Genome-wide identification, structural characterization and gene expression analysis of the WRKY transcription factor family in pea (Pisum sativum L.)

BMC Plant Biology, Journal Year: 2024, Volume and Issue: 24(1)

Published: Feb. 16, 2024

Abstract Background The WRKY gene family is one of the largest families transcription factors in higher plants, and play important roles plant growth development as well response to abiotic stresses; however, pea has not been systematically reported. Results In this study, 89 genes were identified named according random distribution PsWRKY on seven chromosomes. was found have nine pairs tandem duplicates 19 segment duplicates. Phylogenetic analyses 60 Arabidopsis proteins performed determine their homology, PsWRKYs classified into subfamilies. Analysis physicochemical properties, motif composition, structure WRKYs revealed significant differences properties within family; protein-conserved motifs highly conserved among To further investigate evolutionary relationships family, we constructed comparative syntenic maps with representative monocotyledonous dicotyledonous plants that it most recently homologous families. Cis-acting element analysis can respond hormones, such abscisic acid (ABA), indole-3-acetic (IAA), gibberellin (GA), methyl jasmonate (MeJA), salicylic (SA). Further expression 14 from different subfamilies tissues fruit developmental stages, under five hormone treatments, patterns suggesting may physiological functions hormones. Conclusions for first time investigated evolution, patterns, providing a theoretical basis future studies functional characterization during development.

Language: Английский

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Genome-wide identification, evolution and expression pattern analysis of the GATA gene family in Sorghum bicolor

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

Published: Aug. 4, 2023

The GATA family of transcription factors is zinc finger DNA binding proteins involved in a variety biological processes, including plant growth and development response to biotic/abiotic stresses, thus play an essential role environmental changes. However, the gene Sorghum (SbGATA) has not been systematically analyzed reported yet. Herein, we used bioinformatics methods quantitative Real-Time Polymerase Chain Reaction (qRT-PCR) explore evolution function 33 SbGATA genes identified. These genes, distributed on 10 chromosomes, are classified into four subfamilies (I-IV) containing one pair tandem duplications nine pairs segment duplications, which more closely related monocot Brachypodium distachyon Oryza sativa genes. physicochemical properties SbGATAs significantly different among subfamilies, while protein structure conserved motifs highly subfamilies. In addition, tissue-specific during development, allows for functional diversity stress hormones. Collectively, our study lays theoretical foundation in-depth analysis functions, mechanisms evolutionary relationships development.

Language: Английский

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Genome-wide identification of GATA transcription factor family and the effect of different light quality on the accumulation of terpenoid indole alkaloids in Uncaria rhynchophylla

Plant Molecular Biology, Journal Year: 2024, Volume and Issue: 114(1)

Published: Feb. 1, 2024

Language: Английский

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Identification and analysis of the GATA gene family in onion (Allium cepa L.) in response to chromium and salt stress

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: Feb. 27, 2025

The GATA transcription factors play multifaceted roles in modulating vital physiological processes plants. However, the factor family onion (Allium cepa L.) has been explored to a limited extent. In present study, genome-wide survey of and subsequent characterization carried out genome. total, 24 A. GATAs (AcGATA1-AcGATA24) have identified Chromosomal mapping revealed that all genes could be mapped onto different chromosomes or scaffolds. gene duplication, synteny, collinearity analysis AcGATAs suggested their divergence, expansion, selection onions. Phylogenetic divided them into five groups along with other plant GATAs. Gene ontology cis-regulatory element results regulate crucial processes, such as growth development, phytohormone signalling, stress response. tissue-specific expression study indicated expressed multiple tissues. under subjected chromium salt get induced response applied stresses. Lastly, protein interaction network predicted some key interacting partners can characterized Functional predictions processes. involvement abiotic Overall, provides newer insights possible

Language: Английский

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Genome-wide identification and gene expression pattern analysis of the carotenoid cleavage oxygenase gene family in Fagopyrum tataricum

BMC Plant Biology, Journal Year: 2025, Volume and Issue: 25(1)

Published: April 12, 2025

Carotenoid cleavage oxygenases (CCOs) convert carotenoids into volatile aromatic compounds implicated in plant growth and development. They affect the synthesis of hormones, including abscisic acid (ABA) strigolactone (SL). However, CCO family Tartary buckwheat remains unelucidated. We identified FtCCO gene based on genomic data analyzed biological function genes using bioinformatics methods expression pattern fluorescence quantitative PCR. Three pairs fragment duplication were found FtCCOs, motifs highly conserved within same subfamily. are closely related to dicotyledonous Arabidopsis thaliana, which has highest number co-linear genes. The qRT-PCR showed that among tissue-specific patterns genes, FtCCOs was higher leaves. In grain development, relative most at later stage. many stems under cold, dark, NaCl, abiotic stress conditions. hormone regulator treatments, nine relatively low stems. Notably, FtNCED4 extremely high induction, indicating may be involved development buckwheat. this study, genome-wide level, different tissues or treatments determined. This study provides a theoretical basis for further analysis functions theFtCCO family, is great significance mining resistance trait improvement.

