The members of zinc finger-homeodomain (ZF-HD) transcription factors are associated with abiotic stresses in soybean: insights from genomics and expression analysis

BMC Plant Biology, Год журнала: 2025, Номер 25(1)

Опубликована: Янв. 14, 2025

Zinc finger homeodomain (ZF-HD) belongs to the plant-specific transcription factor (TF) family and is widely involved in plant growth, development stress responses. Despite their importance, a comprehensive identification analysis of ZF-HD genes soybean (Glycine max) genome possible roles under abiotic remain unexplored. In this study, 51 were identified that unevenly distributed on 17 chromosomes. All GmZF-HD contained conserved ZF-HD_dimer domain had diverse physicochemical features. Furthermore, gene structures exhibited 3 10 motifs, most them showed intronless structures. Phylogenetic categorized into eight major groups with highest closeness dicots including Brassica rapa Malus domestica. The cis-element recognized growth (10%), phytohormones (31%) stress-responsive (59%) elements. Synteny 73 segmental 1 tandem duplicated underwent purifying selection. collinearity revealed higher homology dicot species, indicating common ancestors close evolutionary relationships. A total 94 gma-miRNAs from 41 miRNA families identified, targeting 40 genes, GmZF-HD6 being targeted by 7 miRNAs, gma-miR4993 emerging as dominant family. Different TFs ERF, LBD, BBR-BPC MYB, etc., predicted all upstream regions visualized network. Expression profiling through RNA-Seq expressions different tissues seeds, roots, shoots leaves conditions. Further, qRT-PCR demonstrated tested significantly induced leaves, mainly GmZF-HD5/6/13/39 GmZF-HD45 upregulated (2.5 8.8 folds) treatments compared control, highlighting potential response stresses soybean. Overall, study reveals insights soybeans provides valuable contribution towards functional studies for improvement

Язык: Английский

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Dysregulation in the Auxin and Cytokinin Signaling Pathways Intervenes in the Abnormal Development of Avocado (Persea americana Mill.) Somatic Embryos

Journal of Plant Growth Regulation, Год журнала: 2025, Номер unknown

Опубликована: Март 20, 2025

Язык: Английский

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Transcriptome Analysis Revealed the Regulatory Mechanism of DIMBOA Affecting Early Somatic Embryogenesis in Dimocarpus longan Lour.

Plants, Год журнала: 2025, Номер 14(3), С. 442 - 442

Опубликована: Фев. 3, 2025

Dimocarpus longan Lour. is an evergreen tree of the genus Longan in Sapindaceae family, native to tropical and subtropical regions. embryonic development closely related fruit set quality. An in-depth study mechanism could therefore contribute industry. DIMBOA principal compound representing benzoxazinoids (BXs), linked auxin biosynthesis signal transduction. Auxin one crucial hormones for inducing somatic embryogenesis (SE) plants. Previous research has shown that promotes morphogenesis early longan, but specific regulatory not yet been clarified. To elucidate molecular by which affects we chose embryogenic cultures grown under 0 mg/L as control group (the check, CK), 0.1 treatment (D) be analyzed transcriptomic sequencing. A total 478 differentially expressed genes (DEGs) are detected check vs. D, 193 upregulated 285 downregulated. These DEGs significantly enriched biosynthetic metabolic functions various substances such vitamin B6 (VB6) biosynthesis, phenylpropanoid pathways, carbohydrate metabolism. SE processes via TFs, including MYB, ZF, bHLH, LBD, NAC, WRKY, etc. After treatment, expression most key IAA synthesis was downregulated, VB6 content reduced, H2O2 increased. Therefore, it suggested directly or indirectly through pathway, thereby regulating endogenous level modulate longan.

Язык: Английский

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Unraveling the Mechanistic Basis for Control of Seed Longevity

Plants, Год журнала: 2025, Номер 14(5), С. 805 - 805

Опубликована: Март 5, 2025

Seed longevity, which holds paramount importance for agriculture and biodiversity conservation, continues to represent a formidable frontier in plant biology research. While advances have been made identifying regulatory elements, the precise mechanisms behind seed lifespan determination remain intricate context-specific. This comprehensive review compiles extensive findings on longevity across species, focusing genetic environmental underpinnings. Inter-species differences are tied traits, with numerous Longevity-Associated Genes (SLAGs) uncovered. These SLAGs encompass transcription factors enzymes involved stress responses, repair pathways, hormone signaling. Environmental factors, particularly developmental conditions, significantly modulate longevity. Moreover, this deliberates prospects of genetically engineering varieties augmented by manipulation crucial components, exemplifying promising trajectory science its practical applications within preservation contexts. Collectively, our manuscript offers insights improving performance resilience agriculture’s evolving landscape.

