Genome-wide Identification and Function Analysis of HMAD Gene Family in Cotton (Gossypium Spp.)

Overview

Journal BMC Plant Biol

Publisher Biomed Central

Specialty Biology

Date 2021 Aug 21

PMID 34416873

Citations 3

Authors

Qinqin Wang

Xuke Lu

Xiugui Chen

Lanjie Zhao

Mingge Han

Shuai Wang

Yuexin Zhang

Yapeng Fan

Wuwei Ye

Affiliations

Soon will be listed here.

Abstract

Background: The abiotic stress such as soil salinization and heavy metal toxicity has posed a major threat to sustainable crop production worldwide. Previous studies revealed that halophytes were supposed to tolerate other stress including heavy metal toxicity. Though HMAD (heavy-metal-associated domain) was reported to play various important functions in Arabidopsis, little is known in Gossypium.

Results: A total of 169 G. hirsutum genes were identified belonging to the HMAD gene family with the number of amino acids ranged from 56 to 1011. Additionally, 84, 76 and 159 HMAD genes were identified in each G. arboreum, G. raimondii and G. barbadense, respectively. The phylogenetic tree analysis showed that the HMAD gene family were divided into five classes, and 87 orthologs of HMAD genes were identified in four Gossypium species, such as genes Gh_D08G1950 and Gh_A08G2387 of G. hirsutum are orthologs of the Gorai.004G210800.1 and Cotton_A_25987 gene in G. raimondii and G. arboreum, respectively. In addition, 15 genes were lost during evolution. Furthermore, conserved sequence analysis found the conserved catalytic center containing an anion binding (CXXC) box. The HMAD gene family showed a differential expression levels among different tissues and developmental stages in G. hirsutum with the different cis-elements for abiotic stress.

Conclusions: Current study provided important information about HMAD family genes under salt-stress in Gossypium genome, which would be useful to understand its putative functions in different species of cotton.

Citing Articles

Evolution, Structural and Functional Characteristics of the Gene Family and Gene Expression Through Methyl Jasmonate Regulation in C.A. Meyer.

Lephoto K, Wang D, Liu S, Li L, Wang C, Liu R Plants (Basel). 2025; 13(24.

PMID: 39771274 PMC: 11677711. DOI: 10.3390/plants13243574.

Genome-wide identification of heavy-metal ATPases genes in Areca catechu: investigating their functionality under heavy metal exposure.

Khan N, Ali A, Wan Y, Zhou G BMC Plant Biol. 2024; 24(1):484.

PMID: 38822228 PMC: 11141028. DOI: 10.1186/s12870-024-05201-6.

Genome-Wide Identification and Expression Analysis Unveil the Involvement of the Cold Shock Protein (CSP) Gene Family in Cotton Hypothermia Stress.

Yang Y, Zhou T, Xu J, Wang Y, Pu Y, Qu Y Plants (Basel). 2024; 13(5).

PMID: 38475489 PMC: 10934078. DOI: 10.3390/plants13050643.

Insights into morphological and physio-biochemical adaptive responses in mungbean ( L.) under heat stress.

Bhardwaj R, Lone J, Pandey R, Mondal N, Dhandapani R, Meena S Front Genet. 2023; 14:1206451.

PMID: 37396038 PMC: 10308031. DOI: 10.3389/fgene.2023.1206451.

References

LARKIN M, Blackshields G, Brown N, Chenna R, McGettigan P, McWilliam H . Clustal W and Clustal X version 2.0. Bioinformatics. 2007; 23(21):2947-8. DOI: 10.1093/bioinformatics/btm404. View

Taghipour M, Jalali M . Impact of some industrial solid wastes on the growth and heavy metal uptake of cucumber (Cucumis sativus L.) under salinity stress. Ecotoxicol Environ Saf. 2019; 182:109347. DOI: 10.1016/j.ecoenv.2019.06.030. View

Nawaz I, Iqbal M, Bliek M, Schat H . Salt and heavy metal tolerance and expression levels of candidate tolerance genes among four extremophile Cochlearia species with contrasting habitat preferences. Sci Total Environ. 2017; 584-585:731-741. DOI: 10.1016/j.scitotenv.2017.01.111. View

Nocito F, Lancilli C, Crema B, Fourcroy P, Davidian J, Sacchi G . Heavy metal stress and sulfate uptake in maize roots. Plant Physiol. 2006; 141(3):1138-48. PMC: 1489904. DOI: 10.1104/pp.105.076240. View

Hou W, Chen X, Song G, Wang Q, Chang C . Effects of copper and cadmium on heavy metal polluted waterbody restoration by duckweed (Lemna minor). Plant Physiol Biochem. 2007; 45(1):62-9. DOI: 10.1016/j.plaphy.2006.12.005. View

