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. 2022 Aug 22;13:910369. doi: 10.3389/fpls.2022.910369

TABLE 2.

Listing of cotton genes with significantly different responses to 2,4-D in CS-B15sh compared with TM-1 and Pima 379 at 12 h after application of 1.12 kg ae ha−1 herbicide1.

Cotton gene ID Description2 Response (12 HAT vs. UTD) Response difference
Pima 379 CS-B15sh TM-1 CS-B15shxPima379 CS-B15shxTM-1 TM-1xPima379
log2FC FDR log2FC FDR log2FC FDR log2FC FDR log2FC FDR log2FC FDR
Gohir.A02G076500 – −0.028 0.983 −5.680 0.000 0.360 0.661 −5.652 0.002 −6.039 0.010 0.387 0.785
Gohir.A03G000035 JmjC/JmjN domain|Zinc finger, C5HC2-type 0.127 0.793 −1.790 0.000 0.678 0.077 −1.917 0.015 −2.468 0.016 0.551 0.362
Gohir.A03G025000 LRR|F-box-like domain superfamily 0.087 0.757 1.284 0.000 0.233 0.308 1.198 0.010 1.052 0.049 0.146 0.702
Gohir.A03G046900 Ctr copper transporter −0.669 0.008 0.274 0.200 −0.930 0.000 0.944 0.023 1.204 0.023 −0.260 0.429
Gohir.A03G144000 Glycosyl transferase, family 8 −0.641 0.158 −2.599 0.000 −0.743 0.066 −1.958 0.017 −1.857 0.049 −0.102 0.887
Gohir.A05G002900 Glycosyl transferase, family 14 0.049 0.719 −0.778 0.000 −0.254 0.026 −0.827 0.001 −0.523 0.046 −0.303 0.083
Gohir.A05G005600 Glycoside hydrolase family 16 −0.883 0.488 −5.362 0.000 1.427 0.171 −4.479 0.038 −6.789 0.019 2.310 0.166
Gohir.A05G168800 Domain of unknown function DUF1084 −0.359 0.001 −0.721 0.000 −0.271 0.004 −0.362 0.035 −0.449 0.033 0.088 0.534
Gohir.A05G184100 Expansin, cellulose-binding-like domain 1.200 0.043 4.412 0.000 1.746 0.002 3.212 0.004 2.666 0.034 0.546 0.507
Gohir.A05G288000 Protein kinase-like domain superfamily 1.059 0.000 2.225 0.000 1.159 0.000 1.166 0.004 1.067 0.028 0.099 0.763
Gohir.A05G328300 K homology domain, type 1 0.345 0.078 −0.608 0.002 0.351 0.044 −0.953 0.007 −0.959 0.026 0.006 0.987
Gohir.A06G026500 Nucleotide-diphospho-sugar transferases 3.402 0.000 0.721 0.199 3.441 0.000 −2.682 0.019 −2.720 0.040 0.039 0.975
Gohir.A06G049200 – 0.124 0.875 −2.342 0.001 0.911 0.121 −2.466 0.040 −3.253 0.028 0.787 0.410
Gohir.A06G098214 LRR|F-box-like domain superfamily 0.153 0.462 0.947 0.000 0.114 0.528 0.794 0.027 0.833 0.048 −0.039 0.905
Gohir.A07G030300 Homeobox domain −0.746 0.000 −1.460 0.000 −0.640 0.000 −0.715 0.009 −0.821 0.018 0.106 0.627
Gohir.A07G147600 Zinc finger, FYVE/PHD-type 0.936 0.017 2.402 0.000 0.813 0.019 1.466 0.027 1.589 0.044 −0.123 0.833
Gohir.A07G180900 COBRA, plant −0.753 0.051 −2.600 0.000 −0.696 0.039 −1.847 0.007 −1.904 0.024 0.057 0.926
