Genome-wide analysis of the LAZ1 gene family in Gossypium hirsutum.
Gene family
Gossypium hirsutum L.
LAZ1
Phylogenetic analysis
Salt stress tolerance
Journal
Molecular biology reports
ISSN: 1573-4978
Titre abrégé: Mol Biol Rep
Pays: Netherlands
ID NLM: 0403234
Informations de publication
Date de publication:
Nov 2023
Nov 2023
Historique:
received:
25
06
2023
accepted:
30
08
2023
medline:
10
11
2023
pubmed:
9
10
2023
entrez:
9
10
2023
Statut:
ppublish
Résumé
As the world's leading fiber crop and a major oil-producing crop, cotton fiber yield and fiber quality are affected by environmental stresses, especially heat, drought and salinity. The LAZ1 (Lazarus 1) family genes are responsive to abscisic acid, drought, and salt treatments. Currently, mining and functional analyses of LAZ1 family genes in cotton have not been reported. In this study, 20 GhLAZ1 genes, designated GhLAZ1-1 - GhLAZ1-20, were identified in the genome of Gossypium hirsutum through the construction of an HMM model, and their molecular properties, chromosomal localization, phylogeny, gene structure, evolutionary selection pressure, promoter cis elements and gene expression under salt stress were analyzed. With the exception of GhLAZ1-17 and GhLAZ1-20, the remaining 18 GhLAZ1 genes were unevenly localized on 13 chromosomes in G. hirsutum; evolutionary analysis showed that these genes could be divided into three subfamilies; and evolutionary selection pressure analysis demonstrated that the GhLAZ1 genes were all under purifying selection. Many elements related to light responses, hormone responses, and abiotic stresses were predicted on the GhLAZ1 family gene promoters, and real-time quantitative PCR results showed that GhLAZ1-2, GhLAZ1-8, and GhLAZ1-18 were upregulated significantly in salt-treated cotton leaves. Our results suggested that GhLAZ1 genes were involved in the salt tolerance mechanism in G. hirsutum and provided a reference for further exploring the function and molecular mechanism of LAZ1 genes.
Sections du résumé
BACKGROUND
BACKGROUND
As the world's leading fiber crop and a major oil-producing crop, cotton fiber yield and fiber quality are affected by environmental stresses, especially heat, drought and salinity. The LAZ1 (Lazarus 1) family genes are responsive to abscisic acid, drought, and salt treatments. Currently, mining and functional analyses of LAZ1 family genes in cotton have not been reported.
METHODS AND RESULTS
RESULTS
In this study, 20 GhLAZ1 genes, designated GhLAZ1-1 - GhLAZ1-20, were identified in the genome of Gossypium hirsutum through the construction of an HMM model, and their molecular properties, chromosomal localization, phylogeny, gene structure, evolutionary selection pressure, promoter cis elements and gene expression under salt stress were analyzed. With the exception of GhLAZ1-17 and GhLAZ1-20, the remaining 18 GhLAZ1 genes were unevenly localized on 13 chromosomes in G. hirsutum; evolutionary analysis showed that these genes could be divided into three subfamilies; and evolutionary selection pressure analysis demonstrated that the GhLAZ1 genes were all under purifying selection. Many elements related to light responses, hormone responses, and abiotic stresses were predicted on the GhLAZ1 family gene promoters, and real-time quantitative PCR results showed that GhLAZ1-2, GhLAZ1-8, and GhLAZ1-18 were upregulated significantly in salt-treated cotton leaves.
CONCLUSIONS
CONCLUSIONS
Our results suggested that GhLAZ1 genes were involved in the salt tolerance mechanism in G. hirsutum and provided a reference for further exploring the function and molecular mechanism of LAZ1 genes.
Identifiants
pubmed: 37812351
doi: 10.1007/s11033-023-08788-5
pii: 10.1007/s11033-023-08788-5
doi:
Substances chimiques
Abscisic Acid
72S9A8J5GW
Plant Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
9273-9282Subventions
Organisme : Key Technologies Research and Development Program
ID : 2021YFE0101200
Informations de copyright
© 2023. The Author(s), under exclusive licence to Springer Nature B.V.
