Arachis hypogaea resveratrol synthase 3 alters the expression pattern of UDP-glycosyltransferase genes in developing rice seeds

Lee, Choonseok; Hong, Woo-Jong; Jung, Kyungsook; Hong, Ha-Cheol; Kim, Dool-Yi; Ok, Hyun-Choong; Choi, Mansoo; Park, Soo-Kwon; Kim, Jae Hyun; Koh, Hee‐Jong

doi:10.1371/journal.pone.0245446

Cited by 4 publications

(5 citation statements)

References 62 publications

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“…We processed the raw data of RNA-seq by the methods described by Lee et al [48]. Briefly, the raw data were quality trimmed using the Cutadapt software with parameters: -a AGATCGGAAGAGC-A AGATCGGAAGAGC-q 30 -m 20 [49], and the trimmed data were mapped to a reference rice genome, MSU7 (http://rice.uga.edu/) using the HISAT2 software [50] with default parameter (S1 Table ).…”

Section: Total Rna Extraction and Rna-seqmentioning

confidence: 99%

“…As described by Lee et al [48], we synthesized cDNA using the iScript TM cDNA Synthesis Kit (Bio-Rad, Hercules, CA, USA) from 1 μg of each total RNA taken in total RNA samples with three replicates of Dongjin, Geonganghongmi, Jeokjinju, Boseokheukchal, Heukjinju, Heukjinmi, and Heukseol. We carried out quantitative real time-polymerase chain reaction (qRT-PCR) with cDNA and the primer sets listed in the S3 Table in the CFX96 TM Real-Time Detection System (Bio-Rad, Hercules, CA, USA) using iQ SYBR Green Supermix (Bio-Rad, Hercules, CA, USA).…”

Section: Gene Expression Analysis By Quantitative Real Time-polymeras...mentioning

confidence: 99%

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Reinterpretation of anthocyanins biosynthesis in developing black rice seeds through gene expression analysis

Lee

Hong³

et al. 2023

PLoS ONE

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The biosynthesis of anthocyanins is still questionable in regulating the quantities of anthocyanins biosynthesized in rice seeds and the expression levels of transcription factors and the structural genes involved in the biosynthetic pathway of anthocyanins. We herein investigated the relationship between the accumulated anthocyanin contents and the expression levels of genes related to the biosynthesis of anthocyanins in rice seeds. Liquid chromatography/mass spectrometry-mass spectrometry analysis of cyanidin 3-glucoside (C3G) in rice seeds showed no accumulation of C3G in white and red rice cultivars, and the differential accumulation of C3G among black rice cultivars. RNA-seq analysis in rice seeds, including white, red, and black rice cultivars, at twenty days after heading (DAH) further exhibited that the genes involved in the biosynthesis of anthocyanins were differentially upregulated in developing seeds of black rice. We further verified these RNA-seq results through gene expression analysis by a quantitative real-time polymerase chain reaction in developing seeds of white, red, and black rice cultivars at 20 DAH. Of these genes related to the biosynthesis of anthocyanins, bHLHs, MYBs, and WD40, which are regulators, and the structural genes, including chalcone synthase (CHS), flavanone 3-hydroxylase (F3H), flavonoid 3´-hydroxylase (F3´H), dihydroflavonol 4-reductase (DFR), and anthocyanidin synthase (ANS), were differentially upregulated in black rice seeds. The correlation analysis revealed that the quantities of C3G biosynthesized in black rice seeds were positively correlated to the expression levels of bHLHs, MYBs and WD40, CHS, F3H, F3´H, DFR, and ANS. In addition, we present bHLH2 (LOC_Os04g47040) and MYBs (LOC_Os01g49160, LOC_Os01g74410, and LOC_Os03g29614) as new putative transcription factor genes for the biosynthesis of anthocyanins in black rice seeds. It is expected that this study will help to improve the understanding of the molecular levels involved in the biosynthesis of anthocyanins in black rice seeds.

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Section: Total Rna Extraction and Rna-seqmentioning

confidence: 99%

Section: Gene Expression Analysis By Quantitative Real Time-polymeras...mentioning

confidence: 99%

Reinterpretation of anthocyanins biosynthesis in developing black rice seeds through gene expression analysis

Lee

Hong³

et al. 2023

PLoS ONE

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“…In transgenic Arabidopsis , overexpression of one RS gene from P. cuspidatum increases the accumulation of trans-piceid in the stilbene biosynthetic pathway and enhances resistance against Colletotrichum higginsianum [ 53 ]. RS is an STS, and resveratrol-forming STS genes have been identified in a variety of plant species, including mulberry [ 54 ], groundnut [ 55 ], and grapevine [ 50 ]. Unfortunately, there are few relevant reports related to the functions of RS and CHS in F. multiflora [ 56 ].…”

