Data from: A comparative assessment of SNP and microsatellite markers for assigning parentage in a socially monogamous bird
Data files
Aug 03, 2016 version files 2.09 MB
-
2011 genotypes 17 snps.txt
19.44 KB
-
2011 genotypes 17H snps.txt
19.44 KB
-
2011 genotypes 27 snps.txt
27.81 KB
-
2011 genotypes 27H snps.txt
27.81 KB
-
2011 genotypes 37 snps.txt
36.19 KB
-
2011 genotypes 37H snps.txt
36.18 KB
-
2011 genotypes 57 snps.txt
52.93 KB
-
2011 genotypes 57H snps.txt
52.92 KB
-
2011 genotypes 7 snps.txt
11.07 KB
-
2011 genotypes 77 snps.txt
69.68 KB
-
2011 genotypes 77H snps.txt
69.66 KB
-
2011 genotypes 7H snps.txt
11.07 KB
-
2011 genotypes ind 75.txt
84.75 KB
-
2011 genotypes ind 90.txt
81.85 KB
-
2011 genotypes ind snps 75.txt
82.29 KB
-
2011 genotypes ind snps 90.txt
71.55 KB
-
2011 genotypes msat 50.txt
11.49 KB
-
2011 genotypes snps 50.txt
86.81 KB
-
2011 genotypes snps 75.txt
83.90 KB
-
2011 genotypes snps 90.txt
75.53 KB
-
2012 genotypes 17 snps.txt
20.50 KB
-
2012 genotypes 17H snps.txt
22.49 KB
-
2012 genotypes 27 snps.txt
29.27 KB
-
2012 genotypes 27H snps.txt
32.26 KB
-
2012 genotypes 37 snps.txt
38.04 KB
-
2012 genotypes 37H snps.txt
42.04 KB
-
2012 genotypes 57 snps.txt
55.58 KB
-
2012 genotypes 57H snps.txt
61.58 KB
-
2012 genotypes 7 snps.txt
11.73 KB
-
2012 genotypes 77 snps.txt
73.13 KB
-
2012 genotypes 77H snps.txt
81.12 KB
-
2012 genotypes 7H snps.txt
12.72 KB
-
2012 genotypes ind 75.txt
86.12 KB
-
2012 genotypes ind 90.txt
81.97 KB
-
2012 genotypes ind snps 75.txt
83.62 KB
-
2012 genotypes ind snps 90.txt
71.67 KB
-
2012 genotypes msats 50.txt
12.29 KB
-
2012 genotypes snps 50.txt
90.66 KB
-
2012 genotypes snps 75.txt
88.04 KB
-
2012 genotypes snps 90.txt
79.27 KB
Abstract
Single-nucleotide polymorphisms (SNPs) are preferred over microsatellite markers in many evolutionary studies, but have only recently been applied to studies of parentage. Evaluations of SNPs and microsatellites for assigning parentage have mostly focused on special cases that require a relatively large number of heterozygous loci, such as species with low genetic diversity or with complex social structures. We developed 120 SNP markers from a transcriptome assembled using RNA-sequencing of a songbird with the most common avian mating system—social monogamy. We compared the effectiveness of 97 novel SNPs and six previously described microsatellites for assigning paternity in the black-throated blue warbler, Setophaga caerulescens. We show that the full panel of 97 SNPs (mean Ho = 0.19) was as powerful for assigning paternity as the panel of multiallelic microsatellites (mean Ho = 0.86). Paternity assignments using the two marker types were in agreement for 92% of the offspring. Filtering individual samples by a 50% call rate and SNPs by a 75% call rate maximized the number of offspring assigned with 95% confidence using SNPs. We also found that the 40 most heterozygous SNPs (mean Ho = 0.37) had similar power to assign paternity as the full panel of 97 SNPs. These findings demonstrate that a relatively small number of variable SNPs can be effective for parentage analyses in a socially monogamous species. We suggest that the development of SNP markers is advantageous for studies that require high-throughput genotyping or that plan to address a range of ecological and evolutionary questions.