Genome-wide identification, characterization, and functional analysis of the CHX, SOS, and RLK genes in Solanum lycopersicum under salt stress

被引：0
作者：
Maghraby, Amaal [1 ]
Alzalaty, Mohamed [2 ]
机构：
[1] Cairo Univ, Fac Sci, Bot & Microbiol Dept, Cairo, Egypt
[2] Agr Res Ctr ARC, Agr Genet Engn Res Inst AGERI, Dept Plant Genet Transformat, Giza, Egypt
来源：
SCIENTIFIC REPORTS | 2025年 / 15卷 / 01期
关键词：
<italic>CHX</italic>; <italic>SOS</italic>; <italic>RLK</italic>; Genome-wide identification; Evolutionary analysis; Salt stress; RECEPTOR-LIKE KINASE; TOLERANCE; TRANSPORT; SALINITY; SEQUENCE; FAMILY; ROLES; PCR;
D O I：
10.1038/s41598-024-83221-w
中图分类号：
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号：
07 ; 0710 ; 09 ;
摘要：
The cation/proton exchanger (CHX), salt overly sensitive (SOS), and receptor-like kinase (RLK) genes play significant roles in the response to salt stress in plants. This study is the first to identify the SOS gene in Solanum lycopersicum (tomato) through genome-wide analysis under salt stress conditions. Quantitative reverse transcription PCR (qRT-PCR) results indicated that the expression levels of CHX, SOS, and RLK genes were upregulated, with fold changes of 1.83, 1.49, and 1.55, respectively, after 12 h of exposure to salt stress. Genome-wide analysis revealed 21 CHX, 5 SOS, and 86 RLK genes in S. lycopersicum. CHX genes were found on chromosomes 2, 3, 4, 5, 6, 7, 8, 9, 11, and 12 of S. lycopersicum. SOS genes were found on chromosomes 1, 4, 6, and 10. RLK genes were found on all chromosomes of S. lycopersicum. The Ka/Ks ratios indicate that the CHX, SOS, and RLK genes have been primarily influenced by purifying selection. This suggests that these genes have faced strong environmental pressures throughout their evolution. Purifying selection typically results in a decrease in genetic diversity. The estimated duplication time for CHX paralogous gene pairs ranged from approximately 26.965 to 245.413 million years ago (Mya), while the duplication time for SOS paralogous gene pairs ranged from around 116.682 to 275.631 Mya. For RLK paralogous gene pairs, the duplication time varied from approximately 27.689 to 239.376 Mya. Synteny analysis of the CHX, SOS, and RLK genes demonstrated collinear relationships with orthologous genes in Arabidopsis thaliana, but no collinearity orthologous relationships in Oryza sativa (rice). Furthermore, the analysis revealed that there were 6 orthologous SlCHX genes, 2 orthologous SlSOS genes, and 44 orthologous SlRLK genes paired with those in A. thaliana. The results of the present study may help to elucidate the role of the CHX, SOS, and RLK genes in salt stress in S. lycopersicum.
引用
收藏
页数：15
相关论文
共 57 条
  • [1] Effect of Salinity Stress on Growth and MetabolomicProfiling of Cucumis sativus and Solanum lycopersicum
    Abdel-Farid, Ibrahim Bayoumi
    Marghany, Marwa Radawy
    Rowezek, Mohamed Mahmoud
    Sheded, Mohamed Gabr
    [J]. PLANTS-BASEL, 2020, 9 (11): : 1 - 19
  • [2] Analysis of Salinity Tolerance in Tomato Introgression Lines Based on Morpho-Physiological and Molecular Traits
    Ali, Ahmed Abdelrahim Mohamed
    Romdhane, Walid Ben
    Tarroum, Mohamed
    Al-Dakhil, Mohammed
    Al-Doss, Abdullah
    Alsadon, Abdullah A.
    Hassairi, Afif
    [J]. PLANTS-BASEL, 2021, 10 (12):
  • [3] [Anonymous], 2023, US
  • [4] NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction
    Ba, Alex N. Nguyen
    Pogoutse, Anastassia
    Provart, Nicholas
    Moses, Alan M.
    [J]. BMC BIOINFORMATICS, 2009, 10
  • [5] The MEME Suite
    Bailey, Timothy L.
    Johnson, James
    Grant, Charles E.
    Noble, William S.
    [J]. NUCLEIC ACIDS RESEARCH, 2015, 43 (W1) : W39 - W49
  • [6] SOS2 promotes salt tolerance in part by interacting with the vacuolar H+-ATPase and upregulating its transport activity
    Batelli, Giorgia
    Verslues, Paul E.
    Agius, Fernanda
    Qiu, Quansheng
    Fujii, Hiroaki
    Pan, Songqin
    Schumaker, Karen S.
    Grillo, Stefania
    Zhu, Jian-Kang
    [J]. MOLECULAR AND CELLULAR BIOLOGY, 2007, 27 (22) : 7781 - 7790
  • [7] Sequence and structure-based prediction of eukaryotic protein phosphorylation sites
    Blom, N
    Gammeltoft, S
    Brunak, S
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 1999, 294 (05) : 1351 - 1362
  • [8] eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale
    Cantalapiedra, Carlos P.
    Hernandez-Plaza, Ana
    Letunic, Ivica
    Bork, Peer
    Huerta-Cepas, Jaime
    [J]. MOLECULAR BIOLOGY AND EVOLUTION, 2021, 38 (12) : 5825 - 5829
  • [9] Plant-Specific Cation/H+ Exchanger 17 and Its Homologs Are Endomembrane K+ Transporters with Roles in Protein Sorting
    Chanroj, Salil
    Lu, Yongxian
    Padmanaban, Senthilkumar
    Nanatani, Kei
    Uozumi, Nobuyuki
    Rao, Rajini
    Sze, Heven
    [J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 2011, 286 (39) : 33931 - 33941
  • [10] TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data
    Chen, Chengjie
    Chen, Hao
    Zhang, Yi
    Thomas, Hannah R.
    Frank, Margaret H.
    He, Yehua
    Xia, Rui
    [J]. MOLECULAR PLANT, 2020, 13 (08) : 1194 - 1202
123456