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Discovery of nuclear and plastid microsatellites, and other key genomic information, in the rare endemic plant (Caulanthus amplexicaulis var. barbarae) using minimal 454 pyrosequencing


Next-generation Roche 454 pyrosequencing was used to rapidly identify 149 novel nuclear microsatellite loci and five plastid microsatellites from non-enriched genomic DNA of the rare endemic Santa Barbara Jewelflower (Caulanthus amplexicaulis var. barbarae). Analysis of this dataset showed a high level of orthology to annotated genes of the model plant Arabidopsis thaliana, as well as low levels of repetitive DNA sequences (particularly transposon-like elements). Thus, a modest sequencing effort using the 454 (or equivalent long-read platform) is a cost-effective and highly informative first step in the development of molecular-genetic resources for a non-model organism.

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This work was supported by NSF grant (DEB 0416169). Instrumentation and computational resources were provided by NSF Major Research Instrumentation grant (DBI 0923502), Texas A&M Agrilife, and the Office of the Vice President for Research, Texas A&M University.

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Correspondence to Alan E. Pepper.

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Burrell, A.M., No, EG. & Pepper, A.E. Discovery of nuclear and plastid microsatellites, and other key genomic information, in the rare endemic plant (Caulanthus amplexicaulis var. barbarae) using minimal 454 pyrosequencing. Conservation Genet Resour 3, 753–755 (2011).

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  • Next-generation sequencing
  • Chloroplast
  • Marker
  • Ultramafic
  • Edaphic
  • Brassicaceae