Genomic exploration and functional insights into the diversification of the Snf2 gene family in subgenomes of Triticum aestivum DOI Creative Commons
Muhammad Fahad,

Chuanjia Liu,

Yuxin Shen

et al.

Crop Design, Journal Year: 2023, Volume and Issue: 3(1), P. 100050 - 100050

Published: Dec. 14, 2023

Sucrose nonfermenting 2 (Snf2) family proteins function as the ATP-dependent catalytic engines of chromatin remodeling complexes, which harness ATP hydrolysis energy to alter structure and nucleosome positioning, enabling regulatory factor access DNA. Plant genomes contain numerous Snf2 proteins, several have been demonstrated act key developmental regulators at different stages in model plants like Arabidopsis rice. Despite their vital roles, genes Triticum aestivum remain largely uncharacterized. Here, we report identification 112 wheat that were unevenly distributed across 21 chromosomes, with 40 on A subgenome, 33 B 39 D phylogenetically classified these into 18 subfamilies related 6 groups Arabidopsis. Evolutionary analysis revealed purifying selection has driven evolution genes, acting primary selective force shaping gene wheat, while segmental duplications served main mechanism expanding family. All identified contained least one Helicase_C SNF2_N domain among 10 conserved domains, structures consisted 3–38 exons. Tissue-specific expression uncovered distinct patterns members, including some enhanced reproductive tissue expression, under various abiotic biotic stresses differential regulation specific members response conditions. Overall, systematic analyses identification, evolutionary relationships, profiling provide valuable insights establishing a genomic framework elucidate functional roles growth, development, stress responses.

Language: Английский

Genome-wide identification and expression analysis of the WNK kinase gene family in soybean DOI
Bohong Su,

Tianli Ge,

Yuhang Zhang

et al.

Molecular Breeding, Journal Year: 2024, Volume and Issue: 44(2)

Published: Feb. 1, 2024

Language: Английский

Citations

4
Identification and Expression Analysis of the Soybean Serine Acetyltransferase (SAT) Gene Family Under Salt Stress DOI Open Access

Caiyun Fan,

Hui Zou, Miao Zhang

et al.

International Journal of Molecular Sciences, Journal Year: 2025, Volume and Issue: 26(5), P. 1882 - 1882

Published: Feb. 22, 2025

Serine acetyltransferase (SAT) is a critical enzyme in the sulfur-assimilation pathway of cysteine, playing an essential role numerous physiological functions plants, particularly their response to environmental stresses. However, structural characteristics soybean SAT gene family remain poorly understood. Members were identified using Hidden Markov Model approach. Bioinformatics tools, such as ExPASy, PlantCARE, MEME, and TBtools-II, employed examine physicochemical properties, cis-regulatory elements, conserved motifs, structures, chromosomal positions GmSAT genes. RT-qPCR was conducted evaluate expression profiles genes under NaCl-induced stress, identifying likely involved salt-stress response. A total ten genome grouped into three subfamilies. Genes within each subfamily shared notable similarities motifs. Analysis elements revealed that promoters these contain several linked plant growth stress-related responses. Expression patterns varied across different tissues, with GmSAT10 showing higher roots, while GmSAT1 GmSAT2 had lower same tissue. Following NaCl treatment, levels seven significantly increased indicating potential involvement plant's adaptation salt stress. appear play crucial roles soybean's offering insights could aid development salt-tolerant varieties.

Language: Английский

Citations

0
Epigenetic control of plant senescence and cell death and its application in crop improvement DOI Creative Commons
Yu Zhang, Dongmei Huang, Ying Miao

et al.

Frontiers in Plant Science, Journal Year: 2023, Volume and Issue: 14

Published: Oct. 30, 2023

Plant senescence is the last stage of plant development and a type programmed cell death, occurring at predictable time cell. It involves functional conversion from nutrient assimilation to remobilization, which substantially impacts architecture biomass, crop quality, horticultural ornamental traits. In past two decades, DNA damage was believed be main reason for senescence. Increasing evidence suggests that alteration epigenetic information contributing factor in organisms. this review, we summarize current research progresses epitranscriptional mechanism involved plant, regulatory level methylation, histone methylation acetylation, chromatin remodeling, non-coding RNAs RNA methylation. Furthermore, discuss their molecular genetic manipulation potential application agriculture improvement. Finally point out prospects future topics.

Language: Английский

Citations

7
Comprehensive genome-wide identification of Snf2 gene family and their expression profile under salt stress in six Brassica species of U’s triangle model DOI
Qian Fang,

Dan Zuo,

Yujun Xue

et al.

Planta, Journal Year: 2024, Volume and Issue: 260(2)

Published: July 10, 2024

Language: Английский

Citations

1
Insights into the Early Steps of the Symbiotic Interaction between Soybean (Glycine max) and Sinorhizobium fredii Symbiosis Using Transcriptome, Small RNA, and Degradome Sequencing DOI Creative Commons
Hejia Ni,

Xiuming Hou,

Siyi Tian

et al.

