Sampling data, colony runfiles, VCFs, and Rscripts for: genomic determination of reproductive mode in facultatively parthenogenetic Opiliones
Data files
Oct 29, 2020 version files 18.96 MB
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Brownetal_Sampling.xlsx
100.10 KB
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globo_error.txt
10.75 KB
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globo_ExclMat.txt
1 KB
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globo_ExclSib.txt
3.78 KB
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globo_Matsibships.txt
266 B
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Globo211.txt
50.46 KB
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Globo422.txt
58.76 KB
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Globo423.txt
49.99 KB
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globoAlleleFreq.txt
7.77 KB
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heterozygheredity.R
28.04 KB
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Hsglobo.csv
1.03 KB
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HsLm1_named.csv
2.08 KB
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HsLm2_named.csv
6.28 KB
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HsLm3_named.csv
960 B
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HsLm4_named.csv
1.05 KB
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HsLm5_named.csv
1.88 KB
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HsLm6_named.csv
729 B
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HsLm7_named.csv
1.71 KB
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HsLm8_named.csv
5.22 KB
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HsLmGBS_named.csv
1.49 KB
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Hstoho.csv
8.19 KB
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Lg25_Jheredity.snps.vcf
134.74 KB
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Lm_80_2015.vcf
2.88 MB
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Lm103-115.snps.vcf
654.35 KB
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Lm116.snps.vcf
353.59 KB
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Lm118-120.snps.vcf
321.80 KB
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Lm119clutch.txt
44.34 KB
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Lm201-507.snps.vcf
1.04 MB
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Lm511-513.snps.vcf
619.57 KB
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Lm514-515.snps.vcf
95.26 KB
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Lm518-520.snps.vcf
374.54 KB
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LmGBS1.txt
410.40 KB
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LmGBS13.txt
155.94 KB
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LmGBS17.txt
137.05 KB
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LmGBS20.txt
120.69 KB
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LmGBS3.txt
721.54 KB
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LmGBS4.txt
501.22 KB
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LmGBS5.txt
575.01 KB
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LmGBS6.txt
933.48 KB
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Lt_80p3_MatGenotypes.txt
14.79 KB
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Lt_80p3_Offspring.txt
498.49 KB
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Lt80p3_Jheredity.snps.vcf
1.31 MB
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matLg.txt
10.40 KB
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offLg.txt
45.83 KB
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populations103.snps.vcf
43.96 KB
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populations108.snps.vcf
150.86 KB
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populations109.snps.vcf
108.55 KB
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populations110.snps.vcf
96.61 KB
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populations111.snps.vcf
99.89 KB
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populations112.snps.vcf
48.64 KB
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populations114.snps.vcf
128.84 KB
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populations115.snps.vcf
111.99 KB
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populations116.snps.vcf
211.29 KB
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populations118.snps.vcf
214.73 KB
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populations119.snps.vcf
45.06 KB
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populations120.snps.vcf
85.67 KB
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populations201.snps.vcf
148.37 KB
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populations202.snps.vcf
121 KB
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populations203.snps.vcf
187.42 KB
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populations204.snps.vcf
98.26 KB
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populations205.snps.vcf
105.82 KB
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populations206.snps.vcf
143.16 KB
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populations208.snps.vcf
108.12 KB
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populations504.snps.vcf
153.04 KB
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populations507.snps.vcf
310.29 KB
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populations511.snps.vcf
251.66 KB
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populations513.snps.vcf
369.51 KB
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populations514.snps.vcf
38.57 KB
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populations515.snps.vcf
64.43 KB
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populations518.snps.vcf
282.50 KB
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populations520.snps.vcf
105.10 KB
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populations521.snps.vcf
457.35 KB
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populations524.snps.vcf
614.50 KB
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Toho_80p3_allelefreq.txt
10.31 KB
