SOS1 gene family in mangrove (Kandelia obovata): Genome-wide identification, characterization, and expression analyses under salt and copper stress.
Kandelia obovata
SOS1 gene family
Copper stress
Expression analysis
Salt stress
Journal
BMC plant biology
ISSN: 1471-2229
Titre abrégé: BMC Plant Biol
Pays: England
ID NLM: 100967807
Informations de publication
Date de publication:
27 Aug 2024
27 Aug 2024
Historique:
received:
06
06
2024
accepted:
20
08
2024
medline:
27
8
2024
pubmed:
27
8
2024
entrez:
26
8
2024
Statut:
epublish
Résumé
Salt Overly Sensitive 1 (SOS1), a plasma membrane Na A genome-wide analysis and bioinformatics techniques were used in this study to identify 20 SOS1 genes in the genome of Kandelia obovata. Most of the SOS1 genes were found on the plasma membrane and dispersed over 11 of the 18 chromosomes. Based on phylogenetic analysis, KoSOS1s can be categorized into four groups, similar to Solanum tuberosum. Kandelia obovata's SOS1 gene family expanded due to tandem and segmental duplication. These SOS1 homologs shared similar protein structures, according to the results of the conserved motif analysis. The coding regions of 20 KoSOS1 genes consist of amino acids ranging from 466 to 1221, while the exons include amino acids ranging from 3 to 23. In addition, we found that the 2.0 kb upstream promoter region of the KoSOS1s gene contains several cis-elements associated with phytohormones and stress responses. According to the expression experiments, seven randomly chosen genes experienced up- and down-regulation of their expression levels in response to copper (CuCl For the first time, this work systematically identified SOS1 genes in Kandelia obovata. Our investigations also encompassed physicochemical properties, evolution, and expression patterns, thereby furnishing a theoretical framework for subsequent research endeavours aimed at functionally characterizing the Kandelia obovata SOS1 genes throughout the life cycle of plants.
Sections du résumé
BACKGROUND
BACKGROUND
Salt Overly Sensitive 1 (SOS1), a plasma membrane Na
RESULTS
RESULTS
A genome-wide analysis and bioinformatics techniques were used in this study to identify 20 SOS1 genes in the genome of Kandelia obovata. Most of the SOS1 genes were found on the plasma membrane and dispersed over 11 of the 18 chromosomes. Based on phylogenetic analysis, KoSOS1s can be categorized into four groups, similar to Solanum tuberosum. Kandelia obovata's SOS1 gene family expanded due to tandem and segmental duplication. These SOS1 homologs shared similar protein structures, according to the results of the conserved motif analysis. The coding regions of 20 KoSOS1 genes consist of amino acids ranging from 466 to 1221, while the exons include amino acids ranging from 3 to 23. In addition, we found that the 2.0 kb upstream promoter region of the KoSOS1s gene contains several cis-elements associated with phytohormones and stress responses. According to the expression experiments, seven randomly chosen genes experienced up- and down-regulation of their expression levels in response to copper (CuCl
CONCLUSIONS
CONCLUSIONS
For the first time, this work systematically identified SOS1 genes in Kandelia obovata. Our investigations also encompassed physicochemical properties, evolution, and expression patterns, thereby furnishing a theoretical framework for subsequent research endeavours aimed at functionally characterizing the Kandelia obovata SOS1 genes throughout the life cycle of plants.
Identifiants
pubmed: 39187766
doi: 10.1186/s12870-024-05528-0
pii: 10.1186/s12870-024-05528-0
doi:
Substances chimiques
Copper
789U1901C5
Plant Proteins
0
SOS1 Protein
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
805Informations de copyright
© 2024. The Author(s).
Références
Hussain Q, Asim M, Zhang R, Khan R, Farooq S. Transcription Factors Interact with ABA through Gene Expression and Signaling Pathways to Mitigate Drought and Salinity Stress. Biomolecules. 2021;11:1159.
doi: 10.3390/biom11081159
pubmed: 34439825
pmcid: 8393639
He M, He CQ, Ding NZ. Abiotic stresses: General defenses of land plants and chances for engineering multistress tolerance. Front Plant Sci. 2018;871 December:1–18.
Cramer GR, Urano K, Delrot S, Pezzotti M, Shinozaki K. Effects of abiotic stress on plants: a systems biology perspective. BMC Plant Biol. 2011;11:1–14.
doi: 10.1186/1471-2229-11-163
Waqas MA, Kaya C, Riaz A, Farooq M, Nawaz I, Wilkes A, et al. Potential Mechanisms of Abiotic Stress Tolerance in Crop Plants Induced by Thiourea. Front Plant Sci. 2019;10 October:1–14.
