Additional file 7. GO enrichment factors and p-values of target genes in three flower buds, shoot tip and vegetative bud.

Flower bud 1
enrichment factor / p-value
GO:0010050 vegetative phase change / 62.19155 / 0.00000001
GO:0010167 response to nitrate / 44.42254 / 0.0000128
GO:0009808 lignin metabolic process / 24.70623 / 3.14E-30
GO:0032844 regulation of homeostatic process / 20.73052 / 0.01749
GO:0002832 negative regulation of response to biotic stimulus / 11.95991 / 0.03113
GO:0015698 inorganic anion transport / 4.12713 / 0.000000113
GO:0048528 post-embryonic root development / 4.06861 / 0.0066
GO:0009698 phenylpropanoid metabolic process / 2.99822 / 0.00000749
GO:0048364 root development / 2.97924 / 0.0000364
GO:0032774 RNA biosynthetic process / 2.58471 / 2.18E-37
GO:0006351 transcription, DNA-dependent / 2.58471 / 2.18E-37
GO:0034654 nucleobase-containing compound biosynthetic process / 2.32371 / 2.62E-31
GO:0009755 hormone-mediated signaling pathway / 2.27676 / 0.00000595
GO:0022622 root system development / 2.26838 / 0.00354
GO:0032870 cellular response to hormone stimulus / 2.26657 / 0.00000695
GO:0071495 cellular response to endogenous stimulus / 2.26657 / 0.00000695
GO:0044271 cellular nitrogen compound biosynthetic process / 2.23348 / 1.52E-30
GO:0018130 heterocycle biosynthetic process / 2.16502 / 1.54E-28
GO:0019438 aromatic compound biosynthetic process / 2.0952 / 1.26E-26
GO:0006820 anion transport / 2.04696 / 0.04913
GO:1901362 organic cyclic compound biosynthetic process / 1.99942 / 5.02E-24
GO:0034645 cellular macromolecule biosynthetic process / 1.98894 / 1.96E-23
GO:0009059 macromolecule biosynthetic process / 1.94858 / 3.27E-22
GO:0016070 RNA metabolic process / 1.89998 / 2.39E-21
GO:0010467 gene expression / 1.67036 / 7.77E-14
GO:0090304 nucleic acid metabolic process / 1.67026 / 3.93E-15
GO:0006950 response to stress / 1.57605 / 1E-12
GO:0006139 nucleobase-containing compound metabolic process / 1.55204 / 4.59E-13
GO:0006725 cellular aromatic compound metabolic process / 1.54458 / 2.3E-16
GO:1901360 organic cyclic compound metabolic process / 1.49114 / 9.05E-14
GO:0034641 cellular nitrogen compound metabolic process / 1.46054 / 2.55E-10
GO:0046483 heterocycle metabolic process / 1.45855 / 2E-10
GO:1901576 organic substance biosynthetic process / 1.40994 / 0.00000018
GO:0044249 cellular biosynthetic process / 1.40717 / 0.000000246
GO:0009058 biosynthetic process / 1.40655 / 5.57E-08
GO:0006807 nitrogen compound metabolic process / 1.32562 / 0.00000883
GO:0050896 response to stimulus / 1.3031 / 1.51E-08
Flower bud 2
enrichment factor / p-value
GO:0010050 vegetative phase change / 61.75664 / 1.07E-08
GO:0010167 response to nitrate / 44.11189 / 0.0000136
GO:0009808 lignin metabolic process / 24.53346 / 3.96E-30
GO:0032844 regulation of homeostatic process / 20.58555 / 0.01853
GO:0002832 negative regulation of response to biotic stimulus / 11.87628 / 0.03316
GO:0015698 inorganic anion transport / 4.09827 / 0.000000137
GO:0048528 post-embryonic root development / 4.04015 / 0.00736
GO:0009698 phenylpropanoid metabolic process / 2.97725 / 0.00000919
GO:0048364 root development / 2.86595 / 0.00014
GO:0032774 RNA biosynthetic process / 2.56664 / 7.26E-37
GO:0006351 transcription, DNA-dependent / 2.56664 / 7.26E-37
GO:0034654 nucleobase-containing compound biosynthetic process / 2.30746 / 8.31E-31
GO:0009755 hormone-mediated signaling pathway / 2.26084 / 0.00000784
GO:0032870 cellular response to hormone stimulus / 2.25072 / 0.00000915
GO:0071495 cellular response to endogenous stimulus / 2.25072 / 0.00000915
GO:0044271 cellular nitrogen compound biosynthetic process / 2.21786 / 5.01E-30
GO:0022622 root system development / 2.18995 / 0.01026
GO:0018130 heterocycle biosynthetic process / 2.14988 / 4.93E-28
GO:0019438 aromatic compound biosynthetic process / 2.08055 / 3.94E-26
GO:0034645 cellular macromolecule biosynthetic process / 1.99243 / 9.33E-24
GO:1901362 organic cyclic compound biosynthetic process / 1.98544 / 1.52E-23
GO:0009059 macromolecule biosynthetic process / 1.952 / 1.6E-22
