Abstract
Invasive species can significantly affect local biodiversity and create important challenges for conservation. They usually present an outstanding plasticity that permits the adaptation to the new environments. Understanding their genetic background is fundamental to better comprehend invasion dynamics and elaborate proper management plans as well to infer population and evolutionary patterns. Here, we present a reasonable set of tools for the study of a highly invasive earthworm, the megascolecid Amynthas corticis. We designed in silico a large set of primers targeting microsatellite regions (ca. 9400) from two low coverage genomes presented here. This study provides 154 high quality primer pairs targeting polymorphic repeats conserved in two Amynthas corticis mitochondrial lineages. From this dataset, a set of primer pairs (15) was validated by polymerase chain reaction with 86% consistent amplification, confirming the accuracy of the in silico prediction. Nine of the primer pairs tested were selected for population genetics and presented polymorphism in the studied populations, thus showing promising potential for future studies of this global invasive species. The nuclear markers used in this study appear to recapitulate and complement the mitochondrial relationships found in a previous study. Interestingly, all genotyped individuals showed at least one triploid locus profile among the tested loci, which may be evidence of polyploidy associated to their life history, in particular to asexual reproduction by parthenogenesis.
Highlights
Invasive species can significantly affect local biodiversity and create important challenges for conservation
Microsatellites allow the study of genetic diversity and its spatial structure at a finer scale than mitochondrial markers in earthworms (Novo et al, 2010), for whose distribution environmental soil microvariables are known to be of great importance (Joschko et al, 2006; Palm et al, 2013)
Contigs used for the microsatellite mining were de novo assembled using SOAPdenovo v.2 (Luo et al, 2012) using short-reads. These draft genomes are available from the European Nucleotide Archive (ENA) under the study number: PRJEB20839
Summary
Invasive species can significantly affect local biodiversity and create important challenges for conservation. Microsatellites allow the study of genetic diversity and its spatial structure at a finer scale than mitochondrial markers in earthworms (Novo et al, 2010), for whose distribution environmental soil microvariables are known to be of great importance (Joschko et al, 2006; Palm et al, 2013). We assembled genomic information of A. corticis from two of the lineages identified in Novo et al (2015) in Azores (Portugal), namely lineages A and C.
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