Zhu JK. Abiotic Stress Signaling and Responses in Plants. Cell. 2016;167:313–24.
doi: 10.1016/j.cell.2016.08.029
pubmed: 27716505
pmcid: 5104190
Zhang Y, Zhou J, Ni X, Wang Q, Jia Y, Xu X, et al. Structural basis for the activity regulation of Salt Overly Sensitive 1 in Arabidopsis salt tolerance. Nat Plants. 2023;9:1915–23.
doi: 10.1038/s41477-023-01550-6
pubmed: 37884652
Yang Y, Guo Y. Unraveling salt stress signaling in plants. J Integr Plant Biol. 2018;60:796–804.
doi: 10.1111/jipb.12689
pubmed: 29905393
Zhu JK. Salt and drought stress signal transduction in plants. Annu Rev Plant Biol. 2002;53:247–73.
doi: 10.1146/annurev.arplant.53.091401.143329
pubmed: 12221975
pmcid: 3128348
Shang C, Chen J, Nkoh JN, Wang J, Chen S, Hu Z, et al. Biochemical and multi-omics analyses of response mechanisms of rhizobacteria to long-term copper and salt stress: Effect on soil physicochemical properties and growth of Avicennia marina. J Hazard Mater. 2024;466 January:133601.
Sudhir S, Arunprasath A, Sankara Vel V. A critical review on adaptations, and biological activities of the mangroves. J Nat Pestic Res. 2022;1 February:100006.
Alhassan AB, Aljahdali MO. Sediment Metal Contamination, Bioavailability, and Oxidative Stress Response in Mangrove Avicennia marina in Central Red Sea. Front Environ Sci. 2021;9 June:1–15.
Yuan M, Li X, Xiao J, Wang S. Molecular and functional analyses of COPT/Ctr-type copper transporter-like gene family in rice. BMC Plant Biol. 2011;11:69.
doi: 10.1186/1471-2229-11-69
pubmed: 21510855
pmcid: 3103425
Hu Z, Fu Q, Zheng J, Zhang A, Wang H. Transcriptomic and metabolomic analyses reveal that melatonin promotes melon root development under copper stress by inhibiting jasmonic acid biosynthesis. Hortic Res. 2020;7:79.
doi: 10.1038/s41438-020-0293-5
pubmed: 32528691
pmcid: 7261800
Cano-Gauci DF, Sarkar B. Reversible zinc exchange between metallothionein and the estrogen receptor zinc finger. FEBS Lett. 1996;386:1–4.
doi: 10.1016/0014-5793(96)00356-0
pubmed: 8635592
Hussain Q, Ye T, Li S, Nkoh JN, Zhou Q, Shang C. Genome-Wide Identification and Expression Analysis of the Copper Transporter (COPT/Ctr) Gene Family in Kandelia obovata, a Typical Mangrove Plant. Int J Mol Sci. 2023;24:15579.
doi: 10.3390/ijms242115579
pubmed: 37958561
pmcid: 10648262
Peñarrubia L, Andrés-Colás N, Moreno J, Puig S. Regulation of copper transport in Arabidopsis thaliana: A biochemical oscillator? J Biol Inorg Chem. 2010;15:29–36.
doi: 10.1007/s00775-009-0591-8
pubmed: 19798519
Burkhead JL, Gogolin Reynolds KA, Abdel-Ghany SE, Cohu CM, Pilon M. Copper homeostasis. New Phytol. 2009;182:799–816.
doi: 10.1111/j.1469-8137.2009.02846.x
pubmed: 19402880
Shen X, Li R, Chai M, Cheng S, Niu Z, Qiu GY. Interactive effects of single, binary and trinary trace metals (lead, zinc and copper) on the physiological responses of Kandelia obovata seedlings. Environ Geochem Health. 2019;41:135–48.
doi: 10.1007/s10653-018-0142-8
pubmed: 29987496
Hussain Q, Ye T, Shang C, Li S, Nkoh JN, Li W, et al. Genome-Wide Identification, Characterization, and Expression Analysis of the Copper-Containing Amine Oxidase Gene Family in Mangrove Kandelia obovata. Int J Mol Sci. 2023;24:17312.
doi: 10.3390/ijms242417312
pubmed: 38139139
pmcid: 10743698
Liang L, Guo L, Zhai Y, Hou Z, Wu W, Zhang X, et al. Genome-wide characterization of SOS1 gene family in potato (Solanum tuberosum) and expression analyses under salt and hormone stress. Front Plant Sci. 2023;14 June:1201730.
