Discovery and characterization of microsatellites for the solitary bee Colletes inaequalis using Sanger and 454 pyrosequencing

Apidologie

Volumn 44, Issue 2, 2013, Pages 163-172

  López Uribe, Margarita M ^a   Santiago, Christine K ^a   Bogdanowicz, Steve M ^a   Danforth, Bryan N ^a  

^a Cornell University ^*  (United States)

Author keywords

cloning; Colletidae; next generation sequencing; SSRs

Indexed keywords

BEE; ENTOMOLOGY; GENETIC MARKER; GENOME; HETEROZYGOSITY;

APOIDEA; COLLETES INAEQUALIS; COLLETIDAE;

EID: 84878338318     PISSN: 00448435     EISSN: 12979678     Source Type: Journal    
DOI: 10.1007/s13592-012-0168-3     Document Type: Article

References (43)

1. Abdelkrim, J.; Robertson, B.; Stanton, J.-A.; Gemmell, N. (2009) Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. Biotechniques 46, 185-192
2. Andrés, J.A.; Bogdanowicz, S.M. (2011) Isolating microsatellite loci: looking back, looking ahead. In: Orgogozo, V.; Rickman, M.V. (eds.) Molecular Methods for Evolutionary Genetics, pp. 211-232. Springer Protocols, Secaucus
3. Augusto, S.C.; Gonçalves, P.H.P.; Francisco, F.O.; Santiago, L.R.; Françoso, E.A.; Suzuki, K.M.; Sofia, S.H.; Simões, Z.L.P.; Arias, M.C. (2011) Microsatellite loci for the carpenter bee Xylocopa frontalis (Apidae, Xylocopini). Conser. Genet. Resour. 4, 315-317
4. Azuma, N.; Takahashi, J.; KIidoro, M.; Higashi, S. (2005) Isolation and characterization of microsatellite loci in the bee Ceratina flavipes. Mol. Ecol. Notes 5, 433-435
5. Batra, S.W.T. (1980) Ecology, behavior, pheromones, parasites and management of the sympatric vernal bees Colletes inaequalis, C. thoracicus and C. validus. J. Kans. Entomol. Soc. 53, 509-538
6. Batra, S.W.T. (1995) Bees and pollination in our changing environment. Apidologie 26, 361-370
7. Belkhir, K.; Borsa, P.; Chikhi, L.; Raufaste, N.; Bonhomme, F. (2004) GENETIX 4.05, logiciel sous Windows TM pour la génétique des populations. Montpellier (France): Laboratoire Génome, Populations, Interactions, CNRS UMR 5171, Université de Montpellier II
8. Beveridge, M.; Simmons, L.W. (2004) Microsatellite loci for Dawson's burrowing bee (Amegilla dawsoni) and their cross-utility in other Amegilla species. Mol. Ecol. Notes. 4, 379-381
9. Blair, M.W.; McCouch, S.R. (1997) Microsatellite and sequence-tagged site markers diagnostic for the rice bacterial leaf blight resistance gene xa-5. Theor. Appl. Genet. 95, 174-184
10. Brownstein, M.J.; Carpten, J.D.; Smith, J.R. (1996) Modulation of non-templated nucleotide addition by Taq DNA polymerase: primer modifications that facilitate genotyping. Biotechniques 20, 1004-1010
11. Danforth, B.N.; Ji, S.; Ballard, L.J. (2003) Gene flow and population structure in an oligolectic desert bee, Macrotera (Macroteropsis) portalis. J. Kans. Entomol. Soc. 76, 221-235
12. Gardner, K.E.; Ascher, J.S. (2006) Notes on the native bee pollinators in New York apple orchard. J. N. Y. Entomol. Soc. 114, 86-91
13. Hamilton, M.B.; Pincus, E.L.; Di Fiore, A.; Fleischer, R.C. (1999) Universal linker and ligation procedures for construction of genomic DNA libraries enriched for microsatellites. Biotechniques 27, 500-504
14. Huse, S.M.; Huber, J.A.; Morrison, H.G.; Sogin, M.L.; Welch, D.M. (2007) Accuracy and quality of massively parallel DNA pyrosequencing. Genome Biol 8, R143
15. Kapheim, K.M.; Pollinger, J.P.; Wcislo, W.T.; Wayne, R.K. (2009) Characterization of 12 polymorphic microsatellite markers for a facultatively eusocial sweat bee (Megalopta genalis). Mol. Ecol. Resour. 9, 1527-1529
16. Kukuk, P.F.; Forbes, S.H.; Zahorchack, R.; Riddle, A.; Pilgrim, K. (2002) Highly polymorphic microsatellite markers developed for the social halictine bee Lasioglossum (Chilalictus) hemichalceum. Mol. Ecol. Notes 2, 529-530
17. Langer, P.; Molbo, D.; Keller, L. (2004) Polymorphic microsatellite loci in Allodapine bees for investigating the evolution of social behaviour. Mol. Ecol. Notes 4, 303-305
18. Li, Y.C.; Korol, A.B.; Fahima, T.; Beiles, A.; Nevo, E. (2002) Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol. Ecol. 11, 2453-2465
