Development and characterization of microsatellite markers for the Hawaiian coot, Fulica alai, and Hawaiian gallinule, Gallinula galeata sandvicensis, through next-generation sequencing

Abstract

We used next generation shotgun sequencing to develop novel microsatellite markers for two endangered waterbirds; the Hawaiian coot (Fulica alai) and Hawaiian gallinule (Gallinula galeata sandvicensis). The 20 loci polymorphic in the Hawaiian coot displayed moderate allelic diversity (average 3.8 alleles/locus) and heterozygosity (average 59.5 %). The 12 loci variable for the Hawaiian gallinule exhibited lower levels of allelic diversity (average 2.4 alleles/locus) and heterozygosity (average 47.5 %). Loci were in linkage equilibrium and only one locus deviated from Hardy–Weinberg equilibrium. These loci are sufficiently variable to assess levels of genetic diversity and will be useful for conservation genetic studies to aid in the management of these endangered waterbirds.