Journal of Agricultural and Food Chemistry, Journal Year: 2024, Volume and Issue: 72(30), P. 17084 - 17098

Published: July 16, 2024

Symbiotic nitrogen fixation carried out by the soybean–rhizobia symbiosis increases soybean yield and reduces amount of fertilizer that has been applied. MicroRNAs (miRNAs) are crucial in plant growth development, prompting an investigation into their role symbiotic interaction with partner rhizobia. Through integrated small RNA, transcriptome, degradome sequencing analysis, 1215 known miRNAs, 314 them conserved, 187 novel miRNAs were identified, 44 differentially expressed roots inoculated Sinorhizobium fredii HH103 a ttsI mutant. The study unveiled miRNA gma-MIR398a-p5 was downregulated presence mutation, while target gene gma-MIR398a-p5, Glyma.06G007500, associated metabolism, upregulated. results this offer insights for breeding high-efficiency nitrogen-fixing varieties, enhancing crop quality.

Language: Английский

Citations

1
Exploring the Roles of the Swi2/Snf2 Gene Family in Maize Abiotic Stress Responses DOI Open Access

Jiarui Han,

Qi Wang,

Buxuan Qian

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(17), P. 9686 - 9686

Published: Sept. 7, 2024

The maize Snf2 gene family plays a crucial role in chromatin remodeling and response to environmental stresses. In this study, we identified analyzed 35 members of the (ZmCHR1 ZmCHR35) using Ensembl Plants database. Each protein contained conserved SNF2-N Helicase-C domains. Phylogenetic analysis revealed six groups among proteins, with an uneven distribution across subfamilies. Physicochemical indicated that proteins are hydrophilic, varied amino acid lengths, isoelectric points, molecular weights, predominantly localized nucleus. Chromosomal mapping showed these genes distributed all ten chromosomes. Gene structure diverse exon–intron arrangements, while motif 20 motifs. Collinearity highlighted duplication events, suggesting purifying selection. Cis-regulatory element suggested involvement abiotic biotic stress responses. Expression tissue-specific expression patterns differential under various conditions. Specifically, qRT-PCR validation drought certain were upregulated at 12 h downregulated 24 h, revealing potential roles tolerance. These findings provide foundation for further exploration functional development

Language: Английский

Citations

0
Genome-wide identification and expression analysis of WNK kinase gene family in soybean DOI Creative Commons
Bohong Su, Yuhang Zhang, Jianhao Wang

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 23, 2023

Abstract WNK kinases are a unique class of serine/threonine protein that lack conserved catalytic lysine residue in the kinase domain. They involved various physiological processes plants, such as circadian rhythm, flowering time, and stress response. In this study, we identified 26 genes soybean, globally important crop, analyzed their phylogenetic relationships, gene structures, motifs, chromosomal distribution, cis-regulatory elements, expression patterns. We found soybean were unevenly distributed on 15 chromosomes underwent 21 segmental duplication events during evolution. also detected 14 types elements promoters genes, indicating potential involvement different signaling pathways. Moreover, observed tissue-specific salt stress-responsive by using FPKM data qRT-PCR analysis. most significantly up-regulated within 3 hours both roots leaves, except for WNK5 , which showed distinct pattern. Our findings provide valuable insights into molecular characteristics evolutionary history family lay foundation further functional analysis soybean.

Language: Английский

Citations

1
Genomic exploration and functional insights into the diversification of the Snf2 gene family in subgenomes of Triticum aestivum DOI Creative Commons
Muhammad Fahad,

Chuanjia Liu,

Yuxin Shen

et al.

Crop Design, Journal Year: 2023, Volume and Issue: 3(1), P. 100050 - 100050

Published: Dec. 14, 2023

Sucrose nonfermenting 2 (Snf2) family proteins function as the ATP-dependent catalytic engines of chromatin remodeling complexes, which harness ATP hydrolysis energy to alter structure and nucleosome positioning, enabling regulatory factor access DNA. Plant genomes contain numerous Snf2 proteins, several have been demonstrated act key developmental regulators at different stages in model plants like Arabidopsis rice. Despite their vital roles, genes Triticum aestivum remain largely uncharacterized. Here, we report identification 112 wheat that were unevenly distributed across 21 chromosomes, with 40 on A subgenome, 33 B 39 D phylogenetically classified these into 18 subfamilies related 6 groups Arabidopsis. Evolutionary analysis revealed purifying selection has driven evolution genes, acting primary selective force shaping gene wheat, while segmental duplications served main mechanism expanding family. All identified contained least one Helicase_C SNF2_N domain among 10 conserved domains, structures consisted 3–38 exons. Tissue-specific expression uncovered distinct patterns members, including some enhanced reproductive tissue expression, under various abiotic biotic stresses differential regulation specific members response conditions. Overall, systematic analyses identification, evolutionary relationships, profiling provide valuable insights establishing a genomic framework elucidate functional roles growth, development, stress responses.

Language: Английский

Citations

1