利用WGCNA鉴定玉米非生物胁迫相关基因共表达网络

doi:10.3724/SP.J.1006.2023.23017

Abstract

Abstract:

Weighted Gene Co-expression Network Analysis (WGCNA) is a classic systems biology analysis method, which can be used to identify coexpressed gene modules and explore the biological correlation between modules and target traits, and mine core genes in module networks. In this study, 58 transcriptome data of roots, stems, leaves, and other tissues under low temperature stress, high temperature stress, drought stress, and salt stress in maize (Zea mays L.) were collected, and the gene co-expression network of maize abiotic stress was identified by WGCNA method. After filtering the 12,552 low-expression genes from transcriptome data, the co-expression network was constructed using the remaining 27,204 high-expression genes, and 25 modules were obtained. According to the distribution of abiotic stress-related genes and different expression genes in the modules reported in maize, the mediumpurple4, ivory, coral2, darkseagreen4 modules most related to low temperature stress, high temperature stress, drought and salt stresses, and green modules responding to various stresses were screened out. Subsequently, GO enrichment of the genes in these five modules revealed that genes with functions related to abiotic stress were significantly enriched in these modules, such as stress response, peroxidase activity. Correlation analysis showed that 10 abiotic stress-related core genes were predicted, including Zm00001eb072870, Zm00001eb320970, Zm00001eb037640, Zm00001eb423300, and Zm00001eb265310. This study provides new ideas for the mining of abiotic stress-related genes and the research of abiotic stress regulatory networks in maize.

Key words: maize, abiotic stress, WGCNA, core gene

DENG Zhao, JIANG Huan-Qi, CHENG Li-Sha, LIU Rui, HUANG Min, LI Man-Fei, DU He-Wei. Identification of abiotic stress-related gene co-expression networks in maize by WGCNA[J].Acta Agronomica Sinica, 2023, 49(3): 672-686.

Figures/Tables 12

Fig. 1

Fig. 2

Fig. 3

Fig. 4

Table 1

Fig. 5

Table 2

Functional annotation of modular hub genes"

模块分类 Module name	基因名称 Gene name	玉米中基因注释 Annotation in maize	水稻同源基因名称 Homologous gene in rice	水稻中基因注释 Annotation in rice
Mediumpurple4	Zm00001eb072870	MYB转录因子20 MYB-related-transcription factor 20	LOC_Os04g49450	MYB 家族转录因子 MYB family transcription factor
	Zm00001eb320970	单加氧酶/氧化还原酶 Monooxygenase/ oxidoreductase	LOC_Os09g37620	含黄素的单加氧酶家族蛋白 Flavin-containing monooxygenase family protein
Ivory	Zm00001eb037640	90 kD热休克蛋白 ATPase 的激活剂 Activator of 90 kD heat shock protein ATPase	LOC_Os08g36150	90 kD热休克蛋白ATPase同源物的激活剂 Activator of 90 kD heat shock protein ATPase homolog
	Zm00001eb423300	IV类热休克蛋白 Class IV heat shock protein	LOC_Os04g36750	Hsp20/alpha晶状体蛋白家族蛋白 Hsp20/alpha crystallin family protein
Coral2	Zm00001eb265310	类WAK家族受体蛋白激酶 WAK family receptor-like protein kinase	LOC_Os10g07556	类细胞壁相关受体激酶样22前体 Wall-associated receptor kinase-like 22 precursor
	Zm00001eb058250	过氧化物酶16 Peroxidase 16	LOC_Os03g55410	过氧化物酶前体 Peroxidase precursor
Darkseagreen4	Zm00001eb401330	富含CHP的锌指蛋白样 CHP-rich zinc finger protein-like	LOC_Os07g42070	含有DC1结构域的蛋白质 DC1 domain-containing protein
	Zm00001eb147030	含NAC结构域的蛋白质90 NAC domain-containing protein 90	LOC_Os01g64310	没有顶端分生组织蛋白 No apical meristem protein
Green	Zm00001eb375120	2-酮戊二酸(2OG)和Fe (II)依赖性加氧酶超家族蛋白 2-oxoglutarate (2OG) and Fe (II)-dependent oxygenase superfamily protein	LOC_Os06g08023	黄酮醇合成酶/黄烷酮3-羟化酶 Flavonol synthase/flavanone 3-hydroxylase
	Zm00001eb323090	异柠檬酸裂解酶1 Isocitrate lyase1	LOC_Os07g34520	异柠檬酸裂解酶 Isocitrate lyase

