Genomic profiling of WRKY transcription factors and functional analysis of CcWRKY7, CcWRKY29, and CcWRKY32 related to protoberberine alkaloids biosynthesis in Coptis chinensis Franch

Huang, Xiaoqiang; An, Jisun; Huang, Tao; Wang, Li; Yang, Guohua; Zhao, Wanli

doi:10.3389/fgene.2023.1151645

Cited by 5 publications

(1 citation statement)

References 31 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The WRKY proteins display regulatory function by binding to cis-regulatory elements located in the 5' upstream region of the target gene in a sequence-speci c manner [17]. In recent years, there are many reports where WRKY TFs illustrated regulation function in biosynthesis of varied secondary metabolites such as avonoid [18], alkaloid [14,19], etc. Recently, increasing evidence in other species has demonstrated that WRKY TFs are involved in the regulation of carotenoids/apocarotenoids metabolism as well by modulating the expression of functional genes in their metabolic pathways [20].…”

Section: Introductionmentioning

confidence: 99%

Transcriptome-wide characterization of novel WRKY family genes Engaged in Crocin biosynthesis in Crocus Sativus

Gao,

Li,

Wang

et al. 2024

Preprint

View full text Add to dashboard Cite

Crocins, exhibiting remarkable pharmacological value were generated in significant quantities in stigma of Crocus sativus. Although the biosynthesis pathway of crocins has been elucidated to a great degree, there is still little information about the regulating mechanism of TFs on the biosynthesis of crocins in stigma development process. WRKY TFs were reported to play a role in modulating carotenoids/apocarotenoids metabolism. CsWRKY genes were identified from RNA sequencing database of stigma at different developmental stages. Phylogenetic analysis was employed to work out their evolutionary relation. Coexpression profile of CsWRKY genes and crocin biosynthesis-related genes was performed on Majorbio Cloud Platform. Quantitative real-time PCR was used to investigate the expression level of CsWRKY TFs in various tissue and developmental stages. A total of 34 CsWRKY TFs were identified from stigma of C. Sativus. Phylogenetic analysis of these CsWRKY TFs together with their orthologs from Arabidopsis clustered them into group Ⅰ, Ⅱ and Ⅲ. Coexpression network between CsWRKY TFs and crocin biosynthesis-related genes (CsBCH, CsCCD2L, CsALDH and CsUGT) revealed that CsWRKY1, -2, -8, -10, -15 and − 28 genes showed strong correlation with above structure genes. CsWRKY2, -15 and − 28 have identical motifs, belonging to group Ⅱd. The expression levels of candidate CsWRKY genes are highest in stigma comparing with other tissues. Furtherly, the expression patterns of candidate CsWRKY genes were in parallel to the accumulation of crocins. Our study established an extensive overview of the WRKY family in C. sativus and screened six candidate CsWRKY (1, -2, -8, -10, -15 and − 28) involved in the crocin biosynthesis in saffron.

show abstract

Section: Introductionmentioning

confidence: 99%

Transcriptome-wide characterization of novel WRKY family genes Engaged in Crocin biosynthesis in Crocus Sativus

Gao,

Li,

Wang

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

Transcriptional regulation of secondary plant product biosynthesis: insights into flavonoid, alkaloid, and terpenoid pathways

Singh,

Dwivedi

et al. 2024

Plant Cell Tiss Organ Cult

View full text Add to dashboard Cite

Genome-wide identification of AP2/ERF gene family in Coptis Chinensis Franch reveals its role in tissue-specific accumulation of benzylisoquinoline alkaloids

Zhang,

Lu,

Zheng

et al. 2024

BMC Genomics

View full text Add to dashboard Cite

Background The Plant-specific AP2/ERF gene family encodes proteins involved in various biological and physiological processes. Although the genome of Coptis chinensis Franch, a plant producing benzylisoquinoline alkaloids (BIAs), has been sequenced at the chromosome level, studies on the AP2/ERF gene family in C. chinensis are lacking. Thus, a genome-wide identification of AP2/ERF gene family in C. chinensis was conducted to explore its role in BIAs biosynthesis. Results A total of 96 CcAP2/ERF genes were identified and categorized into five subfamilies, including 43 ERFs, 32 DREBs, 17 AP2s, 3 RAVs, and 1 Soloist, based on their structural domains. These CcAP2/ERF genes were unevenly distributed across nine chromosomes. Analysis of gene duplication events identified 17 CcAP2/ERF gene pairs in the genome, with 7 involved in tandem duplication events and 10 involved in segmental duplicate events, indicating that both types of duplications contributed to the expansion of the AP2/ERF gene family. The Ka / Ks ratio analysis suggested that the CcAP2/ERF gene family underwent strong purifying selection. Two phytohormones, methyl jasmonate and abscisic acid, were identified as potential key inducers of BIAs biosynthesis due to the cis -acting element prediction. Analysis of the spatial transcriptomic data revealed that 28 differentially expressed AP2/ERF genes had the highest or relatively higher expression levels in the rhizome, 17 of which positively correlated with the tissue-specific accumulation of BIAs. Further real-time PCR verification and protein-protein interaction analysis indicated that DREB1B might be one of the central regulators in a highly complex BIAs biosynthesis network. Conclusion These findings provide significant insight into the function of AP2/ERF genes in C. chinensis , particularly in the regulatory network of BIAs biosynthesis in C. chinensis . This study also identifies candidate genes for metabolic engineering to increase BIAs content in C. chinensis . Supplementary Information The online version contains supplementary material available at 10.1186/s12864-024-10883-1.

show abstract

Genomic profiling of WRKY transcription factors and functional analysis of CcWRKY7, CcWRKY29, and CcWRKY32 related to protoberberine alkaloids biosynthesis in Coptis chinensis Franch

Cited by 5 publications

References 31 publications

Transcriptome-wide characterization of novel WRKY family genes Engaged in Crocin biosynthesis in Crocus Sativus

Transcriptome-wide characterization of novel WRKY family genes Engaged in Crocin biosynthesis in Crocus Sativus

Transcriptional regulation of secondary plant product biosynthesis: insights into flavonoid, alkaloid, and terpenoid pathways

Genome-wide identification of AP2/ERF gene family in Coptis Chinensis Franch reveals its role in tissue-specific accumulation of benzylisoquinoline alkaloids

Contact Info

Product

Resources

About