Language: Английский

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Molecular mechanisms underlying abiotic stress responses in buckwheat

Plant Science, Journal Year: 2025, Volume and Issue: unknown, P. 112526 - 112526

Published: April 1, 2025

Plants have endured evolutionary changes for hundreds of years under the impact increasing abiotic and biotic stress due to human activities over past centuries. Scientists been working understand molecular mechanisms plant responses severe environmental stress, as plants complex arrangements respond adapt including drought, cold, heat stress. Buckwheat (Fagopyrum spp.) is a resilient pseudocereal known its nutritional value adaptability various conditions, making it an essential crop in sustainable agriculture. It particularly noted gluten-free nature high-quality protein content, which benefit those with gluten sensitivities. However, recent studies revealed that buckwheat cultivation faces significant challenges from stressors such salinity, temperature extremes, heavy metal toxicity, can adversely affect growth yield. We acknowledged key genes factors regulating tolerance response stresses. compiled new data about diverse by different Fagopyrum species manage encompassing physiological, biochemical, adaptations. As global food production demands rise, effective management strategies these are increasingly critical optimising ensuring security changing climate.

Language: Английский

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Genome-wide identification of GATA transcription factors in tetraploid potato and expression analysis in differently colored potato flesh

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: March 21, 2024

The GATA gene family belongs to a kind of transcriptional regulatory protein featuring zinc finger motif, which is essential for plant growth and development. However, the identification in tetraploid potato still not performed. In present research, total 88

Language: Английский

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Integrative ATAC-seq and RNA-seq Analysis of the Longissimus Dorsi Muscle of Gannan Yak and Jeryak

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(11), P. 6029 - 6029

Published: May 30, 2024

Jeryak is the F1 generation of cross between Gannan yak and Jersey cattle, which has advantages fast growth high adaptability. The development skeletal muscle closely linked to meat production quality meat. However, molecular regulatory mechanisms differences analyzed from perspective chromatin opening have not been reported. In this study, ATAC-seq was used analyze difference openness in longissimus Jeryak. It found that accessibility more enriched compared yak, especially range transcription start site (TSS) ± 2 kb. GO KEGG enrichment analysis indicate differential peak-associated genes are involved negative regulation adaptation Hippo signaling pathway. Integration RNA-seq revealed overlapping were significantly during cell differentiation organ morphogenesis. At same time, we screened FOXO1, ZBED6, CRY2 CFL2 for possible involvement development, constructed a factors network map, some (TFs), including YY1, KLF4, KLF5 Bach1, development. Overall, gained comprehensive understanding key impact various breeds providing new insights future

Language: Английский

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Genome-wide identification of the GATA gene family in melon (Cucumis melo) and analysis of their expression characteristics under biotic and abiotic stresses

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: Sept. 13, 2024

GATA transcription factors are an important class of in plants, known for their roles tissue development, signal transduction, and responses to biotic abiotic stresses. To date, there have been no reports on the

Language: Английский

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Genome-Wide Identification and Expression Analysis of GATA Gene Family under Different Nitrogen Levels in Arachis hypogaea L.

Agronomy, Journal Year: 2023, Volume and Issue: 13(1), P. 215 - 215

Published: Jan. 10, 2023

Nitrogen, one of the essential elements, is a key determinant for improving peanut growth and yield. GATA zinc finger transcription factors have been found to be involved in regulation nitrogen metabolism. However, systematic characterization gene family patterns their expression under different levels remains elusive. In this study, total 45 genes distributed among 17 chromosomes were identified genome classified into three subfamilies I, II III with 26, 13 6 members, respectively, whose physicochemical characteristics, structures conserved motifs also analyzed. Furthermore, optimal level fertilizer on cultivar Yuhua 23 was determined by pod yield value cost ratio from 2020 2022, results revealed that 150 kg hm−2 best cultivation because its highest relatively higher VCR more than four. addition, detected real-time quantitative PCR several significantly changed hm−2. Overall, above would helpful further understanding biological functions cultivated peanut.

Language: Английский

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