Table 2

Fig. 6

Fig. 7

Table 3

GO enrichment of green module (part)"

分类 Class	GO分类 GO term	显著富集的项目 Significantly enriched term	P值 P-value
细胞组分	GO:0005886	质膜	0.0000046
Cellular component		Plasma membrane
	GO:0071944	细胞外围	0.0000072
		Cell periphery
	GO:0005634	核	0.023
		Nucleus
分子功能	GO:0004674	蛋白质丝氨酸/苏氨酸激酶活性	0.00000063
Molecular function		Protein serine/threonine kinase activity
	GO:0004672	蛋白激酶活性	0.00000082
		Protein kinase activity
	GO:0005516	钙调蛋白结合	0.0002
		Calmodulin binding
	GO:0030246	碳水化合物结合	0.000057
		Carbohydrate binding
	GO:0016301	激酶活性	0.0001
		Kinase activity
	GO:0042887	酰胺跨膜转运蛋白活性	0.0024
		Amide transmembrane transporter activity
	GO:0005342	有机酸跨膜转运蛋白活性	0.038
		Organic acid transmembrane transporter activity
	GO:0046943	羧酸跨膜转运蛋白活性	0.038
		Carboxylic acid transmembrane transporter activity
生物学过程	GO:0006355	转录调控, DNA模板化	0.0000023
Biological process		Regulation of transcription, DNA-templated
	GO:2001141	调节RNA生物合成过程	0.0000031
		Regulation of RNA biosynthetic process
	GO:1903506	调节核酸模板化转录	0.0000031
		Regulation of nucleic acid-templated transcription
分类 Class	GO分类 GO term	显著富集的项目 Significantly enriched term	P值 P-value
	GO:2000022	调节茉莉酸介导的信号通路	0.00087
		Regulation of jasmonic acid mediated signaling pathway
	GO:0015849	有机酸运输	0.045
		Organic acid transport
	GO:0009755	激素介导的信号通路	0.049
		Hormone-mediated signaling pathway
	GO:0006796	含磷酸盐化合物代谢过程	0.0022
		Phosphate-containing compound metabolic process
	GO:0009753	对茉莉花酸的响应	0.0027
		Response to jasmonic acid
	GO:0009867	茉莉酸介导的信号通路	0.0047
		Jasmonic acid mediated signaling pathway
	GO:0071395	细胞对茉莉酸刺激的响应	0.0056
		Cellular response to jasmonic acid stimulus
	GO:0080134	调节对压力的响应	0.019
		Regulation of response to stress
	GO:0071229	细胞对酸性化学物质的响应	0.025
		Cellular response to acid chemical
	GO:0043207	对外部生物刺激的响应	0.03
		Response to external biotic stimulus
	GO:0051707	对其他微生物的响应	0.03
		Response to other organism
	GO:0003333	氨基酸跨膜转运	0.03
		Amino acid transmembrane transport
	GO:1903825	有机酸跨膜转运	0.031
		Organic acid transmembrane transport
	GO:1905039	羧酸跨膜转运	0.031
		Carboxylic acid transmembrane transport
	GO:0009733	对生长素的响应	0.043
		Response to auxin