19. López-Uribe, M.M.; Green, A.N.; Ramírez, S.R.; Bogdanowicz, S.M.; Danforth, B.N. (2010) Isolation and cross-species characterization of polymorphic microsatellites for the orchid bee Eulaema meriana (Hymenoptera: Apidae: Euglossini). Conser. Genet. Resour. 1, 21-23
20. Mikheyev, A.S.; Vo, T.; Wee, B.; Singer, M.C.; Parmesan, C. (2010) Rapid microsatellite isolation from a butterfly by de novo transcriptome sequencing: performance and a comparison with AFLP-derived distances. PLoS One 5, e11212
21. Mohra, C.; Fellendorf, M.; Segelbacher, G.; Paxton, R.J. (2000) Dinucleotide microsatellite loci for Andrena vaga and other andrenid bees from non-enriched and CT-enriched libraries. Mol. Ecol. 9, 2189-2191
22. Neumann, K.; Seidelmann, K. (2006) Microsatellites for the inference of population structures in the Red Mason bee Osmia rufa (Hymenoptera, Megachilidae). Apidologie 37, 75-83
23. Paxton, R.J.; Thorén, P.A.; Tengö, J.; Estoup, A.; Pamilo, P. (1996) Mating structure and nestmate relatedness in a communal bee, Andrena jacobi (Hymenoptera, Andrenidae), using microsatellites. Mol. Ecol. 5, 511-519
24. Paxton, R.J.; Ayasse, M.; Field, J.; Soro, A. (2002) Complex sociogenetic organization and reproductive skew in a primitively eusocial sweat bee, Lasioglossum malachurum, as revealed by microsatellites. Mol. Ecol. 11, 2405-2416
25. Paxton, R.J.; Zobel, M.U.; Steiner, J.; Zillikens, A. (2009) Microsatellite loci for Euglossa annectans (Hymenoptera: Apidae) and their variability in other orchid bees. Mol. Ecol. Resour. 9, 221-1223
26. Perry, J.C.; Rowe, L. (2011) Rapid microsatellite development for water striders by next-generation sequencing. J. Hered. 102, 125-129
27. Santana, Q.; Coetzee, M.; Steenkamp, E.; Mlonyeni, O.; Hammond, G.; Wingfield, M.; Wingfield, B. (2009) Microsatellite discovery by deep sequencing of enriched genomic libraries. Biotechniques 46, 217-223
28. Schlötterer, C.; Tautz, D. (1992) Slippage synthesis of simple sequence DNA. Nucleic Acids Res. 20, 211-215
29. Schuelke, M. (2000) An economic method for the fluorescent labeling of PCR fragments. Nat. Biotechnol. 18, 233-234
30. Smit, A.F.A.; Hubley, R.; Green, P. (2010) RepeatMasker Open-3.0. Available from: http://www.repeatmasker.org
31. Soro, A.; Paxton, R.J. (2009) Characterization of 14 polymorphic microsatellite loci for the facultatively eusocial sweat bee Halictus rubicundus (Hymenoptera, Halictidae) and their variability in related species. Mol. Ecol. Resour. 9, 150-152
32. Souza, R.O.; Cervini, M.; Del Lama, M.A.; Paxton, R.J. (2007) Microsatellite loci for euglossine bees (Hymenoptera: Apidae). Mol. Ecol. Notes 7, 1352-1356
33. Tautz, D. (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17, 6463-6471
34. Trombetti, G.A.; Bonnal, R.J.P.; Rizzi, E.; De Bellis, G.; Milanesi, L. (2007) Data handling strategies for high throughput pyrosequencers. BMC Bioinforma. 8, S22
35. Väli, U.; Einarsson, A.; Waits, L.; Ellegren, H. (2008) To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations? Mol. Ecol. 17, 3808-3817
36. Vereecken, N.J. (2008) Pollinator-mediated selection, reproductive isolation and floral evolution in Ophrys orchids. Proc. Neth. Entomol. Soc. Meet. 19, 9-21
37. Weber, J.L.; Polymeropoulos, M.H.; May, P.E.; Kwitek, A.E.; Xiao, H.; McPherson, J.D.; Wasmuth, J.J. (1991) Mapping of human chromosome 5 microsatellite DNA polymorphisms. Genomics 11, 695-700
38. Winfree, R.; Williams, N.M.; Dushoff, J.; Kremen, C. (2007) Native bees provide insurance against ongoing honey bee losses. Ecol. Lett. 10, 1105-1113
39. Zalapa, J.E.; Cuevas, H.; Zhu, H.; Steffan, S.; Senalik, D.; Zeldin, E.; McCown, B.; Harbut, R.; Simon, P. (2012) Using next-generation sequencing approaches to isolate simple sequence repeat (SSR) loci in the plant sciences. Am. J. Bot. 99, 193-208
40. Zane, L.; Bargelloni, L.; Patarnello, T. (2002) Strategies for microsatellite isolation: a review. Mol. Ecol. 11, 1-16
41. Zayed, A. (2006) Characterization of microsatellite loci from the solitary sweat bees Lasioglossum leucozonium and Lasioglossum oenotherae (Hymenoptera, Halictidae). Mol. Ecol. Notes 6, 1154-1156
42. Zayed, A. (2009) Bee genetics and conservation. Apidologie 40, 237-262
43. Zayed, A.; Constantin, Ş.A.; Packer, L. (2007) Successful biological invasion despite a severe genetic load. PLoS One 9, e868