Microsatellites from sponge genomes: the number necessary for detecting genetic structure in Hemimycale columella populations

Aquatic Biology

Gemma Agell¹  Maria J. Uriz¹  Janina González-Ramos¹ 

关键词: SSRs;    Pyrosequencing;    Population genetics;    Genetic differentiation;    Porifera;    Hemimycale columella;    Conservation genetics;   

DOI  :  10.3354/ab00630

学科分类：生物科学（综合）

来源: Inter-Research

【 摘 要 】

ABSTRACT: Using next-generation sequencing technology, we designed a pool of microsatellite primers and amplified them in 2 physically isolated populations of the Atlanto-Mediterranean sponge Hemimycale columella, which exhibits particular evolutionary, biological, and ecological features. The species has contrasting life cycles in shallow and relatively deep waters, and releases small, predictably low-dispersal larvae. This study experimentally evaluated how many polymorphic microsatellites would be necessary to detect genetic structure in H. columella populations, and whether or not the use of compound loci is advisable. By sequencing 1/2 454 GS-FLX run, we obtained a total of 4208 sequences enclosing microsatellite motifs. We selected 20 microsatellites, 15 of which proved adequate for the genetic study of the sponge populations. The 2 analyzed populations were genetically structured with all microsatellite combinations assayed, and the values of the D_est and F_ST statistics did not increase with increasing number of loci. A weak signal of genetic structure, however, was shown in bar plots representing membership coefficients for each individual to each sampling location even with all loci. We conclude that a few polymorphic loci can detect structure in H. columella populations, but using 12 or more loci notably enhances the power of the analyses. The study also describes a low-cost protocol for obtaining microsatellites by the hundreds from non-model, ecologically relevant species, which can be used to provide information about population isolation, adaptation, and vulnerability.

【 授权许可】

Unknown