Genotypic data based on four microsatellite loci for 607 individuals spanning adult, recruit, settler and larvae of the brown mussel, Perna perna.  Samples were collected on the south-east coast of South Africa. Fieldwork was conducted between March 2016 and February 2017. The total number of samples collected per life-history stage was 344 adults from eight sites, 86 recruits and 99 settlers collected from four of these sites, and 78 larvae from five adjacent nearshore sites. All associated metadata for 607 individuals are included in the dataset.

For the generation of genotypic data, genomic DNA from adults, recruits and settlers was extracted using the CTAB protocol (Doyle and Doyle 1987; Doyle 1991). This extraction method was not suitable for larvae as too little DNA was recovered due to their small size (~150 µm in size), and a modified one-step incubation/denaturation protocol (Badenhorst and Roodt-Wilding 2007) was used instead. Samples were genotyped using four polymorphic microsatellite loci designed by Coelho et al. (Coelho et al. 2012), with a fluorescently labelled M13 primer incorporated into the PCR product (Schuelke 2000). For each specimen, PCR products were pseudo-multiplexed (pooled) and genotyped on an ABI 3130xl Genetic Analyzer (Applied Biosystems). The software Geneious was used to fit the ladder, call peaks, bin alleles and produce a table of genotypes.  Since this is diploid data, there are two alleles per locus. This is coded such that each allele is in a separate column. Missing data is depicted as 0 (zero).

Description of the data and file structure

This is a .csv file containing metadata (columns A to I) and genotypic data (columns J to Q) for 607 Perna perna individuals, consisting of four different life-history stages (adults, recruits, settlers and larvae). These specimens were sampled along the western edge of the region where the ranges of the species’ two evolutionary lineages overlap (Ntuli et al. 2020). Fieldwork was conducted between March 2016 and February 2017. The total number of samples collected per life-history stage was 344 adults from eight sites, 86 recruits and 99 settlers collected from four of these sites, and 78 larvae from five adjacent nearshore sites. Larvae were collected from the surface waters between 900 and 2400 m from the shore using a submersible 2.2 KC Denmark 23.580 plankton net during two consecutive spawning periods (McQuaid and Lawrie 2005; Porri et al. 2006, 2008).
The genotypic data was based on four polymorphic microsatellite loci (P02, P05, P08 and P29) from markers designed by Coelho et al. 2012. The software Geneious was used to fit the ladder, call peaks, bin alleles and produce a table of genotypes. This is diploid data which means there are two alleles per locus. This is coded such that each allele is in a separate column. Missing data is depicted as 0 (zero). Refer to table below that contains information on each column in the data file.

Table 1.

Sharing/Access information

There are no links to other publicly accessible locations for the data and data was not derived from another source.

Code/Software