Références
Dawson PA, Hubbert M, Haywood J, Craddock AL, Zerangue N, Christian WV, Ballatori N (2005) The heteromeric organic solute transporter α-β, Ostα-Ostβ, is an ileal basolateral bile acid transporter. J Biol Chem 280:6960–6968. https://doi.org/10.1074/jbc.M412752200
doi: 10.1074/jbc.M412752200
pubmed: 15563450
Liu BL, Yu HQ, Wen Q, Fu FL, Li WC (2019) Genome-wide analysis of LAZ1 gene family from maize. J Plant Growth Regul 39:656–668. https://doi.org/10.1007/s00344-019-10008-z
doi: 10.1007/s00344-019-10008-z
Liu Q, Vain T, Viotti C, Doyle SM, Tarkowská D, Novák O, Zipfel C, Sitbon F, Robert S, Hofius D (2018) Vacuole integrity maintained by DUF300 proteins is required for brassinosteroid signaling regulation. Mol Plant 11:553–567. https://doi.org/10.1016/j.molp.2017.12.015
doi: 10.1016/j.molp.2017.12.015
pubmed: 29288738
Dawson PA, Hubbert ML, Rao A (2010) Getting the mOST from OST: role of organic solute transporter, OSTα-OSTβ, in bile acid and steroid metabolism. BBA-Mol Cell Biol L 1801(9):994–1004. https://doi.org/10.1016/j.bbalip.2010.06.002
doi: 10.1016/j.bbalip.2010.06.002
Malinovsky FG, Brodersen P, Fiil BK, McKinney LV, Thorgrimsen S, Beck M, Nielsen HB, Pietra S, Zipfel C, Robatzek S, Petersen M, Hofius D, Mundy J (2010) Lazarus1, a DUF300 protein, contributes to programmed cell death associated with Arabidopsis acd11 and the hypersensitive response. PLoS ONE 5:e12586. https://doi.org/10.1371/journal.pone.0012586
doi: 10.1371/journal.pone.0012586
pubmed: 20830211
pmcid: 2935358
Yang X, Zhang B (2021) Identification of the LAZ1 gene family and functional study of GmLAZ1 genes in soybean. Acta Agriculturae Zhejiangensis 33: 586–594. https://kns.cnki.net/kcms/detail/detail.aspx?FileName=ZJNB202104004&DbName=CJFQ 2021
Naeem M, Iqbal M, Ul-Allah S, Chaudhary HJ, Nazeer W, Ashraf J, Baloch FS (2021) Expression studies of stress responsive genes in cotton Gossypium hirsutum L. Mol Biol Rep 48:7077–7085. https://doi.org/10.1007/s11033-021-06696-0
doi: 10.1007/s11033-021-06696-0
pubmed: 34535835
Zörb C, Geilfus CM, Dietz KJ (2019) Salinity and crop yield. Plant Biol 21:31–38. https://doi.org/10.1111/plb.12884
doi: 10.1111/plb.12884
pubmed: 30059606
Li F, Gong M, Li C, Zhang YB (2019) Mining for functional genes of salt tolerant plants for drought resistance and their application to cotton breeding. Mol Plant Breed 17:7395–7400. https://doi.org/10.13271/j.mpb.017.007395
doi: 10.13271/j.mpb.017.007395
Ahanger M, Akram NA, Ashraf M, Alyemeni MN, Wijaya L, Ahmad P (2017) Plant responses to environmental stresses-from gene to biotechnology. AOB Plants 9(4):plx025. https://doi.org/10.1093/aobpla/plx025
doi: 10.1093/aobpla/plx025
pubmed: 28775828
pmcid: 5534019
Xie F, Wang Q, Sun R, Zhang B (2015) Deep sequencing reveals important roles of microRNAs in response to drought and salinity stress in cotton. J Exp Bot 66:789–804. https://doi.org/10.1093/jxb/eru437
doi: 10.1093/jxb/eru437
pubmed: 25371507
Liu S, Zhang C, Zhu Q, Guo F, Chai R, Wang M, Deng X, Dong T, Meng X, Zhu M (2022) Genome- and transcriptome-wide systematic characterization of bZIP transcription factor family identifies promising members involved in abiotic stress response in sweet potato. Sci Hortic-Amesterdam, 303: 111185. https://www.nstl.gov.cn/paper_detail.html?id=5f8ce 2208b68ea2b9c029118e95919c2