Section: Resultsmentioning

confidence: 99%

The first chromosome-level Fallopia multiflora genome assembly provides insights into stilbene biosynthesis

Zhao

Yang

Zhang

et al. 2023

Horticulture Research

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Fallopia multiflora (Thunb.) Harald, a vine belonging to the Polygonaceae family, is used in traditional medicine. The stilbenes contained in it have significant pharmacological activities in anti-oxidation and anti-aging. This study describes the assembly of the F. multiflora genome and presents its chromosome-level genome sequence containing 1.46 gigabases of data (with a contig N50 of 1.97 megabases), 1.44 gigabases of which was assigned to 11 pseudochromosomes. Comparative genomics confirmed that F. multiflora shared a whole-genome duplication event with Tartary buckwheat and then underwent different transposon evolution after separation. Combining genomics, transcriptomics, and metabolomics data to map a network of associated genes and metabolites, we identified two FmRS genes responsible for the catalysis of one molecule of p-coumaroyl-CoA and three molecules of malonyl-CoA to resveratrol in F. multiflora. These findings not only serve as the basis for revealing the stilbene biosynthetic pathway but will also contribute to the development of tools for increasing the production of bioactive stilbenes through molecular breeding in plants or metabolic engineering in microbes. Moreover, the reference genome of F. multiflora is a useful addition to the genomes of the Polygonaceae family.

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“…Previous studies have identified and characterized members of CHS and STS gene families in peanut (A. hypogaea), whereas there have been no reports on these families on wild Arachis species [43][44][45][46]. The allopolyploid domesticated peanut, with an AABB genome, arose from natural hybridization between the diploid ancestors A. duranensis (genome A) and A. ipaënsis (genome B), followed by spontaneous chromosome duplication [23].…”

Section: Discussionmentioning

confidence: 99%

“…Previous studies suggested that resveratrol, besides its classical role as antimicrobial phytoalexin, constitutes an important regulator for the initiation of a hypersensitive response (HR) cell death, as described for A. stenosperma against M. arenaria [58,63,64]. Overexpression of STS genes isolated from cultivated peanut has already been reported in transgenic sweet potato and rice, both aiming to produce resveratrol in heterologous systems [17,45,46]. To our knowledge, the present study is the first report that applies the heterologous overexpression of an STS gene to increase nematode resistance, providing new functional insights into its role in biotic stress responses.…”

Section: Discussionmentioning

confidence: 99%

The Stilbene Synthase Family in Arachis: A Genome-Wide Study and Functional Characterization in Response to Stress

Brasileiro,

Gimenes,

Pereira

et al. 2023

Genes

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Peanut (Arachis hypogaea) and its wild relatives are among the few species that naturally synthesize resveratrol, a well-known stilbenoid phytoalexin that plays a crucial role in plant defense against biotic and abiotic stresses. Resveratrol has received considerable attention due to its health benefits, such as preventing and treating various human diseases and disorders. Chalcone (CHS) and Stilbene (STS) Synthases are plant-specific type III Polyketide Synthases (PKSs) that share the same substrates and are key branch enzymes in the biosynthesis of flavonoids and stilbenoids, respectively. Although resveratrol accumulation in response to external stimulus has been described in peanut, there are no comprehensive studies of the CHS and STS gene families in the genus Arachis. In the present study, we identified and characterized 6 CHS and 46 STS genes in the tetraploid peanut and an average of 4 CHS and 22 STS genes in three diploid wild species (Arachis duranensis, Arachis ipaënsis and Arachis stenosperma). The CHS and STS gene and protein structures, chromosomal distributions, phylogenetic relationships, conserved amino acid domains, and cis-acting elements in the promoter regions were described for all Arachis species studied. Based on gene expression patterns of wild A. stenosperma STS genes in response to different biotic and abiotic stresses, we selected the candidate AsSTS4 gene, which is strongly induced by ultraviolet (UV) light exposure, for further functional investigation. The AsSTS4 overexpression in peanut hairy roots significantly reduced (47%) root-knot nematode infection, confirming that stilbene synthesis activation in transgenic plants can increase resistance to pathogens. These findings contribute to understanding the role of resveratrol in stress responses in Arachis species and provide the basis for genetic engineering for improved production of valuable secondary metabolites in plants.

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Arachis hypogaea resveratrol synthase 3 alters the expression pattern of UDP-glycosyltransferase genes in developing rice seeds

Cited by 4 publications

References 62 publications

Reinterpretation of anthocyanins biosynthesis in developing black rice seeds through gene expression analysis

Reinterpretation of anthocyanins biosynthesis in developing black rice seeds through gene expression analysis

The first chromosome-level Fallopia multiflora genome assembly provides insights into stilbene biosynthesis

The Stilbene Synthase Family in Arachis: A Genome-Wide Study and Functional Characterization in Response to Stress

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