In silico cloning and characterization of the TGA (TGACG MOTIF-BINDING FACTOR) transcription factors subfamily in Carica papaya

Espín, Fabio Marcelo Idrovo; Peraza-Echeverría, Santy; Fuentes, Gabriela RamÃ­rez; Santamaría, Jorge M.

doi:10.1016/j.plaphy.2012.02.011

Cited by 24 publications

(22 citation statements)

References 58 publications

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“…The promoter sequences (1500 bp) of 72 enzyme-coding genes in the tanshinone biosynthetic pathways were analyzed for the presence of bZIP binding sites (A-box, G-box, C-box and TGACG motifs) 24 , 25 , 26 , 27 . Importantly, the bZIP binding sites were located in the promoter regions of 46 enzyme-coding genes, including 4 functionally characterized genes ( SmHMGR2 , SmCPS1 , SmKSL1 and SmCYP76AH1 , Supplementary Information Table S5 ).…”

Section: Resultsmentioning

confidence: 99%

“…Previous studies have shown that OsTGAP1 regulates momilactone biosynthesis through the positive control of OsKSL4 expression, which apparently occurs via direct binding to a cis -element in the OsKSL4 promoter 51 . The TGACG motif is known as a cis -element for TGA TFs 27 . Because SmbZIP7 and SmbZIP20 are TGA TFs, the TGACG motif may also be their cis -element.…”

Section: Discussionmentioning

confidence: 99%

“…The basic region preferentially binds to DNA sequences with an ACGT core, particularly G-box (CACGTG), C-box (GACGTC) and A-box sequences (TACGTA) 24 , 25 , 26 . The TGACG motif is also bound by bZIP TFs 27 . Importantly, bZIP TFs have been demonstrated to participate in the transcriptional regulation of secondary metabolism 28 , 29 .…”

Section: Introductionmentioning

confidence: 99%

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Genomic survey of bZIP transcription factor genes related to tanshinone biosynthesis in Salvia miltiorrhiza

Zhang

et al. 2018

Acta Pharmaceutica Sinica B

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Tanshinones are a class of bioactive components in the traditional Chinese medicine Salvia miltiorrhiza, and their biosynthesis and regulation have been widely studied. Current studies show that basic leucine zipper (bZIP) proteins regulate plant secondary metabolism, growth and developmental processes. However, the bZIP transcription factors involved in tanshinone biosynthesis are unknown. Here, we conducted the first genome-wide survey of the bZIP gene family and analyzed the phylogeny, gene structure, additional conserved motifs and alternative splicing events in S. miltiorrhiza. A total of 70 SmbZIP transcription factors were identified and categorized into 11 subgroups based on their phylogenetic relationships with those in Arabidopsis. Moreover, seventeen SmbZIP genes underwent alternative splicing events. According to the transcriptomic data, the SmbZIP genes that were highly expressed in the Danshen root and periderm were selected. Based on the prediction of bZIP binding sites in the promoters and the co-expression analysis and co-induction patterns in response to Ag+ treatment via quantitative real-time polymerase chain reaction (qRT-PCR), we concluded that SmbZIP7 and SmbZIP20 potentially participate in the regulation of tanshinone biosynthesis. These results provide a foundation for further functional characterization of the candidate SmbZIP genes, which have the potential to increase tanshinone production.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genomic survey of bZIP transcription factor genes related to tanshinone biosynthesis in Salvia miltiorrhiza

Zhang

et al. 2018

Acta Pharmaceutica Sinica B

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“…The sequences of known UBC proteins from Arabidopsis were retrieved from the TAIR database. These sequences were used as queries to search against the soybean genome database using the BLASTP program with a threshold E-value cutoff of 1.0 × e −5 (Espín et al, 2012). Then, each candidate soybean UBC sequence used as a query against the Pfam database to confirm its membership in the UBC family (Finn et al, 2016).…”

Section: Genome-wide Analysis Of 91 Ubc-like Members In Soybean: Idenmentioning

confidence: 99%

Overexpression of GmUBC9 Gene Enhances Plant Drought Resistance and Affects Flowering Time via Histone H2B Monoubiquitination

et al. 2020

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Ubiquitylation is a form of post-translational modification of proteins that can alter localization, functionality, degradation, or transcriptional activity within a cell. E2 ubiquitin-conjugating enzyme (UBC) and E3 ubiquitin ligases are the primary determinants of substrate specificity in the context of ubiquitin conjugation. Multiubiquitination modifies target proteins for 26S proteasome degradation, while monoubiquitination controls protein activation and localization. At present, research on the monoubiquitination, especially histone monoubiquitination, has mostly focused on model plants with relatively few on crop species. In this study, we identified 91 UBC-like genes in soybean. The chromosomal localization, phylogenetic relationships, gene structures, and putative cis-acting elements were evaluated. Furthermore, the tissuespecific expression patterns of UBC Class I genes under drought stress were also investigated. Among Class I genes, GmUBC9 induction in response to drought stress was evident, and so this gene was selected for further analysis. GmUBC9 localized to the nucleus and endoplasmic reticulum. The overexpression of GmUBC9 in Arabidopsis led to enhanced tolerance for drought conditions across a range of stages of development, while overexpression in soybean hairy roots similarly led to improvements in tolerance for drought conditions, increased proline content, and reduced MDA content in soybean seedlings compared to wild type plants. HISTONE MONOUBIQUITINATION 2 (HUB2), an E3-like protein involved in histone H2B ubiquitylation (H2Bub1), was found to interact with GmUBC9 through Y2H analysis and BiFC assays in Arabidopsis and soybean. Under drought conditions, the level of H2Bub1 increased, and transcription of drought response genes was activated in GmUBC9 transgenic Arabidopsis and soybean. In addition, GmUBC9 transgenic Arabidopsis and soybean showed a late-flowering phenotype and

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“…Recently, the complete NBS-LRR family of disease resistance genes of papaya was characterized in silico [12]. We have also taken advantage of the papaya genome sequence by characterizing the structure and expression of the full set of NPR1 and TGA transcription factors in this crop [13,14]. In the case of the papaya AP2/ ERF family, 146 of these genes were predicted by Ming et al [11], however, these genes were not further characterized.…”

Section: Introductionmentioning

confidence: 99%

Identification of novel ERF transcription factor genes in papaya and analysis of their expression in different tissues and in response to the plant defense inducer benzothiadiazole (BTH)

Vallejo-Reyna

Santamaría

Rodríguez-Zapata

et al. 2015

Physiological and Molecular Plant Pathology

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In silico cloning and characterization of the TGA (TGACG MOTIF-BINDING FACTOR) transcription factors subfamily in Carica papaya

Cited by 24 publications

References 58 publications

Genomic survey of bZIP transcription factor genes related to tanshinone biosynthesis in Salvia miltiorrhiza

Genomic survey of bZIP transcription factor genes related to tanshinone biosynthesis in Salvia miltiorrhiza

Overexpression of GmUBC9 Gene Enhances Plant Drought Resistance and Affects Flowering Time via Histone H2B Monoubiquitination

Identification of novel ERF transcription factor genes in papaya and analysis of their expression in different tissues and in response to the plant defense inducer benzothiadiazole (BTH)

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