GO:0016070 RNA metabolic process / 1.90296 / 1.23E-21
GO:0010467 gene expression / 1.67323 / 4.73E-14
GO:0090304 nucleic acid metabolic process / 1.67223 / 2.51E-15
GO:0006950 response to stress / 1.57124 / 1.37E-12
GO:0006139 nucleobase-containing compound metabolic process / 1.55269 / 3.48E-13
GO:0006725 cellular aromatic compound metabolic process / 1.54355 / 2.06E-16
GO:1901360 organic cyclic compound metabolic process / 1.49023 / 8.25E-14
GO:0034641 cellular nitrogen compound metabolic process / 1.4608 / 2.11E-10
GO:0046483 heterocycle metabolic process / 1.4587 / 1.67E-10
GO:1901576 organic substance biosynthetic process / 1.41102 / 0.000000145
GO:0044249 cellular biosynthetic process / 1.40829 / 0.000000198
GO:0009058 biosynthetic process / 1.4071 / 4.67E-08
GO:0006807 nitrogen compound metabolic process / 1.32569 / 0.00000806
GO:0050896 response to stimulus / 1.30442 / 1.09E-08
Flower bud 3
enrichment factor / p-value
GO:0010050 vegetative phase change / 60.98895 / 1.16E-08
GO:0010167 response to nitrate / 43.56354 / 0.0000146
GO:0009808 lignin metabolic process / 24.22849 / 5.72E-30
GO:0032844 regulation of homeostatic process / 20.32965 / 0.01955
GO:0002832 negative regulation of response to biotic stimulus / 11.72864 / 0.03536
GO:0048528 post-embryonic root development / 3.98993 / 0.00849
GO:0015698 inorganic anion transport / 3.48907 / 0.0000563
GO:0009698 phenylpropanoid metabolic process / 2.94024 / 0.0000125
GO:0048364 root development / 2.83033 / 0.00018
GO:0032774 RNA biosynthetic process / 2.52277 / 1.89E-35
GO:0006351 transcription, DNA-dependent / 2.52277 / 1.89E-35
GO:0034654 nucleobase-containing compound biosynthetic process / 2.26823 / 1.76E-29
GO:0009755 hormone-mediated signaling pathway / 2.23274 / 0.0000121
GO:0032870 cellular response to hormone stimulus / 2.22274 / 0.0000142
GO:0071495 cellular response to endogenous stimulus / 2.22274 / 0.0000142
GO:0044271 cellular nitrogen compound biosynthetic process / 2.1806 / 1.09E-28
GO:0022622 root system development / 2.16273 / 0.01335
GO:0018130 heterocycle biosynthetic process / 2.11376 / 9.87E-27
GO:0019438 aromatic compound biosynthetic process / 2.04564 / 7.29E-25
GO:0034645 cellular macromolecule biosynthetic process / 1.95907 / 1.56E-22
GO:1901362 organic cyclic compound biosynthetic process / 1.95219 / 2.52E-22
GO:0009059 macromolecule biosynthetic process / 1.91932 / 2.52E-21
GO:0016070 RNA metabolic process / 1.8793 / 8.14E-21
GO:0010467 gene expression / 1.65243 / 2.31E-13
GO:0090304 nucleic acid metabolic process / 1.65145 / 1.41E-14
GO:0006139 nucleobase-containing compound metabolic process / 1.52771 / 3.86E-12
GO:0006950 response to stress / 1.52104 / 1.58E-10
GO:0006725 cellular aromatic compound metabolic process / 1.49542 / 9.96E-14
GO:1901360 organic cyclic compound metabolic process / 1.46701 / 1.2E-12
GO:0034641 cellular nitrogen compound metabolic process / 1.43747 / 1.96E-09
GO:0046483 heterocycle metabolic process / 1.40991 / 2.38E-08
GO:1901576 organic substance biosynthetic process / 1.38808 / 0.000000957
GO:0044249 cellular biosynthetic process / 1.38537 / 0.00000128
GO:0009058 biosynthetic process / 1.38448 / 0.000000339
GO:0006807 nitrogen compound metabolic process / 1.28155 / 0.00037
GO:0050896 response to stimulus / 1.2676 / 0.00000144
shoot tip
enrichment factor / p-value
GO:0010050 vegetative phase change / 60.65385 / 1.19E-08
GO:0010167 response to nitrate / 43.32418 / 0.0000149
GO:0009808 lignin metabolic process / 24.09536 / 6.65E-30
GO:0032844 regulation of homeostatic process / 20.21795 / 0.01981
GO:0002832 negative regulation of response to biotic stimulus / 11.6642 / 0.03599
GO:0015698 inorganic anion transport / 4.16388 / 4.55E-08
GO:0048528 post-embryonic root development / 3.96801 / 0.00895
GO:0009698 phenylpropanoid metabolic process / 2.92408 / 0.0000143
GO:0048364 root development / 2.90557 / 0.0000657
GO:0032774 RNA biosynthetic process / 2.5208 / 1.42E-35
GO:0006351 transcription, DNA-dependent / 2.5208 / 1.42E-35
GO:0034654 nucleobase-containing compound biosynthetic process / 2.26626 / 1.43E-29