Zhao Y, Liang J, Wang Z, Yan T, Yan X, Wei W, Le M, Sun J (2023) Genome-wide identification and expression analysis of the trihelix transcription factor family in sesame (Sesamum indicum L.) under abiotic stress. Mol Biol Rep. https://doi.org/10.1007/s11033-023-08640-w
doi: 10.1007/s11033-023-08640-w
pubmed: 37904012
pmcid: 10519867
Finn RD, Coggill P, Eberhardt RY, Eddy SR, Mistry J, Mitchell AL, Potter SC, Punta M, Qureshi M, Sangrador-Vegas A, Salazar GA, Tate J, Bateman A (2016) The pfam protein families database: towards a more sustainable future. Nucleic Acids Res 44:D279–D285. https://doi.org/10.1093/nar/gkv1344
doi: 10.1093/nar/gkv1344
pubmed: 26673716
Marchler-Bauer A, Bo Y, Han L, He J, Lanczycki CJ, Lu S, Chitsaz F, Derbyshire MK, Geer RC, Gonzales NR, Gwadz M, Hurwitz DI, Lu F, Marchler GH, Song JS, Thanki N, Wang Z, Yamashita RA, Zhang D, Zheng C, Geer LY, Bryant SH (2017) CDD/SPARCLE: functional classification of proteins via subfamily domain architectures. Nucleic Acids Res 45:D200–D203. https://doi.org/10.1093/nar/gkw1129
doi: 10.1093/nar/gkw1129
pubmed: 27899674
Letunic I, Khedkar S, Bork P (2021) SMART: recent updates, new developments and status in 2020. Nucleic Acids Res 49:D458–D460. https://doi.org/10.1093/nar/gkaa937
doi: 10.1093/nar/gkaa937
pubmed: 33104802
Horton P, Park KJ, Obayashi T, Fujita N, Harada H, Adams-Collier CJ, Nakai K (2007) WoLF PSORT: protein localization predictor. Nucleic Acids Res 35:W585–W587. https://doi.org/10.1093/nar/gkm259
doi: 10.1093/nar/gkm259
pubmed: 17517783
pmcid: 1933216
Voorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. J Hered 93(1):77–78. https://doi.org/10.1093/jhered/93.1.77
doi: 10.1093/jhered/93.1.77
pubmed: 12011185
Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary Genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874. https://doi.org/10.1093/molbev/msw054
doi: 10.1093/molbev/msw054
pubmed: 27004904
pmcid: 8210823
Chen C, Chen H, Zhang Y, Thomas HR, Frank MH, He Y, Xia R (2020) TBtools: an integrative toolkit developed for interactive analyses of big biological data. Mol Plant 13:1194–1202. https://doi.org/10.1016/j.molp.2020.06.009
doi: 10.1016/j.molp.2020.06.009
pubmed: 32585190
Lescot M, Déhais P, Thijs G, Marchal K, Moreau Y, Van de Peer Y, Rouzé P, Rombauts S (2002) PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Res 30(1):325–327. https://doi.org/10.1093/nar/30.1.325
doi: 10.1093/nar/30.1.325
pubmed: 11752327
pmcid: 99092
Xiong E, Zheng C, Wang W (2016) Protein subcellular location: the gap between prediction and experimentation. Plant Mol Biol Rep 34:52–61. https://doi.org/10.1007/s11105-015-0898-2
doi: 10.1007/s11105-015-0898-2
Chakma SP, Chileshe SM, Thomas R, Krishna P (2021) Cotton seed priming with brassinosteroid promotes germination and seedling growth. Agronomy 11(3):566. https://doi.org/10.3390/agronomy11030566
doi: 10.3390/agronomy11030566
Liu B, Wang X, Li K, Cai Z (2021) Spatially resolved metabolomics and lipidomics reveal salinity and drought-tolerant mechanisms of cottonseeds. J Agric Food Chem 69(28):8028–8037. https://doi.org/10.1021/acs.jafc.1c01598
doi: 10.1021/acs.jafc.1c01598
pubmed: 34253015
Chen L, Liu L, Lu B, Ma T, Jiang D, Li J, Zhang K, Sun H, Zhang Y, Bai Z, Li C (2020) Exogenous melatonin promotes seed germination and osmotic regulation under salt stress in cotton (Gossypium hirsutum L). PLoS ONE 15:e0228241. https://doi.org/10.1371/journal.pone.0228241
doi: 10.1371/journal.pone.0228241
pubmed: 32004326
pmcid: 6994006