Gohir.A07G188800 – 0.902 0.005 2.931 0.000 1.087 0.000 2.029 0.001 1.844 0.010 0.185 0.671
Gohir.A08G151100 Protein ENHANCED DISEASE RESISTANCE 2 0.159 0.467 −0.708 0.001 0.369 0.054 −0.867 0.022 −1.077 0.024 0.210 0.487
Gohir.A08G160000 HAD superfamily −0.524 0.086 0.687 0.019 −0.587 0.035 1.211 0.025 1.275 0.047 −0.063 0.896
Gohir.A09G112100 RNA recognition motif domain −1.036 0.005 0.822 0.012 −0.903 0.005 1.858 0.003 1.726 0.023 0.133 0.795
Gohir.A09G213644 Protein kinase domain|NAF domain −0.111 0.646 0.974 0.000 0.042 0.842 1.085 0.009 0.933 0.049 0.153 0.646
Gohir.A10G079400 Glycosyl transferase, family 1|family 4_5 0.545 0.074 −1.262 0.000 0.162 0.547 −1.807 0.002 −1.424 0.031 −0.383 0.365
Gohir.A10G205200 Zinc finger, GATA-type −0.089 0.844 −2.417 0.000 −0.004 0.991 −2.327 0.003 −2.412 0.013 0.085 0.895
Gohir.A11G093500 Protein BRANCHLESS TRICHOME-like 0.393 0.008 1.018 0.000 0.389 0.003 0.625 0.012 0.629 0.034 −0.003 0.991
Gohir.A11G127900 Linker histone H1/H5, domain H15 0.205 0.246 0.895 0.000 0.122 0.433 0.690 0.026 0.773 0.038 −0.083 0.755
Gohir.A11G171000 Palmitoyltransferase, DHHC domain −0.545 0.002 −1.099 0.000 −0.430 0.003 −0.554 0.037 −0.669 0.038 0.116 0.599
Gohir.A11G248400 Myc-type, basic helix-loop-helix (bHLH) domain −0.390 0.062 0.447 0.023 −0.408 0.031 0.838 0.023 0.855 0.047 −0.018 0.960
Gohir.A11G254800 NDRG|Alpha/Beta hydrolase fold −0.770 0.024 −2.827 0.000 −1.210 0.000 −2.057 0.001 −1.617 0.028 −0.440 0.341
Gohir.A12G201300 Cytochrome P450, E-class, group I 1.876 0.019 −1.218 0.076 2.819 0.001 −3.094 0.021 −4.037 0.023 0.943 0.388
Gohir.A12G229532 Photosystem I PsaJ, reaction center subunit IX 5.807 0.003 −5.316 0.002 5.926 0.001 −11.122 0.001 −11.242 0.008 0.120 0.963
Gohir.A13G035300 Myc-type, basic helix-loop-helix (bHLH) domain −2.389 0.001 0.561 0.258 −1.687 0.002 2.950 0.004 2.248 0.047 0.702 0.355
Gohir.A13G049200 Amidase signature (AS) superfamily 0.128 0.438 0.746 0.000 −0.084 0.563 0.618 0.030 0.831 0.023 −0.212 0.349
Gohir.A13G073900 Ran-interacting Mog1 protein −0.060 0.722 −0.596 0.000 0.284 0.042 −0.536 0.046 −0.880 0.015 0.344 0.109
Gohir.D02G080200 – −0.158 0.482 −1.473 0.000 −0.509 0.014 −1.315 0.002 −0.964 0.039 −0.351 0.251
Gohir.D02G083700 – −0.874 0.335 −5.303 0.000 −0.715 0.334 −4.428 0.007 −4.588 0.021 0.160 0.908
Gohir.D03G026100 NRAMP family 0.105 0.661 1.041 0.000 −0.173 0.384 0.936 0.019 1.214 0.019 −0.278 0.377
