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Table 5 The differential expression of the putative genes detected in both GWAS and transcriptome sequencing

From: Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

Gene_id readcount_H3 readcount_S3 log2FoldChange p value readcount_H24 readcount_S24 log2FoldChange p value readcount_H72 readcount_S72 log2FoldChange p value
Gh_A01G1563 40.232 78.450 0.963 0.261 4.001 51.024 3.673 0.000* 0.000 5.109 +∞ 0.316
Gh_A02G1100 4.161 26.612 2.677 0.001* 2.994 2.954 −0.020 1.000 5.117 1.099 −2.219 0.297
Gh_A03G1740 587.138 96.274 −2.608 0.000* 322.348 67.547 −2.255 0.000* 38.368 24.008 −0.676 0.246
Gh_A07G0622 180.915 912.736 2.335 0.000* 185.769 1681.857 3.178 0.000* 130.525 1972.522 3.918 0.000*
Gh_A07G0623 24.501 51.165 1.062 0.036 48.834 79.571 0.704 0.403 32.992 79.503 1.269 0.004*
Gh_A12G0877 10.051 4.262 −1.238 0.306 27.855 0.484 −5.848 0.000* 25.105 3.719 −2.755 0.002*
Gh_D07G0243 63.337 213.505 1.753 0.000* 115.184 114.475 − 0.009 0.990 88.638 69.300 −0.355 0.441
Gh_D07G0249 1.579 0.444 −1.830 0.771 4.501 3.006 −0.582 0.834 2.439 77.211 4.984 0.000*
Gh_D07G0250 3.196 39.993 3.645 0.004* 0.501 4.404 3.137 0.205 7.333 4.395 −0.738 0.621
Gh_D07G0251 193.354 458.100 1.244 0.019 189.755 242.694 0.355 0.564 192.524 376.097 0.966 0.002*
Gh_D07G0258 220.517 323.412 0.552 0.060 141.005 164.415 0.222 0.586 95.896 206.969 1.110 0.002*
Gh_D07G0263 41.671 152.914 1.876 0.000* 25.937 198.357 2.935 0.000* 279.158 178.035 −0.649 0.043
Gh_D07G0500 37.958 426.805 3.491 0.000* 37.418 163.250 2.125 0.000* 262.034 249.357 −0.072 0.846
  1. *indicate significant at the p < 0.005 level