Table 3

Fig. 8

Fig. 9

References 62

[1]	Zhang B, Horvath S. A general framework for weighted gene co-expression network analysis. Stat Appl Genet Mol Biol, 2005, 4: 17. pmid: 16646834
[2]	Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinfor, 2008, 9: 559. doi: 10.1186/1471-2105-9-559
[3]	Kuang J F, Wu C J, Guo Y F, Walther D, Shan W, Chen J Y, Chen L, Lu W J. Deciphering transcriptional regulators of banana fruit ripening by regulatory network analysis. Plant Biotechnol J, 2021; 19: 477-489. doi: 10.1111/pbi.13477
[4]	Sun S, Xiong X P, Zhu Q, Li Y J, Sun J. Transcriptome sequencing and metabolome analysis reveal genes involved in pigmentation of green-colored cotton fibers. Int J Mol Sci, 2019, 20: 4838. doi: 10.3390/ijms20194838
[5]	Greenham K, Guadagno C R, Gehan M A, Mockler T C, Weinig C, Ewers B E, McClung C R. Temporal network analysis identifies early physiological and transcriptomic indicators of mild drought in Brassica rapa. eLife, 2017, 6: e29655. doi: 10.7554/eLife.29655
[6]	马娟, 曹言勇, 王利锋, 李晶晶, 王浩, 范艳萍, 李会勇. 利用WGCNA鉴定玉米株高和穗位高基因共表达模块. 作物学报, 2020, 46: 385-394. doi: 10.3724/SP.J.1006.2020.93021
	Ma J, Cao Y Y, Wang L F, Li J J, Wang H, Fan Y P, Li H Y. Identification of gene co-expression modules of maize plant height and ear height by WGCNA. Acta Agron Sin, 2020, 46: 385-394 (in Chinese with English abstract) doi: 10.3724/SP.J.1006.2020.93021
[7]	Larcher W. Physiological Plant Ecology. England: J R Etherington, 1996. pp 630-631.
[8]	Krasensky J, Jonak C. Drought, salt, and temperature stress- induced metabolic rearrangements and regulatory networks. J Exp Bot, 2012, 63: 1593-1608 doi: 10.1093/jxb/err460 pmid: 22291134
[9]	Richards R A. Defining selection criteria to improve yield under drought. Plant Growth Regul, 1996, 20: 157-166. doi: 10.1007/BF00024012
[10]	Cushman J C, Bohnert H J. Genomic approaches to plant stress tolerance. Curr Opin Plant Biol, 2000, 3: 117-124 doi: 10.1016/s1369-5266(99)00052-7 pmid: 10712956
[11]	Li M, Sui N, Lin L, Yang Z, Zhang Y. Transcriptomic profiling revealed genes involved in response to cold stress in maize. Funct Plant Biol, 2019, 46: 830-844. doi: 10.1071/FP19065 pmid: 31217070
[12]	Frey F P, Pitz M, Schön C C, Hochholdinger F. Transcriptomic diversity in seedling roots of European flint maize in response to cold. BMC Genomics, 2020, 21: 300-310. doi: 10.1186/s12864-020-6682-1 pmid: 32293268
[13]	Guo J, Li C, Zhang X, Li Y, Zhang D, Shi Y, Song Y, Li Y, Yang D, Wang T. Transcriptome and GWAS analyses reveal candidate gene for seminal root length of maize seedlings under drought stress. Plant Sci, 2020, 292: 110380. doi: 10.1016/j.plantsci.2019.110380
[14]	Cao L, Lu X, Wang G, Zhang P, Fu J, Wang Z, Wei L, Wang T. Transcriptional regulatory networks in response to drought stress and rewatering in maize (Zea mays L.). Mol Genet Genomics, 2021, 6: 1203-1219.
[15]	Li W Z, Hao Z F, Pang J L, Zhang M, Wang N, Li X H, Li W H, Wang L, Xu M Y. Effect of water-deficit on tassel development in maize. Gene, 2019, 681: 86-92. doi: S0378-1119(18)30976-4 pmid: 30253182
[16]	Wang H Q, Liu P, Zhang J W, Zhao B, Ren B Z. Endogenous hormones inhibit differentiation of young ears in maize (Zea mays L.) under heat stress. Front Plant Sci, 2020, 11: 533040.
[17]	Waters A J, Makarevitch I, Noshay J, Burghardt L T, Hirsch C N, Hirsch C D, Springer N M. Natural variation for gene expression responses to abiotic stress in maize. Plant J, 2017, 89: 706-717.