Wang X, Lu X, Malik W, Chen X, Wang J, Wang D . Differentially expressed bZIP transcription factors confer multi-tolerances in Gossypium hirsutum L. Int J Biol Macromol. 2020; 146:569-578. DOI: 10.1016/j.ijbiomac.2020.01.013. View

Sarowar S, Kim Y, Kim E, Kim K, Hwang B, Islam R . Overexpression of a pepper basic pathogenesis-related protein 1 gene in tobacco plants enhances resistance to heavy metal and pathogen stresses. Plant Cell Rep. 2005; 24(4):216-24. DOI: 10.1007/s00299-005-0928-x. View

Siddikee M, Glick B, Chauhan P, Yim W, Sa T . Enhancement of growth and salt tolerance of red pepper seedlings (Capsicum annuum L.) by regulating stress ethylene synthesis with halotolerant bacteria containing 1-aminocyclopropane-1-carboxylic acid deaminase activity. Plant Physiol Biochem. 2011; 49(4):427-34. DOI: 10.1016/j.plaphy.2011.01.015. View

Malik W, Wang X, Wang X, Shu N, Cui R, Chen X . Genome-wide expression analysis suggests glutaredoxin genes response to various stresses in cotton. Int J Biol Macromol. 2020; 153:470-491. DOI: 10.1016/j.ijbiomac.2020.03.021. View

10.

Kumar S, Stecher G, Li M, Knyaz C, Tamura K . MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Mol Biol Evol. 2018; 35(6):1547-1549. PMC: 5967553. DOI: 10.1093/molbev/msy096. View

11.

MacFarlane G, Burchett M . Photosynthetic pigments and peroxidase activity as indicators of heavy metal stress in the Grey mangrove, Avicennia marina (Forsk.) Vierh. Mar Pollut Bull. 2001; 42(3):233-40. DOI: 10.1016/s0025-326x(00)00147-8. View

12.

Cobbett C, Hussain D, Haydon M . Structural and functional relationships between type 1 heavy metal-transporting P-type ATPases in Arabidopsis. New Phytol. 2021; 159(2):315-321. DOI: 10.1046/j.1469-8137.2003.00785.x. View

13.

Wang C, Chen Q, Xiang N, Liu Y, Kong X, Yang Y . SIP1, a novel SOS2 interaction protein, is involved in salt-stress tolerance in Arabidopsis. Plant Physiol Biochem. 2018; 124:167-174. DOI: 10.1016/j.plaphy.2018.01.018. View

14.

Zhang F, Wang Y, Lou Z, Dong J . Effect of heavy metal stress on antioxidative enzymes and lipid peroxidation in leaves and roots of two mangrove plant seedlings (Kandelia candel and Bruguiera gymnorrhiza). Chemosphere. 2006; 67(1):44-50. DOI: 10.1016/j.chemosphere.2006.10.007. View

15.

Kim Y, Khan A, Kim D, Lee S, Kim K, Waqas M . Silicon mitigates heavy metal stress by regulating P-type heavy metal ATPases, Oryza sativa low silicon genes, and endogenous phytohormones. BMC Plant Biol. 2014; 14:13. PMC: 3893592. DOI: 10.1186/1471-2229-14-13. View

16.

Lu M, Jiao S, Gao E, Song X, Li Z, Hao X . Transcriptome Response to Heavy Metals in Sinorhizobium meliloti CCNWSX0020 Reveals New Metal Resistance Determinants That Also Promote Bioremediation by Medicago lupulina in Metal-Contaminated Soil. Appl Environ Microbiol. 2017; 83(20). PMC: 5626999. DOI: 10.1128/AEM.01244-17. View

17.

Xu W, Huang W . Calcium-Dependent Protein Kinases in Phytohormone Signaling Pathways. Int J Mol Sci. 2017; 18(11). PMC: 5713403. DOI: 10.3390/ijms18112436. View

18.

Wang D, Zhang Y, Zhang Z, Zhu J, Yu J . KaKs_Calculator 2.0: a toolkit incorporating gamma-series methods and sliding window strategies. Genomics Proteomics Bioinformatics. 2010; 8(1):77-80. PMC: 5054116. DOI: 10.1016/S1672-0229(10)60008-3. View

19.

Huang X, Deng F, Yamaji N, Pinson S, Fujii-Kashino M, Danku J . A heavy metal P-type ATPase OsHMA4 prevents copper accumulation in rice grain. Nat Commun. 2016; 7:12138. PMC: 4941113. DOI: 10.1038/ncomms12138. View

20.

Kumar S, Asif M, Chakrabarty D, Tripathi R, Dubey R, Trivedi P . Expression of a rice Lambda class of glutathione S-transferase, OsGSTL2, in Arabidopsis provides tolerance to heavy metal and other abiotic stresses. J Hazard Mater. 2013; 248-249:228-37. DOI: 10.1016/j.jhazmat.2013.01.004. View