GO:0009755 hormone-mediated signaling pathway / 2.22047 / 0.0000146
GO:0032870 cellular response to hormone stimulus / 2.21053 / 0.000017
GO:0071495 cellular response to endogenous stimulus / 2.21053 / 0.000017
GO:0044271 cellular nitrogen compound biosynthetic process / 2.17826 / 9.44E-29
GO:0022622 root system development / 2.15085 / 0.01483
GO:0018130 heterocycle biosynthetic process / 2.11149 / 8.68E-27
GO:0006820 anion transport / 2.05507 / 0.03694
GO:0019438 aromatic compound biosynthetic process / 2.0434 / 6.54E-25
GO:0034645 cellular macromolecule biosynthetic process / 1.95685 / 1.44E-22
GO:1901362 organic cyclic compound biosynthetic process / 1.94998 / 2.33E-22
GO:0009059 macromolecule biosynthetic process / 1.91715 / 2.34E-21
GO:0016070 RNA metabolic process / 1.87696 / 7.81E-21
GO:0010467 gene expression / 1.65049 / 2.29E-13
GO:0090304 nucleic acid metabolic process / 1.64908 / 1.47E-14
GO:0006950 response to stress / 1.55538 / 4.1E-12
GO:0006139 nucleobase-containing compound metabolic process / 1.53061 / 2.33E-12
GO:0006725 cellular aromatic compound metabolic process / 1.52078 / 2.52E-15
GO:1901360 organic cyclic compound metabolic process / 1.4683 / 8.45E-13
GO:0034641 cellular nitrogen compound metabolic process / 1.43985 / 1.31E-09
GO:0046483 heterocycle metabolic process / 1.43773 / 1.07E-09
GO:1901576 organic substance biosynthetic process / 1.38582 / 0.00000105
GO:0044249 cellular biosynthetic process / 1.38314 / 0.0000014
GO:0009058 biosynthetic process / 1.38197 / 0.000000385
GO:0006807 nitrogen compound metabolic process / 1.3066 / 0.000037
GO:0050896 response to stimulus / 1.28113 / 0.000000206
vegetative bud
enrichment factor / p-value
GO:0010050 vegetative phase change / 62.01685 / 1.03E-08
GO:0010167 response to nitrate / 44.29775 / 0.0000132
GO:0009808 lignin metabolic process / 24.63683 / 3.48E-30
GO:0032844 regulation of homeostatic process / 20.67228 / 0.01805
GO:0002832 negative regulation of response to biotic stimulus / 11.92632 / 0.03219
GO:0048528 post-embryonic root development / 4.05718 / 0.00695
GO:0015698 inorganic anion transport / 3.54787 / 0.0000404
GO:0009698 phenylpropanoid metabolic process / 2.98979 / 0.0000082
GO:0048364 root development / 2.97087 / 0.0000395
GO:0032774 RNA biosynthetic process / 2.56529 / 1.19E-36
GO:0006351 transcription, DNA-dependent / 2.56529 / 1.19E-36
GO:0034654 nucleobase-containing compound biosynthetic process / 2.30646 / 1.24E-30
GO:0009755 hormone-mediated signaling pathway / 2.27037 / 0.0000067
GO:0032870 cellular response to hormone stimulus / 2.26021 / 0.00000783
GO:0071495 cellular response to endogenous stimulus / 2.26021 / 0.00000783
GO:0044271 cellular nitrogen compound biosynthetic process / 2.21735 / 7.11E-30
GO:0022622 root system development / 2.19918 / 0.00931
GO:0018130 heterocycle biosynthetic process / 2.14938 / 6.85E-28
GO:0019438 aromatic compound biosynthetic process / 2.08011 / 5.34E-26
GO:0034645 cellular macromolecule biosynthetic process / 1.99209 / 1.22E-23
GO:1901362 organic cyclic compound biosynthetic process / 1.9851 / 1.99E-23
GO:0009059 macromolecule biosynthetic process / 1.95167 / 2.07E-22
GO:0016070 RNA metabolic process / 1.91097 / 6.46E-22
GO:0010467 gene expression / 1.68028 / 2.73E-14
GO:0090304 nucleic acid metabolic process / 1.67928 / 1.38E-15
GO:0006139 nucleobase-containing compound metabolic process / 1.55345 / 3.63E-13
GO:0006950 response to stress / 1.53421 / 6.75E-11
GO:0006725 cellular aromatic compound metabolic process / 1.52062 / 5.96E-15
GO:1901360 organic cyclic compound metabolic process / 1.49173 / 7.72E-14
GO:0034641 cellular nitrogen compound metabolic process / 1.46169 / 2.12E-10
GO:0046483 heterocycle metabolic process / 1.43368 / 2.87E-09
GO:1901576 organic substance biosynthetic process / 1.41147 / 0.00000015
GO:0044249 cellular biosynthetic process / 1.40872 / 0.000000205
GO:0009058 biosynthetic process / 1.40781 / 4.72E-08
GO:0006807 nitrogen compound metabolic process / 1.30315 / 0.0000697
GO:0050896 response to stimulus / 1.27848 / 0.000000456