[18]	Wang M Q, Wang Y F, Zhang Y F, Li C X, Gong S C, Yan S Q, Li G L, Hu G H, Ren H L, Yang J F, Yu T, Yang K J. Comparative transcriptome analysis of salt-sensitive and salt-tolerant maize reveals potential mechanisms to enhance salt resistance. Genes Genomics, 2019, 41: 781-801. doi: 10.1007/s13258-019-00793-y
[19]	Goldberg D H, Victor J D, Gardner E P, Gardner D. Spike train analysis toolkit: enabling wider application of information- theoretic techniques to neurophysiology. Neuroinformatics, 2009, 7: 165-178. doi: 10.1007/s12021-009-9049-y pmid: 19475519
[20]	Kroll K W, Mokaram N E, Pelletier A R, Frankhouser D E, Westphal M S, Bundschuh R, Blachly J S, Yan P. Quality control for RNA-Seq (QuaCRS): an integrated quality control pipeline. Cancer Inform, 2014, 13: 7-14.
[21]	Bolger A M, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for illumina sequence data. Bioinformatics, 2014, 30: 2114-2120. doi: 10.1093/bioinformatics/btu170 pmid: 24695404
[22]	Kim D, Langmead B, Salzberg S L. HISAT: a fast spliced aligner with low memory requirements. Nat Methods, 2015, 12: 357-360. doi: 10.1038/nmeth.3317 pmid: 25751142
[23]	Liao Y, Smyth G K, Shi W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics, 2014, 30: 923-930. doi: 10.1093/bioinformatics/btt656 pmid: 24227677
[24]	Ghosh S, Chan C K. Analysis of RNA-Seq data using TopHat and Cufflinks. Methods Mol Biol, 2016, 1374: 339-361. doi: 10.1007/978-1-4939-3167-5_18 pmid: 26519415
[25]	Tian T, Liu Y, Yan H Y, You Q, Yi X, Du Z, Xu W Y, Su Z. agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update. Nucleic Acids Res, 2017, 45: W122-W129. doi: 10.1093/nar/gkx382
[26]	Su G, Morris J H, Demchak B, Bader G D. Biological network exploration with Cytoscape 3. Curr Prot Bioinfor, 2014, 47: 8.13.1-8.13.24.
[27]	Zeng R, Li Z Y, Shi Y T, Fu D, Yin P, Cheng J K, Jiang C F, Yang S H. Natural variation in a type-A response regulator confers maize chilling tolerance. Nat Commun, 2021, 12: 4713. doi: 10.1038/s41467-021-25001-y pmid: 34354054
[28]	Wang X L, Wang H W, Liu S X, Ferjani A, Li J S, Yan J B, Yang X H, Qin F. Genetic variation in ZmVPP1 contributes to drought tolerance in maize seedlings. Nat Gene, 2016, 48: 1233-1241. doi: 10.1038/ng.3636
[29]	Pan Z Y, Liu M, Zhao H L, Tan Z D, Liang K, Sun Q, Gong D M, He H J, Zhou W Q, Qiu F Z. ZmSRL5 is involved in drought tolerance by maintaining cuticular wax structure in maize. J Integr Plant Biol, 2020, 62: 1895-1909. doi: 10.1111/jipb.12982
[30]	Li X D, Gao Y Q, Wu W H, Chen L M, Wang Y. Two calcium-dependent protein kinases enhance maize drought tolerance by activating anion channel ZmSLAC1 in guard cells. Plant Biotechnol J, 2022, 20: 143-157. doi: 10.1111/pbi.13701
[31]	Xiang Y L, Sun X P, Gao S, Qin F, Dai M Q. Deletion of an endoplasmic reticulum stress response element in a ZmPP2C-A gene facilitates drought tolerance of maize seedlings. Mol Plants, 2017, 10: 456-469.
[32]	Mao H D, Wang H W, Liu S X, Li Z Q, Yang X H, Yan J B, Li J S, Tran L S P, Qin F. A transposable element in a NAC gene is associated with drought tolerance in maize seedlings. Nat Commun, 2015, 6: 8326. doi: 10.1038/ncomms9326 pmid: 26387805