Gohir.D03G050800 Glycoside hydrolase family 16 −1.024 0.411 −5.348 0.000 −0.728 0.455 −4.324 0.039 −4.620 0.049 0.296 0.870
Gohir.D05G006300 – −0.402 0.766 −5.281 0.000 2.054 0.042 −4.879 0.021 −7.335 0.010 2.456 0.132
Gohir.D05G017200 – 0.433 0.173 −0.958 0.002 0.500 0.076 −1.391 0.014 −1.459 0.032 0.068 0.893
Gohir.D05G048200 – 0.409 0.067 1.340 0.000 0.382 0.054 0.931 0.018 0.958 0.040 −0.026 0.943
Gohir.D05G079500 – −0.378 0.094 −1.250 0.000 −0.147 0.464 −0.872 0.029 −1.103 0.027 0.231 0.470
Gohir.D05G153000 – −0.534 0.053 −2.169 0.000 −1.031 0.000 −1.635 0.002 −1.139 0.045 −0.496 0.189
Gohir.D05G188000 – 0.145 0.383 −0.925 0.000 −0.127 0.381 −1.070 0.001 −0.799 0.027 −0.272 0.231
Gohir.D05G203300 – −0.082 0.780 −1.291 0.000 −0.169 0.471 −1.209 0.011 −1.122 0.042 −0.088 0.832
Gohir.D06G053801 – 4.758 0.004 −2.283 0.100 6.753 0.000 −7.041 0.009 −9.037 0.013 1.995 0.269
Gohir.D06G102000 – −0.226 0.790 −4.600 0.000 −1.304 0.051 −4.374 0.003 −3.297 0.039 −1.077 0.305
Gohir.D06G110600 HEAT repeat|Armadillo-type fold 0.101 0.303 −0.296 0.002 0.140 0.103 −0.397 0.021 −0.436 0.035 0.040 0.789
Gohir.D06G184100 Cytochrome P450, E-class, group I −0.962 0.000 −0.016 0.927 −0.804 0.000 0.946 0.005 0.787 0.042 0.158 0.548
Gohir.D07G023700 Zinc finger, CCCH-type 1.006 0.002 2.208 0.000 0.908 0.002 1.202 0.020 1.300 0.039 −0.098 0.831
Gohir.D07G099500 Eukaryotic translation initiation factor 3 subunit J −0.483 0.072 −2.386 0.000 −0.704 0.005 −1.904 0.000 −1.682 0.010 −0.222 0.563
Gohir.D08G169900 Cytochrome P450, E-class, group I −2.056 0.019 −5.076 0.000 −1.525 0.047 −3.020 0.041 −3.551 0.047 0.531 0.663
Gohir.D09G182000 Zinc finger, RING-type −1.433 0.000 0.626 0.039 −0.750 0.014 2.059 0.001 1.377 0.045 0.682 0.134
Gohir.D11G120200 Heat shock factor binding 1 0.444 0.008 −0.252 0.080 0.457 0.002 −0.696 0.013 −0.709 0.034 0.013 0.961
Gohir.D11G154700 Zinc finger, RING-type 0.023 0.957 1.398 0.000 −0.210 0.529 1.375 0.031 1.608 0.041 −0.233 0.661
Gohir.D11G264500 NDRG|Alpha/Beta hydrolase fold −0.354 0.233 −2.049 0.000 −0.393 0.132 −1.695 0.002 −1.656 0.016 −0.039 0.936
Gohir.D11G302700 SWEET sugar transporter 0.270 0.478 −1.769 0.000 −0.248 0.448 −2.039 0.003 −1.521 0.047 −0.519 0.314
Gohir.D12G079500 – −0.011 0.985 −1.548 0.001 0.292 0.440 −1.536 0.039 −1.839 0.041 0.303 0.625
Gohir.D12G144700 – −3.578 0.000 −0.101 0.870 −3.457 0.000 3.477 0.003 3.356 0.021 0.120 0.904

1HAT, hours after treatment; UTD, non-treated controls; FDR, false discovery rate adjusted p-value; 2No functional annotation available.