Genome-wide characterisation and expression analysis of cellulose synthase genes superfamily under various environmental stresses in<i>Cucumis sativus L</i>.

Sharif, Rahat; Liu, Peng; Wang, Dianwei; Jin, Zhuoshuai; Ullah, Uzair; Yadav, Vivek; Mujtaba, Muhammad; Chen, Peng; Li, Yuhong

doi:10.1080/01140671.2021.1926291

Cited by 15 publications

(2 citation statements)

References 73 publications

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“…Although these silenced plants exhibit lower cellulose and pectin contents, they have higher soluble sugar and proline contents [ 57 ]. Applying NaCl stress may stimulate the expression of some CESA genes in cucumbers [ 58 ]. In this study, the expression level of the Ae59G004900 gene containing the nsSNP2626294 mutant increased under salt stress during seed germination, demonstrating the function of CESA genes in regulating salt tolerance in okra.…”

Section: Discussionmentioning

confidence: 99%

Identification of Single Nucleotide Polymorphic Loci and Candidate Genes for Seed Germination Percentage in Okra under Salt and No-Salt Stresses by Genome-Wide Association Study

Xu,

Cheng,

Wang

et al. 2024

Plants

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Excessive soil salinity is a major stressor inhibiting crops’ growth, development, and yield. Seed germination is a critical stage of crop growth and development, as well as one of the most salt-sensitive stages. Salt stress has a significant inhibitory effect on seed germination. Okra is a nutritious vegetable, but its seed germination percentage (GP) is low, whether under salt stress conditions or suitable conditions. In this study, we used 180 okra accessions and conducted a genome-wide association study (GWAS) on the germination percentage using 20,133,859 single nucleotide polymorphic (SNP) markers under 0 (CK, diluted water), 70 (treatment 1, T1), and 140 mmol/L (treatment 2, T2) NaCl conditions. Using the mixed linear model (MLM) in Efficient Mixed-model Association eXpedated (EMMAX) and Genome-wide Efficient Mixed Model Association (GEMMA) software, 511 SNP loci were significantly associated during germination, of which 167 SNP loci were detected simultaneously by both programs. Among the 167 SNPs, SNP2619493 on chromosome 59 and SNP2692266 on chromosome 44 were detected simultaneously under the CK, T1, and T2 conditions, and were key SNP loci regulating the GP of okra seeds. Linkage disequilibrium block analysis revealed that nsSNP2626294 (C/T) in Ae59G004900 was near SNP2619493, and the amino acid changes caused by nsSNP2626294 led to an increase in the phenotypic values in some okra accessions. There was an nsSNP2688406 (A/G) in Ae44G005470 near SNP2692266, and the amino acid change caused by nsSNP2688406 led to a decrease in phenotypic values in some okra accessions. These results indicate that Ae59G004900 and Ae44G005470 regulate the GP of okra seeds under salt and no-salt stresses. The gene expression analysis further demonstrated these results. The SNP markers and genes that were identified in this study will provide reference for further research on the GP of okra, as well as new genetic markers and candidate genes for cultivating new okra varieties with high GPs under salt and no-salt stress conditions.

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Section: Discussionmentioning

confidence: 99%

Identification of Single Nucleotide Polymorphic Loci and Candidate Genes for Seed Germination Percentage in Okra under Salt and No-Salt Stresses by Genome-Wide Association Study

Xu,

Cheng,

Wang

et al. 2024

Plants

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“…Means with standard deviations (SDs) from three biologically independent replicates were used to express the results for all assessed parameters. According to Sharif et al (2021) [ 55 ], the graphical representation was created using GraphPad Prism (version 9.4.1) from GraphPad Software, Inc. in La Jolla, CA, USA.…”

Section: Methodsmentioning

confidence: 99%

TALE gene family: identification, evolutionary and expression analysis under various exogenous hormones and waterlogging stress in Cucumis sativus L.

Ahmad,

Khan,

Saleh

et al. 2024

BMC Plant Biol

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Background Three Amino acid Loop Extension (TALE) belongs to the homeobox group of genes that are important constituents of plant systems. The TALE gene family is instrumental not only in growth and development but also plays an essential role in regulating plant response to environmental adversaries. Results In the present study, we isolated 21 CsTALE genes from the cucumber (Cucumis sativus L.) genome database. Bioinformatics tools were put in place to understand the structural and functional components of the CsTALE gene family. The evolutionary analysis dissected them into seven subclades (KNOX-I, KNOX-II, and BELL-I to BELL-V). The cis-acting elements in the promoter region of CsTALE genes disclosed that they are key regulators of hormonal and stress-related processes. Additionally, the STRING database advocated the concerting role of CsTALE proteins with other key transcription factors potent in plant developmental biology. The CsmiR319 and CsmiR167a-3p targeting the CsTALE15 and CsTALE16, respectively, further assert the importance of the CsTALE gene family posttranscriptional-related processes. Tissue-specific gene expression unfolded the fundamental involvement of CsTALE genes as they were expressed throughout the developmental stages. Under waterlogging stress, the CsTALE17 expressed significantly higher values in WL, WL-NAA, and WL-ETH but not in WL-MeJA-treated samples. Conclusions The present study reveals the evolution and functions of the CsTALE gene family in cucumber. Our work will provide a platform that will help future researchers address the issue of waterlogging stress in the Yangtze River Delta.

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Transcriptome-Wide Analysis Revealed the Influential Role of PbrMTP (Metal Tolerance Protein) in the Growth and Fruit Development of Chinese White Pear

Xu,

Ali,

et al. 2023

J Plant Growth Regul

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Genome-wide characterisation and expression analysis of cellulose synthase genes superfamily under various environmental stresses inCucumis sativus L.

Cited by 15 publications

References 73 publications

Identification of Single Nucleotide Polymorphic Loci and Candidate Genes for Seed Germination Percentage in Okra under Salt and No-Salt Stresses by Genome-Wide Association Study

Identification of Single Nucleotide Polymorphic Loci and Candidate Genes for Seed Germination Percentage in Okra under Salt and No-Salt Stresses by Genome-Wide Association Study

TALE gene family: identification, evolutionary and expression analysis under various exogenous hormones and waterlogging stress in Cucumis sativus L.

Transcriptome-Wide Analysis Revealed the Influential Role of PbrMTP (Metal Tolerance Protein) in the Growth and Fruit Development of Chinese White Pear

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