Development and characterization of 12 polymorphic microsatellite loci in the sea sandwort, Honckenya peploides
Codominant marker systems are better suited to analyze population structure and assess the source of an individual in admixture analyses. Currently, there is no codominant marker system using microsatellites developed for the sea sandwort, Honckenya peploides (L.) Ehrh., an early colonizer in island systems. We developed and characterized novel microsatellite loci from H. peploides, using reads collected from whole genome shotgun sequencing on a 454 platform. The combined output from two shotgun runs yielded a total of 62,669 reads, from which 58 loci were screened. We identified 12 polymorphic loci that amplified reliably and exhibited disomic inheritance. Microsatellite data were collected and characterized for the 12 polymorphic loci in two Alaskan populations of H. peploides: Fossil Beach, Kodiak Island (n = 32) and Egg Bay, Atka Island (n = 29). The Atka population exhibited a slightly higher average number of alleles (3.9) and observed heterozygosity (0.483) than the Kodiak population (3.3 and 0.347, respectively). The overall probability of identity values for both populations was PID = 2.892e−6 and PIDsib = 3.361e−3. We also screened the 12 polymorphic loci in Wilhelmsia physodes (Fisch. ex Ser.) McNeill, the most closely related species to H. peploides, and only one locus was polymorphic. These microsatellite markers will allow future investigations into population genetic and colonization patterns of the beach dune ruderal H. peploides on new and recently disturbed islands.
Citation Information
Publication Year | 2018 |
---|---|
Title | Development and characterization of 12 polymorphic microsatellite loci in the sea sandwort, Honckenya peploides |
DOI | 10.1007/s10265-018-1036-7 |
Authors | Megan C. Gravley, George K. Sage, Sandra L. Talbot, Matthew L. Carlson |
Publication Type | Article |
Publication Subtype | Journal Article |
Series Title | Journal of Plant Research |
Index ID | 70196943 |
Record Source | USGS Publications Warehouse |
USGS Organization | Alaska Science Center Biology WTEB |
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Microsatellite Genetic Data for Sea Sandwort (Honckenya peploides) and Merckia (Wilhelmsia physodes), Alaska 2009-2016
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Microsatellite Genetic Data for Sea Sandwort (Honckenya peploides) and Merckia (Wilhelmsia physodes), Alaska 2009-2016
This dataset contains sampling information and genetic data of 12 novel microsatellite loci developed and polymorphic in the Sea Sandwort (Honckenya peploides) and screened in Merckia (Wilhelmsia physodes) from Alaska. The allele sizes for the 12 microsatellite loci developed in this study are included for two populations of Sea Sandwort (Fossil Beach, Kodiak and Egg Bay, Atka) and one population - Connect