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Toho_80p3_error.txt
9.11 KB
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Toho_80p3_ExclMat.txt
10.69 KB
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Toho_80p3_Exclsibs.txt
362.93 KB
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Toho_80p3_matsibships.txt
2.35 KB
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Toho301.vcf
340.07 KB
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Toho302.txt
94.86 KB
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Toho303.txt
146.58 KB
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Toho306.txt
247.93 KB
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Toho307.txt
274.60 KB
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Toho312.txt
265.41 KB
Nov 02, 2020 version files 21.86 MB
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Brownetal_Sampling.xlsx
100.10 KB
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DamsFor511-513_518-524.txt
210.16 KB
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DamsFor516.txt
14.08 KB
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globo_error.txt
10.75 KB
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globo_ExclMat.txt
1 KB
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globo_ExclSib.txt
3.78 KB
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globo_Matsibships.txt
266 B
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Globo211.txt
50.46 KB
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Globo422.txt
58.76 KB
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Globo423.txt
49.99 KB
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globoAlleleFreq.txt
7.77 KB
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heterozygheredity.R
28.04 KB
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Hsglobo.csv
1.03 KB
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HsLm1_named.csv
2.08 KB
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HsLm2_named.csv
6.28 KB
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HsLm3_named.csv
960 B
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HsLm4_named.csv
1.05 KB
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HsLm5_named.csv
1.88 KB
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HsLm6_named.csv
729 B
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HsLm7_named.csv
1.71 KB
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HsLm8_named.csv
5.22 KB
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HsLmGBS_named.csv
1.49 KB
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Hstoho.csv
8.19 KB
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Lg25_Jheredity.snps.vcf
134.74 KB
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Lm_80_2015.vcf
2.88 MB
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Lm103-115.snps.vcf
654.35 KB
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Lm116.snps.vcf
353.59 KB
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Lm118-120.snps.vcf
321.80 KB
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Lm119clutch.txt
44.34 KB
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Lm201-507.snps.vcf
1.04 MB
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Lm511-513.snps.vcf
619.57 KB
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Lm514-515.snps.vcf
95.26 KB
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Lm518-520.snps.vcf
374.54 KB
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LmGBS1.txt
410.40 KB
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LmGBS13.txt
155.94 KB
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LmGBS17.txt
137.05 KB
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LmGBS20.txt
120.69 KB
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LmGBS3.txt
721.54 KB
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LmGBS4.txt
501.22 KB
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LmGBS5.txt
575.01 KB
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LmGBS6.txt
933.48 KB
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Lt_80p3_MatGenotypes.txt
14.79 KB
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Lt_80p3_Offspring.txt
498.49 KB
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Lt80p3_Jheredity.snps.vcf
1.31 MB
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markers.error.103-115.txt
11.22 KB
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markers.error.118-120.txt
3.50 KB
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markers.error.201-507.txt
18.98 KB
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markers.error.511-513.txt
31.34 KB
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markers.error.514-515.txt
2.62 KB
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markers.error.516.txt
2.46 KB
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markers.error.518-520.txt
4.70 KB
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markers.error.521-524.txt
27.27 KB
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markers.error.all.combined.txt
78.44 KB
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markers.error.total.511-513_518-524.txt
38.25 KB
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matLg.txt
10.40 KB
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offLg.txt
45.83 KB
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populations103.snps.vcf
43.96 KB
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populations108.snps.vcf
150.86 KB
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populations109.snps.vcf
108.55 KB
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populations110.snps.vcf
96.61 KB
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populations111.snps.vcf
99.89 KB
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populations112.snps.vcf
48.64 KB
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populations114.snps.vcf
128.84 KB
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populations115.snps.vcf
111.99 KB
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populations116.snps.vcf
211.29 KB
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populations118.snps.vcf
214.73 KB
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populations119.snps.vcf