Cheng C, Zhong Y, Wang Q, Cai Z, Wang D, Li C. Genome-wide identification and gene expression analysis of SOS family genes in tuber mustard (Brassica juncea var. Tumida). PLoS One. 2019;14:1–19.
Świeżawska B, Duszyn M, Jaworski K, Szmidt-Jaworska A. Downstream targets of cyclic nucleotides in plants. Front Plant Sci. 2018;9 October:1–7.
Yang Q, Chen ZZ, Zhou XF, Yin HB, Li X, Xin XF, et al. Overexpression of SOS (salt overly sensitive) genes increases salt tolerance in transgenic Arabidopsis. Mol Plant. 2009;2:22–31.
doi: 10.1093/mp/ssn058
pubmed: 19529826
Keisham M, Mukherjee S, Bhatla SC. Mechanisms of sodium transport in plants—Progresses and challenges. Int J Mol Sci. 2018;19:647.
doi: 10.3390/ijms19030647
pubmed: 29495332
pmcid: 5877508
Zhao C, William D, Sandhu D. Isolation and characterization of Salt Overly Sensitive family genes in spinach. Physiol Plant. 2021;171:520–32.
doi: 10.1111/ppl.13125
pubmed: 32418228
Shi H, Ishitani M, Kim C, Zhu JK. The Arabidopsis thaliana salt tolerance gene SOS1 encodes a putative Na
doi: 10.1073/pnas.120170197
pubmed: 10823923
pmcid: 18772
Gao J, Sun J, Cao P, Ren L, Liu C, Chen S, et al. Variation in tissue Na+ content and the activity of SOS1 genes among two species and two related genera of Chrysanthemum. BMC Plant Biol. 2016;16:98.
doi: 10.1186/s12870-016-0781-9
pubmed: 27098270
pmcid: 4839091
Núñez-Ramírez R, Sánchez-Barrena MJO, Villalta I, Vega JF, Pardo JM, Quintero FJ, et al. Structural insights on the plant salt-overly-sensitive 1 (SOS1) Na
doi: 10.1016/j.jmb.2012.09.015
pubmed: 23022605
Jiang W, Pan R, Buitrago S, Wu C, Abou-Elwafa SF, Xu Y, et al. Conservation and divergence of the TaSOS1 gene family in salt stress response in wheat (Triticum aestivum L.). Physiol Mol Biol Plants. 2021;27:1245–60.
Cao Y, Shan T, Fang H, Sun K, Shi W, Tang B, et al. Genome-wide analysis reveals the spatiotemporal expression patterns of SOS3 genes in the maize B73 genome in response to salt stress. BMC Genomics. 2022;23:1–13.
doi: 10.1186/s12864-021-08287-6
Maughan PJ, Turner TB, Coleman CE, Elzinga DB, Jellen EN, Morales JA, et al. Characterization of Salt Overly Sensitive 1 (SOS1) gene homoeologs in quinoa (Chenopodium quinoa Willd.). Genome. 2009;52:647–57.
Zhang M, Cao J, Zhang T, Xu T, Yang L, Li X, et al. A Putative Plasma Membrane Na
Zhou X, Li J, Wang Y, Liang X, Zhang M, Lu M, et al. The classical SOS pathway confers natural variation of salt tolerance in maize. New Phytol. 2022;236:479–94.
doi: 10.1111/nph.18278
pubmed: 35633114
Cha JY, Kim J, Jeong SY, Shin GI, Ji MG, Hwang JW, et al. The Na
doi: 10.1073/pnas.2207275119
pubmed: 35939685
pmcid: 9388102
Luo B, Guang M, Yun W, Ding S, Ren S, Gao H. Camellia sinensis Chloroplast Fluoride Efflux Gene CsABCB9 Is Involved in the Fluoride Tolerance Mechanism. Int J Mol Sci. 2022;23:7756.
doi: 10.3390/ijms23147756
pubmed: 35887104
pmcid: 9317437
Hussain Q, Ye T, Shang C, Li S, Mustafa AEMA, Elshikh MS. NRAMP gene family in Kandelia obovata: genome-wide identification, expression analysis, and response to five different copper stress conditions. Front Plant Sci. 2024;14:1318383.
doi: 10.3389/fpls.2023.1318383
pubmed: 38239217
pmcid: 10794735
Ma L, Yang S. Growth and physiological response of Kandelia obovata and Bruguiera sexangula seedlings to aluminum stress. Environ Sci Pollut Res. 2022;29:43251–66.
doi: 10.1007/s11356-021-17926-0
Dai M, Lu H, Liu W, Jia H, Hong H, Liu J, et al. Phosphorus mediation of cadmium stress in two mangrove seedlings Avicennia marina and Kandelia obovata differing in cadmium accumulation. Ecotoxicol Environ Saf. 2017;139 January:272–9.
