<scp>MsMYB741</scp> is involved in alfalfa resistance to aluminum stress by regulating flavonoid biosynthesis

Su, Liantai; Lv, Aimin; Wen, Wuwu; Fan, Nana; Li, Jiaojiao; Gao, Li; Zhou, Peng; An, Yuan

doi:10.1111/tpj.15977

Cited by 20 publications

(15 citation statements)

References 54 publications

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“…The pleiotropic nature of several tannin genes was also evident as three of the primary tannin loci were also associated with metal binding (aluminum, iron, and zinc) (Figures 1, 2; Table 1). The affinity of tannins for metal binding is well documented across a variety of metals and plant species including close relatives of sorghum, maize, and pearl millet (Kidd et al, 2001;Barcelo and Poschenrieder, 2002;Kochian et al, 2004;Lestienne et al, 2005;Su et al, 2022).…”

Section: Confirmation Of Characterized Locimentioning

confidence: 99%

Functional genomic effects of indels using Bayesian genome-phenome wide association studies in sorghum

2023

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High-throughput genomic and phenomic data have enhanced the ability to detect genotype-to-phenotype associations that can resolve broad pleiotropic effects of mutations on plant phenotypes. As the scale of genotyping and phenotyping has advanced, rigorous methodologies have been developed to accommodate larger datasets and maintain statistical precision. However, determining the functional effects of associated genes/loci is expensive and limited due to the complexity associated with cloning and subsequent characterization. Here, we utilized phenomic imputation of a multi-year, multi-environment dataset using PHENIX which imputes missing data using kinship and correlated traits, and we screened insertions and deletions (InDels) from the recently whole-genome sequenced Sorghum Association Panel for putative loss-of-function effects. Candidate loci from genome-wide association results were screened for potential loss of function using a Bayesian Genome-Phenome Wide Association Study (BGPWAS) model across both functionally characterized and uncharacterized loci. Our approach is designed to facilitate in silico validation of associations beyond traditional candidate gene and literature-search approaches and to facilitate the identification of putative variants for functional analysis and reduce the incidence of false-positive candidates in current functional validation methods. Using this Bayesian GPWAS model, we identified associations for previously characterized genes with known loss-of-function alleles, specific genes falling within known quantitative trait loci, and genes without any previous genome-wide associations while additionally detecting putative pleiotropic effects. In particular, we were able to identify the major tannin haplotypes at the Tan1 locus and effects of InDels on the protein folding. Depending on the haplotype present, heterodimer formation with Tan2 was significantly affected. We also identified major effect InDels in Dw2 and Ma1, where proteins were truncated due to frameshift mutations that resulted in early stop codons. These truncated proteins also lost most of their functional domains, suggesting that these indels likely result in loss of function. Here, we show that the Bayesian GPWAS model is able to identify loss-of-function alleles that can have significant effects upon protein structure and folding as well as multimer formation. Our approach to characterize loss-of-function mutations and their functional repercussions will facilitate precision genomics and breeding by identifying key targets for gene editing and trait integration.

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Section: Confirmation Of Characterized Locimentioning

confidence: 99%

Functional genomic effects of indels using Bayesian genome-phenome wide association studies in sorghum

2023

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“…GmMYB14 controls plant structure via the brassinosteroid pathway, contributing to highdensity yield and drought resistance in soybean (Chen et al 2021). MsMYB741 is involved in alfalfa resistance to aluminum stress by regulating flavonoid biosynthesis (Su et al 2022). OsMYB60 positively regulates cuticular wax biosynthesis and this helps rice (Oryza sativa) plants tolerate drought stress (Jian et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

“…2021 ). MsMYB741 is involved in alfalfa resistance to aluminum stress by regulating flavonoid biosynthesis ( Su et al. 2022 ).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide analysis of R2R3-MYB genes in cultivated peanut (Arachis hypogaea L.): Gene duplications, functional conservation, and diversification

Wang

Yang

et al. 2023

Front. Plant Sci.

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The cultivated Peanut (Arachis hypogaea L.), an important oilseed and edible legume, are widely grown worldwide. The R2R3-MYB transcription factor, one of the largest gene families in plants, is involved in various plant developmental processes and responds to multiple stresses. In this study we identified 196 typical R2R3-MYB genes in the genome of cultivated peanut. Comparative phylogenetic analysis with Arabidopsis divided them into 48 subgroups. The motif composition and gene structure independently supported the subgroup delineation. Collinearity analysis indicated polyploidization, tandem, and segmental duplication were the main driver of the R2R3-MYB gene amplification in peanut. Homologous gene pairs between the two subgroups showed tissue specific biased expression. In addition, a total of 90 R2R3-MYB genes showed significant differential expression levels in response to waterlogging stress. Furthermore, we identified an SNP located in the third exon region of AdMYB03-18 (AhMYB033) by association analysis, and the three haplotypes of the SNP were significantly correlated with total branch number (TBN), pod length (PL) and root-shoot ratio (RS ratio), respectively, revealing the potential function of AdMYB03-18 (AhMYB033) in improving peanut yield. Together, these studies provide evidence for functional diversity in the R2R3-MYB genes and will contribute to understanding the function of R2R3-MYB genes in peanut.