45.06 KB
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populations120.snps.vcf
85.67 KB
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populations201.snps.vcf
148.37 KB
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populations202.snps.vcf
121 KB
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populations203.snps.vcf
187.42 KB
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populations204.snps.vcf
98.26 KB
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populations205.snps.vcf
105.82 KB
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populations206.snps.vcf
143.16 KB
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populations208.snps.vcf
108.12 KB
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populations504.snps.vcf
153.04 KB
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populations507.snps.vcf
310.29 KB
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populations511.snps.vcf
251.66 KB
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populations513.snps.vcf
369.51 KB
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populations514.snps.vcf
38.57 KB
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populations515.snps.vcf
64.43 KB
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populations518.snps.vcf
282.50 KB
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populations520.snps.vcf
105.10 KB
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populations521.snps.vcf
457.35 KB
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populations524.snps.vcf
614.50 KB
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Toho_80p3_allelefreq.txt
10.31 KB
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Toho_80p3_error.txt
9.11 KB
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Toho_80p3_ExclMat.txt
10.69 KB
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Toho_80p3_Exclsibs.txt
362.93 KB
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Toho_80p3_matsibships.txt
2.35 KB
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Toho301.vcf
340.07 KB
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Toho302.txt
94.86 KB
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Toho303.txt
146.58 KB
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Toho306.txt
247.93 KB
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Toho307.txt
274.60 KB
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Toho312.txt
265.41 KB
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VCF_converted_all_dams.txt
409.36 KB
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VCF_convertedmatpopulation518.txt
969 B
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VCF_convertedmatpopulation518.xlsx
9.94 KB
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vcf_convertedmatpopulations103-115.snps.txt
15.91 KB
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vcf_convertedmatpopulations118-120.snps.txt
2.19 KB
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vcf_convertedmatpopulations201-507.snps.txt
42.08 KB
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vcf_convertedmatpopulations511-513.snps.txt
12.38 KB
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vcf_convertedmatpopulations514-515.snps.txt
1.11 KB
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vcf_convertedmatpopulations516.snps.txt
521 B
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vcf_convertedmatpopulations518-520.snps.txt
969 B
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vcf_convertedmatpopulations521-524.snps.txt
16.24 KB
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vcf_convertedoffpopulations103-116.snps.txt
245.77 KB
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vcf_convertedoffpopulations118-120.snps.txt
125.19 KB
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vcf_convertedoffpopulations201-507.snps.txt
512.88 KB
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vcf_convertedoffpopulations511-513.snps.txt
359.11 KB
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vcf_convertedoffpopulations514-515.snps.txt
35.57 KB
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vcf_convertedoffpopulations516.snps.txt
60.27 KB
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vcf_convertedoffpopulations518-520.snps.txt
42.76 KB
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vcf_convertedoffpopulations521-524.snps.txt
563.25 KB
Abstract
Sexual reproduction may pose myriad short-term costs to females. Despite these costs, sexual reproduction is near ubiquitous. Facultative parthenogenesis is theorized to mitigate some of the costs of sex, as individuals can participate in occasional sex to limit costs while obtaining many benefits. However, most theoretical models assume sexual reproduction is fixed following mating, with no possibility of clutches of mixed reproductive ontogeny. Therefore, we asked: if coercive males are present at high frequency in a population of facultative parthenogens, will their clutches be solely sexually produced, or will there be evidence of sexually and asexually-produced offspring? How will their offspring production compare to conspecifics in low frequency male populations? We addressed our questions by collecting females and egg clutches of the facultatively parthenogenetic Opiliones species Leiobunum manubriatum and L. globosum. In L. manubriatum, females from populations with few males were not significantly more fecund than females from populations with higher male relative frequency, despite the potential release of the former from sexual conflict. We used three genotyping methods along with a custom set of DNA capture probes to reveal that offspring of L. manubriatum from these high male populations were primarily produced via asexual reproduction. This is surprising because sex ratios in these southern populations approach equality, increasing the probability for females to encounter mates and produce offspring sexually. We additionally found evidence for reproductive polymorphisms within populations. Rapid and accurate SNP genotyping data will continue to allow us to address broader evolutionary questions regarding the role of facultative reproductive modes in the maintenance of sex.