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

Li, Xiujie; Deng, Xiaoxu; Han, Soohee; Zhang, Xinyou; Dai, Tingbo

doi:10.3390/agronomy13010215

Cited by 5 publications

(7 citation statements)

References 51 publications

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“…Here, we identified 32 GATA TFs in potato grouped into four classes. While previous findings suggested variations in the number of GATA groups between dicots and monocots, our results did not align with this observation (Li, Deng, et al, 2023 ; Reyes et al, 2004 ). Several reports indicated that GATA in different plants, especially dicots, is likely to have groups between four and seven (Reyes et al, 2004 ).…”

Section: Discussioncontrasting

confidence: 99%

Genome‐wide characterization and expression analysis of GATA transcription factors under combination of light wavelengths and drought stress in potato

Aksoy,

Yavuz,

Yagiz

et al. 2024

Plant Direct

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GATA is one of the prominent transcription factor families conserved among many organisms in eukaryotes and has different biological roles in many pathways, particularly in light regulation in plants. Although GATA transcription factors (TFs) have been identified in different crop species, their roles in abiotic stress tolerance have not been studied in potato. In this study, we identified 32 GATA TFs in potato (Solanum tuberosum) by in silico analyses, and expression levels of selected six genes were investigated in drought‐tolerant (Sante) and sensitive (Agria) cultivars under light, drought, and combined (light + drought) stress conditions. According to the phylogenetic results, StGATA TFs were divided into four main groups (I, II, III, and IV) and different sub‐groups in I and II (eight and five, respectively). StGATA genes were uniformly localized to each chromosome with a conserved exon/intron structure. The presence of cis‐elements within the StGATA family further supported the possible involvement in abiotic stress tolerance and light response, tissue‐specific expression, and hormonal regulation. Additional PPI investigations showed that these networks, especially for Groups I, II, and IV, play a significant role in response to light and drought stress. Six StGATAs were chosen from these groups for expressional profiling, and their expression in both Sante and Agria was mainly downregulated under purple and red lights, drought, and combined stress (blue + drought and purple + drought). The interactomes of selected StGATAs, StGATA3, StGATA24, and StGATA29 were analyzed, and the accessions with GATA motifs were checked for expression. The results showed that the target proteins, cyclin‐P3‐1, SPX domain‐containing protein 1, mitochondrial calcium uniporter protein 2, mitogen‐activated protein kinase kinase kinase YODA, and splicing factor 3 B subunit 4‐like, mainly play a role in phytochrome‐mediated stomatal patterning, development, and activity. Understanding the interactions between drought stress and the light response mechanisms in potato plants is essential. It will eventually be possible to enhance potato resilience to climate change by manipulating the TFs that play a role in these pathways.

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Section: Discussioncontrasting

confidence: 99%

Genome‐wide characterization and expression analysis of GATA transcription factors under combination of light wavelengths and drought stress in potato

Aksoy,

Yavuz,

Yagiz

et al. 2024

Plant Direct

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“…Phylogenetic analysis indicated that the GATA proteins from P. ginseng, A. thaliana, and O. sativa were classified into A, B, C, and D groups. This classification is consistent with the grouping of GATA proteins in Setaria italica [64], A. hypogaea L. [66], Populus alba [69], Sorghum bicolor [70], Zea mays L. [71], and Fagopyrum tataricum [72]. Specifically, subgroup A had the highest number of GATAs, and members within the same subgroups exhibited higher sequence similarity.…”

Section: Discussionsupporting

confidence: 83%

“…By increasing or decreasing the expression of related enzyme genes, these TFs participate in multiple biological processes, including environmental stress responses, plant development and growth, and saponin synthesis [59][60][61][62]. The GATA family has been extensively characterized in several plant species, encompassing A. thaliana [8], O. sativa [8], Zea mays L. [63], Setaria italica [64], Triticum aestivum L. [65], and Arachis hypogaea L. [66]. However, a genome-wide analysis of the GATA family genes in P. ginseng has not yet been conducted previously.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Prediction and Expression Characterization of the GATA Gene Family under Nitrogen and Phosphate Deficiency in Panax ginseng