Zhang F, Wang Y, Lou Z. Effect of heavy metal stress on antioxidative enzymes and lipidperoxidation in leaves and roots of two mangrove plant seedlings (Kandelia candel and Bruguiera gymnorrhiza). Chemosphere. 2007;67:44–50.
doi: 10.1016/j.chemosphere.2006.10.007
pubmed: 17123580
MacFarlane GR, Koller CE, Blomberg SP. Accumulation and partitioning of heavy metals in mangroves: A synthesis of field-based studies. Chemosphere. 2007;69:1454–64.
doi: 10.1016/j.chemosphere.2007.04.059
pubmed: 17560628
Hu MJ, Sun WH, Tsai WC, Xiang S, Lai XK, Chen DQ, et al. Chromosome-scale assembly of the Kandelia obovata genome. Hortic Res. 2020;7:75.
doi: 10.1038/s41438-020-0300-x
pubmed: 32377365
pmcid: 7195387
Sheue CR, Liu HY, Yong JWH. Kandelia obovata (Rhizophoraceae), a new mangrove species from Eastern Asia. Taxon. 2003;52:287–94.
doi: 10.2307/3647398
Wang CW, Wong SL, Liao TS, Weng JH, Chen MN, Huang MY, et al. Photosynthesis in response to salinity and submergence in two Rhizophoraceae mangroves adapted to different tidal elevations. Tree Physiol. 2022;42:1016–28.
doi: 10.1093/treephys/tpab167
pubmed: 34918132
Natarajan P, Murugesan AK, Govindan G, Gopalakrishnan A, Kumar R, Duraisamy P, et al. A reference-grade genome identifies salt-tolerance genes from the salt-secreting mangrove species Avicennia marina. Commun Biol. 2021;4:851.
doi: 10.1038/s42003-021-02384-8
pubmed: 34239036
pmcid: 8266904
Wang HM, Xiao XR, Yang MY, Gao ZL, Zang J, Fu XM, et al. Effects of salt stress on antioxidant defense system in the root of Kandelia candel. Bot Stud. 2014;55:55–7.
doi: 10.1186/s40529-014-0057-3
Xing J, Pan D, Wang L, Tan F, Chen W. Proteomic and physiological responses in mangrove kandelia candel roots under short-term high-salinity stress. Turkish J Biol. 2019;43:314–25.
doi: 10.3906/biy-1906-22
Zhou Y wu, Zhao B, Peng Y sheng, Chen G zhu. Influence of mangrove reforestation on heavy metal accumulation and speciation in intertidal sediments. Mar Pollut Bull. 2010;60:1319–24.
Mahi H El, Pérez-hormaeche J, Luca A De, Villalta I, Espartero J, Gámez-arjona F, et al. A Critical Role of Sodium Flux via the Plasma Membrane Na
Castleden IR, Aryamanesh N, Black K, Grasso SV, Millar AH. CropPAL for discovering divergence in protein subcellular location in crops to support strategies for molecular crop breeding. Plant J. 2020;104:812–27.
doi: 10.1111/tpj.14961
pubmed: 32780488
Song A, Lu J, Jiang J, Chen S, Guan Z, Fang W, et al. Isolation and characterisation of Chrysanthemum crassum SOS1, encoding a putative plasma membrane Na
doi: 10.1111/j.1438-8677.2011.00560.x
pubmed: 22404736
Donaldson L, Ludidi N, Knight MR, Gehring C, Denby K. Salt and osmotic stress cause rapid increases in Arabidopsis thaliana cGMP levels. FEBS Lett. 2004;569:317–20.
doi: 10.1016/j.febslet.2004.06.016
pubmed: 15225654
Liao J, Xu Y, Zhang Z, Zeng L, Qiao Y, Guo Z, et al. Effect of Cu addition on sedimentary bacterial community structure and heavy metal resistance gene abundance in mangrove wetlands. Front Mar Sci. 2023;10 April:1157905.
Sun MM, Liu X, Huang XJ, Yang JJ, Qin PT, Zhou H, Jiang MG, Liao HZ. Genome-Wide Identification and Expression Analysis of the NAC Gene Family in Kandelia Obovata, a Typical Mangrove Plant. Curr Issues Mol Biol. 2022;44:5622–37.
doi: 10.3390/cimb44110381
pubmed: 36421665
pmcid: 9689236