Язык: Английский

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Genome-Wide Identification of GLK Family Genes in Phoebe bournei and Their Transcriptional Analysis Under Abiotic Stresses

International Journal of Molecular Sciences, Год журнала: 2025, Номер 26(6), С. 2387 - 2387

Опубликована: Март 7, 2025

GOLDEN2-LIKE (GLK) transcription factors are crucial regulators of chloroplast development and stress responses in plants. In this study, we investigated the GLK gene family Phoebe bournei (Hemsl.) Yen C. Yang, a near-threatened species important for forestry wood utilization China. We identified 61 PbGLK genes which were classified into seven subfamilies. Our analyses their phylogenetic relationships, structures, chromosomal distribution revealed diverse characteristics. Expression profiling under different tissues abiotic stresses showed that PbGLK25 PbGLK30 particularly responsive to drought, heat, light, shade stresses, with significant upregulation. These findings highlight potential role adaptation provide insights genetic improvement P. bournei.

Язык: Английский

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Transcriptional and post-transcriptional attribution in contrasting rice varieties under nano-structured Zn imposition: A comprehensive study of delineation of Osbzip gene family and OsmiRNAs with their enactment in regulating rice growth

Research Square (Research Square), Год журнала: 2025, Номер unknown

Опубликована: Март 26, 2025

Transcription factors (TFs) play crucial role in molecular physiology by regulating gene expressions with cooperation of microRNAs (miRNAs) for proper execution cellular and biological processes to achieve optimum plant growth under stage specific demands respect diverse situations. Therefore, the present study was adopted bZIP TF rice (Oryza sativa) while 30 Osbzip paralogs were identified into 7 subgroups on basis Arabidopsis thaliana. The distribution uneven each group exhibited related motif arrangements. location Osbzip genes discrete chromosomes segmental duplication more profound, ka/Ks ratio below 1 indicating purifying selection. inter intra level collinearity family established conservatory evolutionary insights. nature physicochemical properties, protein-protein interactions, Cis-acting elements tandem repetitions explored Osbzips. Moreover, 167 targeting OsmiRNAs several classes evidence cleavage type inhibition against genes. expression analysis performed Osbzips 41 targeted between contrasting (CSR-30 PB-1) varieties nano structured Zn imposition. Hence, differential, comparable constructive observed which not only synchronized action but also demonstrated uncoordinated interaction development nano-Zn effect. Thus, this provides TFs miRNAs mediated characterization identification potent determinants genetic improvement rice.

Язык: Английский

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Comparative transcriptome and co-expression network reveals key genes associated with mesocotyl elongation in foxtail millet (Setaria italica)

Environmental and Experimental Botany, Год журнала: 2025, Номер unknown, С. 106144 - 106144

Опубликована: Апрель 1, 2025

Язык: Английский

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Adventitious embryonic causal gene FhRWP regulates multiple developmental phenotypes in citrus reproduction

The Plant Journal, Год журнала: 2024, Номер 119(3), С. 1494 - 1507

Опубликована: Июнь 16, 2024

SUMMARY Citrus is a model plant for studying adventitious embryos, form of asexual reproduction controlled by single dominant gene, RWP . This gene has been identified as the causal nucellar embryogenesis, but its function not yet fully understood. In this study, we used fast‐growing Fortunella hindsii system to explore chromatin accessibility during embryony initiation, emphasizing elevated in polyembryonic (PO) genotypes compared monoembryonic ones (MO). Notably, higher level accessible was observed one allele promoter region FhRWP , consistent with increased expression carrying structural variant. By independently performing RNAi and editing experiments on PO genotypes, found downregulation could reduce number while knockout resulted abnormal axillary bud development. overexpression experiments, having unique capability inducing embryogenic callus formation MO stem segments, possibly through regulation WUS‐CLV signaling network ABA cytokinin pathway, marking inaugural demonstration FhRWP's potential reignite somatic cells' fate. study reveals pleiotropic citrus constructs regulatory embryo formation, providing new tool bioengineering applications regeneration.

Язык: Английский

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A simple and efficient non-tissue culture method for genetic transformation of grape immature zygotic embryos via VvBBM overexpression

Scientia Horticulturae, Год журнала: 2024, Номер 337, С. 113581 - 113581

Опубликована: Авг. 27, 2024

Язык: Английский

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Comprehensive analysis of computational approaches in plant transcription factors binding regions discovery

Heliyon, Год журнала: 2024, Номер 10(20), С. e39140 - e39140

Опубликована: Окт. 1, 2024

ABSTRACT

Transcription factors (TFs) are regulatory proteins which bind to a specific DNA region known as the transcription factor binding regions (TFBRs) regulate rate of process. The identification TFBRs has been made possible by number experimental and computational techniques established during past few years. process TFBR involves peak in data, followed motif characteristics. Using same data attempts have raise models identify such could save time resources spent for experiments. These approaches depend lot on what way they learn how. existing skewed heavily around human discovery, while plants drastically different genomic setup regulation these grossly ignored. Here, we provide comprehensive study current state matters plant TF discovery algorithms. While doing so, encountered several software tools' issues rendering tools not usable researches. We fixed them also provided corrected scripts tools. expect this serve guide better understanding care be taken applying them, especially cross-species applications. available at https://github.com/SCBB-LAB/Comparative-analysis-of-plant-TFBS-software.

Язык: Английский

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