Liang,

Sun,

Shao

et al. 2024

Horticulturae

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GATA transcription factors are widespread in plants, exerting crucial functions in multiple processes such as flower development, photoperiod regulation, and light signal transduction. The GATA gene family has a key role in the regulation of medicinal plant adaptation to environmental stress. However, since the publication of the Ginseng (Panax ginseng C.A. Meyer) genome-wide data, there has never been an analysis of the whole GATA gene family. To understand the function of the GATA gene family more broadly, the GATA gene family members in P. ginseng were predicted using an in silico bioinformatics approach. A comprehensive and systematic analysis encompassing chromosome scaffold, expression pattern, gene structure, and phylogeny was conducted. The results showed that a total of 52 GATA gene family members were recognized in P. ginseng, distributed across 51 scaffolds. Each member encoded a diverse number of amino acid residues, extending from 138 to 1064. Moreover, the expression levels of PgGATA genes were significantly altered by nitrogen (N) and phosphorus (P) stresses. The expression levels of PgGATA6, PgGATA11, PgGATA27, PgGATA32, PgGATA37, PgGATA39, PgGATA40, and PgGATA50 exhibited significant elevation under N deficiency, whereas PgGATA15, PgGATA18, PgGATA34, PgGATA38, PgGATA41, and PgGATA44 genes showed substantial upregulation under P deficiency. In addition, PgGATA3, PgGATA4, PgGATA14, PgGATA19, and PgGATA28 were substantially upregulated under both N and P deficiency. This research establishes a theoretical foundation for the thorough examination of the functions of the PgGATA gene family and its regulation by N and P fertilization during P. ginseng cultivation.

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“…GATA transcription factors have been demonstrated to play an important role in plant salt tolerance [ 21 , 46 ], temperature stress [ 47 ], chlorophyll production [ 26 ], and hormone treatment [ 48 ]. Because of the importance of the GATA gene family in abiotic stress and plant growth and development, it has been studied in plants such as peanuts [ 49 ] and cucumbers [ 24 ], but genome-wide discovery of the PbGATA family gene has not been pursued. As a result, genome-wide characterization and expression investigation of the GATA gene family will aid in our understanding of the GATA gene’s function and involvement in P. bournei .…”

Section: Discussionmentioning

confidence: 99%

“…Variations in conserved motif and gene structure across GATA protein family members are key factors for functional variability [ 49 , 54 ]. A PbGATA motif study revealed that ZnF_GATA, a critical domain for identifying PbGATA genes, was strongly conserved in virtually all PbGATA genes ( Figure 4 ).…”

Section: Discussionmentioning

confidence: 99%

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

Yin

Liao

et al. 2023

IJMS

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GATA transcription factors are crucial proteins in regulating transcription and are characterized by a type-IV zinc finger DNA-binding domain. They play a significant role in the growth and development of plants. While the GATA family gene has been identified in several plant species, it has not yet been reported in Phoebe bournei. In this study, 22 GATA family genes were identified from the P. bournei genome, and their physicochemical properties, chromosomal distribution, subcellular localization, phylogenetic tree, conserved motif, gene structure, cis-regulatory elements in promoters, and expression in plant tissues were analyzed. Phylogenetic analysis showed that the PbGATAs were clearly divided into four subfamilies. They are unequally distributed across 11 out of 12 chromosomes, except chromosome 9. Promoter cis-elements are mostly involved in environmental stress and hormonal regulation. Further studies showed that PbGATA11 was localized to chloroplasts and expressed in five tissues, including the root bark, root xylem, stem bark, stem xylem, and leaf, which means that PbGATA11 may have a potential role in the regulation of chlorophyll synthesis. Finally, the expression profiles of four representative genes, PbGATA5, PbGATA12, PbGATA16, and PbGATA22, under drought, salinity, and temperature stress, were detected by qRT-PCR. The results showed that PbGATA5, PbGATA22, and PbGATA16 were significantly expressed under drought stress. PbGATA12 and PbGATA22 were significantly expressed after 8 h of low-temperature stress at 10 °C. This study concludes that the growth and development of the PbGATA family gene in P. bournei in coping with adversity stress are crucial. This study provides new ideas for studying the evolution of GATAs, provides useful information for future functional analysis of PbGATA genes, and helps better understand the abiotic stress response of P. bournei.

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

Cited by 5 publications

References 51 publications

Genome‐wide characterization and expression analysis of GATA transcription factors under combination of light wavelengths and drought stress in potato

Genome‐wide characterization and expression analysis of GATA transcription factors under combination of light wavelengths and drought stress in potato

Genome-Wide Prediction and Expression Characterization of the GATA Gene Family under Nitrogen and Phosphate Deficiency in Panax ginseng

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

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