[33]	Li L, Du Y C, He C, Dietrich C R, Li J K, Ma X L, Wang R, Liu Q, Liu S Z, Wang G Y, Schnable P S, Zheng J. Maize glossy6 is involved in cuticular wax deposition and drought tolerance. J Exp Bot, 2019, 70: 3089-3099. doi: 10.1093/jxb/erz131 pmid: 30919902
[34]	Vaughan M M, Christensen S, Schmelz E A, Huffaker A, McAuslane H J, Alborn H T, Romero M, Allen L H, Teal P E. Accumulation of terpenoid phytoalexins in maize roots is associated with drought tolerance. Plant Cell Environ, 2015, 38: 2195-2207. doi: 10.1111/pce.12482
[35]	Zhu D, Chang Y, Pei T, Zhang X L, Liu L, Li Y, Zhuang J H, Yang H L, Qin F, Song C P, Ren D T. MAPK-like protein 1 positively regulates maize seedling drought sensitivity by suppressing ABA biosynthesis. Plant J, 2020, 102: 747-760. doi: 10.1111/tpj.14660
[36]	Zhu J T, Wang G L, Li C L, Li Q Q, Gao Y K, Chen F G, Xia G M. Maize Sep15-like functions in endoplasmic reticulum and reactive oxygen species homeostasis to promote salt and osmotic stress resistance. Plant Cell Environ, 2019, 42: 1486-1502. doi: 10.1111/pce.13507
[37]	Lund A A, Blum P H, Bhattramakki D, Elthon T E. Heat-stress response of maize mitochondria. Plant Physiol, 1998, 116: 1097-1110. pmid: 9501143
[38]	Li Z X, Srivastava R, Tang J, Zheng Z H, Howell S H. Cis-effects condition the induction of a major unfolded protein response factor, ZmHSF60, in response to heat stress in maize. Front Plant Sci, 2018, 9: 833. doi: 10.3389/fpls.2018.00833
[39]	Zhang N, Huang X Q. Mapping quantitative trait loci and predicting candidate genes for leaf angle in maize. PLoS One, 2021, 16: e0245129.
[40]	Li Z X, Howell S H. Heat stress responses and thermotolerance in maize. Int J Mol Sci, 2021, 22: 948. doi: 10.3390/ijms22020948
[41]	Holubová Ľ, Švubová R, Slováková Ľ, Bokor B, Kročková V C, Renčko J, Uhrin F, Medvecká V, Zahoranová A, Gálová E. Cold atmospheric pressure plasma treatment of maize grains-induction of growth, enzyme activities and heat shock proteins. Int J Mol Sci, 2021, 22: 8509. doi: 10.3390/ijms22168509
[42]	Jiang Y L, Zheng Q Q, Chen L, Liang Y N, Wu J D. Ectopic overexpression of maize heat shock transcription factor gene Zmhsf04 confers increased thermos- and salt-stress tolerance in transgenic Arabidopsis. Acta Physiol Plant, 2018, 40: 9. doi: 10.1007/s11738-017-2587-2
[43]	Jiménez-González A S, Fernández N, Martínez-Salas E, Sánchez de Jiménez E. Functional and structural analysis of maize hsp101 IRES. PLoS One, 2014, 9: e107459.
[44]	Luo X, Wang B C, Gao S, Zhang F, Terzaghi W, Dai M Q. Genome-wide association study dissects the genetic bases of salt tolerance in maize seedlings. J Integr Plant Biol, 2019, 61: 658-674. doi: 10.1111/jipb.12797
[45]	Augustine R C, York S L, Rytz T C, Vierstra R D. Defining the SUMO system in maize: SUMOylation is up-regulated during endosperm development and rapidly induced by stress. Plant Physiol, 2016, 171: 2191-2210. doi: 10.1104/pp.16.00353 pmid: 27208252
[46]	Gu L K, Liu Y K, Zong X J, Liu L, Li D P, Li D Q. Overexpression of maize mitogen-activated protein kinase gene, ZmSIMK1 in Arabidopsis increases tolerance to salt stress. Mol Biol Rep, 2010, 37: 4067-4073. doi: 10.1007/s11033-010-0066-6
[47]	Li H Y, Du H M, Huang K F, Chen X, Liu T Y, Gao S B, Liu H L, Tang Q L, Rong T Z, Zhang S Z. Identification, and functional and expression analyses of the CorA/MRS2/MGT-Type magnesium transporter family in maize. Plant Cell Physiol, 2016, 57: 1153-1168. doi: 10.1093/pcp/pcw064 pmid: 27084594