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“…In recent years, there has also been growing interest in the functional role of flavonoids in metal stress [ 24 , 25 ]. Metal stress upregulates the expression of the structural genes PAL (phenylalanine ammonia-lyase), CHS (chalcone synthase), DFR (dihydroflavonol reductase), and F3H (flavanone 3-hydroxylase), as well as the transcription factor MYBA1, thereby increasing the accumulation of flavonoid compounds while excessive metal ions suppress their accumulation, as determined by HPLC combined with qRT-PCR [ 26 , 27 ]. The stimulation of CHS activity has been demonstrated in response to copper and cadmium [ 28 , 29 ], while an increase in PAL activity has been revealed in plants exposed to cadmium and lead [ 30 ].…”

Section: Introductionmentioning

confidence: 99%

“…As a common abiotic stress factor in soil, Al stress, similarly to cadmium, lead, and copper stresses, seriously affects plant growth, development, and metabolism [ 11 , 32 ]. Flavonoids have been demonstrated to have Al binding affinity and to carry out detoxification during Al resistance by forming Al chelates or by scavenging reactive oxygen species (ROS) [ 21 , 27 , 33 ]. Eucalyptus is a highly Al-resistant tree because of its secretion of the flavonoid compound oenothein B from the roots of E. camaldulensis , and the exogenous application of oenothein B promotes root growth in Arabidopsis under Al stress [ 34 ].…”

Section: Introductionmentioning

confidence: 99%

Metabolomic Study of Flavonoids in Camellia drupifera under Aluminum Stress by UPLC-MS/MS

Wang

Cheng

Wei

et al. 2023

Plants

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Aluminum (Al) affects the yield of forest trees in acidic soils. The oil tea plant (Camellia drupifera Lour.) has high Al tolerance, with abundant phenolic compounds in its leaves, especially flavonoid compounds. The role of these flavonoids in the Al resistance of oil tea plants is unclear. In this metabolomic study of C. drupifera under Al stress, ultra-pressure liquid chromatography coupled with tandem mass spectrometry (UPLC-MS/MS) was utilized to identify metabolites, while principal component analysis, cluster analysis, and orthogonal partial least squares discriminant analysis were applied to analyze the data on the flavonoid metabolites. The leaf morphology of C. drupifera revealed significant damage by excess aluminum ions under each treatment compared with the control group. Under Al stress at 2 mmol/L (GZ2) and 4 mmol/L (GZ4), the total flavonoid content in C. drupifera leaves reached 24.37 and 35.64 mg/g, respectively, which are significantly higher than the levels measured in the control group (CK) (p < 0.01). In addition, we identified 25 upregulated and 5 downregulated metabolites in the GZ2 vs. CK comparison and 31 upregulated and 7 downregulated flavonoid metabolites in GZ4 vs. CK. The results demonstrate that different levels of Al stress had a significant influence on the metabolite profile of C. drupifera. It was found that the abundance of the 24 differential flavonoid metabolites was gradually elevated with increasing concentrations of Al stress, including catechin, epicatechin, naringenin-7-glucoside, astilbin, taxifolin, miquelianin, quercitrin, and quercimeritrin. Moreover, the most significant increase in antioxidant activity (about 30%) was observed in C. drupifera precultured in leaf extracts containing 7.5 and 15 μg/mL of active flavonoids. The qRT-PCR results showed that the expression levels of key genes involved in the synthesis of flavonoids were consistent with the accumulation trends of flavonoids under different concentrations of Al. Therefore, our results demonstrate the key role of flavonoid compounds in the oil tea plant C. drupifera in response to Al stress, which suggests that flavonoid metabolites in C. drupifera, as well as other aluminum-tolerant plants, may help with detoxifying aluminum.

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MsMYB741 is involved in alfalfa resistance to aluminum stress by regulating flavonoid biosynthesis

Cited by 20 publications

References 54 publications

Functional genomic effects of indels using Bayesian genome-phenome wide association studies in sorghum

Functional genomic effects of indels using Bayesian genome-phenome wide association studies in sorghum

Genome-wide analysis of R2R3-MYB genes in cultivated peanut (Arachis hypogaea L.): Gene duplications, functional conservation, and diversification

Metabolomic Study of Flavonoids in Camellia drupifera under Aluminum Stress by UPLC-MS/MS

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