Microsatellites from sponge genomes: the number necessary for detecting genetic structure in Hemimycale columella populations
González-Ramos, J.; Agell, G.; Uriz, M.J. (2015). Microsatellites from sponge genomes: the number necessary for detecting genetic structure in Hemimycale columella populations. Aquat. Biol. 24(1): 25-34. https://dx.doi.org/10.3354/ab00630
In: Aquatic Biology. Inter Research: Germany. ISSN 1864-7782; e-ISSN 1864-7790, more
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| Keywords |
Hemimycale columella (Bowerbank, 1874) [WoRMS]
Marine/Coastal |
| Authors | | Top | Dataset |
- González-Ramos, J.
- Agell, G.
- Uriz, M.J.
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| 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 Dest and FST 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. |
| Dataset |
- Linares, Cristina; Figuerola, Laura; Gómez-Gras, Daniel; Pagès-Escolà, Marta; Olvera, Àngela, Aubach, Àlex; Amate, Roger; Figuerola, Blanca; Kersting, Diego; Ledoux, Jean-Baptiste; López-Sanz, Àngel; López-Sendino, Paula; Medrano, Alba; Garrabou, Joaquim; (2020); CorMedNet- Distribution and demographic data of habitat-forming invertebrate species from Mediterranean coralligenous assemblages between 1882 and 2019, more
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