[48]	Zhu J T, Wang G L, Li C L, Li Q Q, Gao Y K, Chen F G, Xia G M. Maize Sep15-like functions in endoplasmic reticulum and reactive oxygen species homeostasis to promote salt and osmotic stress resistance. Plant Cell Environ, 2019, 42: 1486-1502. doi: 10.1111/pce.13507
[49]	Ma H Z, Liu C, Li Z X, Ran Q J, Xie G N, Wang B M, Fang S, Chu J F, Zhang J R. ZmbZIP4 contributes to stress resistance in maize by regulating ABA synthesis and root development. Plant Physiol, 2018, 178: 753-770. doi: 10.1104/pp.18.00436 pmid: 30126870
[50]	Kong M S, Luo M J, Li J N, Feng Z, Zhang Y X, Song W, Zhang R Y, Wang R H, Wang Y D, Zhao J R, Tao Y S, Zhao Y X. Genome-wide identification, characterization, and expression analysis of the monovalent cation-proton antiporter superfamily in maize, and functional analysis of its role in salt tolerance. Genomics, 2021, 113: 1940-1951. doi: 10.1016/j.ygeno.2021.04.032 pmid: 33895282
[51]	Cao Y B, Zhang M, Liang X Y, Li F R, Shi Y L, Yang X H, Jiang C F. Natural variation of an EF-hand Ca²⁺-binding-protein coding gene confers saline-alkaline tolerance in maize. Nat Commun, 2020, 11: 186. doi: 10.1038/s41467-019-14027-y
[52]	Fang X, Li W, Yuan H T, Chen H W, Bo C, Ma Q, Cai R H. Mutation of ZmWRKY86 confers enhanced salt stress tolerance in maize. Plant Physiol Biochem, 2021, 67: 840-850.
[53]	Luo J, Yu C M, Yan M, Chem Y H. Molecular characterization of the promoter of the stress-inducible ZmMYB30 gene in maize. Biol Plant, 2020, 64: 200-210. doi: 10.32615/bp.2020.011
[54]	Lin M, Matschi S, Vasquez M, Chamness J, Kaczmar N, Baseggio M, Miller M, Stewart E L, Qiao P F, Scanlon M J, Molina I, Smith L G, Gore M A. Genome-wide association study for maize leaf cuticular conductance identifies candidate genes involved in the regulation of cuticle development. Genes Genom Genet (Bethesda), 2020, 10: 1671-1683.
[55]	Ge C X, Wang Y G, Lu S, Zhao X Y, Hou B K, Balint-Kurti P J, Wang G F. Multi-omics analyses reveal the regulatory network and the function of ZmUGTs in maize defense response. Front Plant Sci, 2021, 12: 738261. doi: 10.3389/fpls.2021.738261
[56]	Sallam N, Moussa M. DNA methylation changes stimulated by drought stress in ABA-deficient maize mutant vp10. Plant Physiol Biochem, 2021, 160: 218-224. doi: 10.1016/j.plaphy.2021.01.024
[57]	Shao H B, Chu L Y, Shao M A, Jaleel C A, Mi H M. Higher plant antioxidants and redox signaling under environmental stresses. Comp Rendus Biol, 2008, 331: 433-441.
[58]	Wang J F, Shen Q R. Roles of organic acid metabolism in plant adaptation to nutrient deficiency and aluminum toxicity stress. Chin J Appl Ecol, 2006, 17: 2210-2216.
[59]	Raina M, Kisku A V, Joon S, Kumar S, Kumar D. Calcium Transport Elements in Plants. The United States of America: Academic Press, 2021. pp 231-248.
[60]	Shigeoka S, Maruta T. Cellular redox regulation, signaling, and stress response in plants. Biosci Biotechnol Biochem, 2014, 78: 1457-1470. doi: 10.1080/09168451.2014.942254
[61]	Jang J C. Arginine-rich motif-tandem CCCH zinc finger proteins in plant stress responses and post-transcriptional regulation of gene expression. Plant Sci, 2016, 252: 118-124. doi: 10.1016/j.plantsci.2016.06.014
[62]	Wu X W, Bacic A, Johnson K L, Humphries J. The role of brachypodium distachyon Wall-Associated Kinases (WAKs) in cell expansion and stress responses. Cells, 2020, 9: 2478. doi: 10.3390/cells9112478

