NJ (2009) Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. BioTechniques, 46, 185-191.
2. Allentoft ME, Schuster SC, Holdaway RN et al. (2009) Identification of microsatellites from an extinct moa species using high-throughput (454) sequence data. BioTechniques, 46, 195-200.
3. Castoe TA, Poole AW, Gu W et al. (2010) Rapid identification of thousands of copperhead snake (Agkistrodon contortrix) microsatellite loci from modest amounts of 454 shotgun genome sequence. Molecular Ecology Resources, 10, 341-347.
4. Dutech C, Enjalbert J, Fournier E et al. (2007) Challenges of microsatellite isolation in fungi. Fungal Genetics and Biology, 44, 933-949.
5. Kijas JMH, Fowler JCS, Garbett CA, Thomas MR (1994) Enrichment of microsatellites from the Citrus genome using biotinylated oligonucleotide sequences bound to streptavidin-coated magnetic particles. BioTechniques, 16, 656-662.
6. Lagercrantz U, Ellegren H, Andersson L (1993) The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates. Nucleic Acids Research, 21, 1111-1115.
7. Meglécz E, Petenian F, Danchin E et al. (2004) High similarity between flanking regions of different microsatellites detected within each of two species of Lepidoptera: Parnassius apollo and Euphydryas aurinia. Molecular Ecology, 13, 1693-1700.
8. Meglécz E, Anderson SJ, Bourguet D et al. (2007) Microsatellite flanking region similarities among different loci within insect species. Insect Molecular Biology, 16, 175-185.
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, 403-404.
10. Péténian F, Meglécz E, Genson G, Rasplus JY, Faure E (2005) Isolation and characterization of polymorphic microsatellites in Parnassius apollo and Euphydryas aurinia (Lepidoptera). Molecular Ecology Notes, 5, 243-245.
11. Richard GF, Kerrest A, Dujon B (2008) Comparative genomics and molecular dynamics of DNA repeats in Eukaryotes. Microbiology and Molecular Biology Reviews, 72, 686-727.
12. Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. Methods in Molecular Biology, 132, 365-386.
13. Santana QC, Coetzee MPA, Steenkamp ET et al. (2009) Microsatellite discovery by deep sequencing of enriched genomic libraries. BioTechniques, 46, 217-223.
14. Solignac M, Mougel F, Vautrin D, Monnerot M, Cornuet J-M (2007) A third-generation microsatellite-based linkage map of the honey bee, Apis mellifera, and its comparison with the sequence-based physical map. Genome Biology, 8, R66.
15. Sunnucks P (2000) Efficient genetic markers for population biology. Trends in Ecology and Evolution, 15, 199-203.
16. Toth G, Gaspari Z, Jurka J (2000) Microsatellites in different eukaryotic genomes: survey and analysis. Genome Research, 10, 967-981.