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胁迫 Stress	模块 Module	基因数目 Number of genes	GO	显著富集的项目 Significantly enriched term	P值 P-value
寒冷	Mediumpurple4	6	GO:0007623	昼夜节律	0.0000043
Cold				Circadian rhythm
		7	GO:0009738	脱落酸激活的信号通路	0.0002
				Abscisic acid-activated signaling pathway
		7	GO:0009266	对温度刺激的响应	0.0088
				Response to temperature stimulus
		7	GO:0071215	脱落酸刺激的细胞响应	0.00024
				Cellular response to abscisic acid stimulus
高温	Ivory	50	GO:0009408	对热的响应	9.90E-58
Heat				Response to heat
		21	GO:0034605	细胞对热的响应	9.50E-24
				Cellular response to heat
		69	GO:0006950	对压力的响应	7.90E-22
				Response to stress
		76	GO:0050896	对刺激的响应	5.00E-12
				Response to stimulus
		47	GO:0051082	未折叠蛋白质结合	1.80E-45
				Unfolded protein binding
干旱	Coral2	236	GO:0055114	氧化还原过程	0.00000077
Drought				Oxidation-reduction process
		193	GO:0009056	分解代谢过程	0.00031
				Catabolic process
		43	GO:0006979	氧化应激响应	0.0014
				Response to oxidative stress
		26	GO:0042744	过氧化氢分解代谢过程	0.00051
				Hydrogen peroxide catabolic process
盐	Darkseagreen4	103	GO:0016054	有机酸分解代谢过程	6.90E-09
Salt				Organic acid catabolic process
		139	GO:0055114	氧化还原过程	5.50E-13
				Oxidation-reduction process
		25	GO:0009605	对外源刺激的响应	0.00038
				Response to external stimulus
		13	GO:0015849	有机酸转运	0.00031
				Organic acid transport

Identification of abiotic stress-related gene co-expression networks in maize by WGCNA

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