Evolution of the R2R3-MYB gene family in six Rosaceae species and expression in woodland strawberry

Liu, Hui; Xiong, Jinsong; Jiang, Yueting; Wang, Li; Cheng, Zong‐Ming

doi:10.1016/s2095-3119(19)62818-2

Cited by 33 publications

(18 citation statements)

References 60 publications

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“…In this study, we identified 112 R2R3-MYB genes in woodland strawberry by using HMM profile of MYB DNA-binding domain to blast strawberry genome database and further verified the presence of the MYB DNA-binding domain in Pfam, SMART and HHMER (Supplementary Table 4). Recently, Liu et al (2019) have identified R2R3-MYB genes in six Rosaceae species including strawberry (F. vesca), but they identified 105 R2R3-MYB genes which was seven genes fewer than what we found. The difference was likely because they used the 125 R2R3-MYB from Arabidopsis to perform repetitive BLASTP search against the strawberry genome version 1.1.a2, in which there were still many scaffolds (Darwish et al, 2015).…”

Section: Discussioncontrasting

confidence: 90%

Table_1.XLS

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Section: Discussioncontrasting

confidence: 90%

Table_1.XLS

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“…The number of MYB genes may be linked to the genome size and evolution of the species. In strawberry, although the R2R3-MYB subfamily had been previously identified, the other MYB subfamilies and their expression patterns have not been comprehensively analyzed [47]. In this study, we identified 217 FveMYB genes in woodland strawberry (Table S1).…”

Section: Identification and Comparison Of Myb Genes In Woodland Strawberry And Arabidopsismentioning

confidence: 99%

Genome-Wide Identification and Expression Analysis of MYB Transcription Factors and Their Responses to Abiotic Stresses in Woodland Strawberry (Fragaria vesca)

Zhou

et al. 2021

Horticulturae

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Woodland strawberry (Fragaria vesca) is a diploid strawberry that is widely used as a model of cultivated octoploid strawberry (Fragaria × ananassa). It has also been used as a model for Rosaceae fruits, non-climacteric fruits, and stolons. The MYB superfamily is the largest transcription factor family in plants, and its members play important roles in plant growth and development. However, the complete MYB superfamily in woodland strawberry has not been studied. In this study, a total of 217 MYB genes were identified in woodland strawberry and classified into four groups: one 4R-MYB protein, five 3R-MYB proteins, 113 2R-MYB proteins, and 98 1R-MYB proteins. The phylogenetic relationship of each MYB subgroup was consistent in terms of intron/exon structure and conserved motif composition. The MYB genes in woodland strawberry underwent loss and expansion events during evolution. The transcriptome data revealed that most FveMYB genes are expressed in several organs, whereas 15 FveMYB genes exhibit organ-specific expression, including five genes (FveMYB101, -112, -44, and -8; FveMYB1R81) in roots, two genes (FveMYB62 and -77) in stolon tips, three genes (FveMYB99 and -35; FveMYB1R96) in open flowers, and five genes (FveMYB76 and -100; FveMYB1R4, -5, and -86) in immature fruits. During fruit ripening of woodland strawberry, the expression levels of 84 FveMYB genes were decreased, of which five genes (FveMYB4, -22, -50, and -66; FveMYB1R57) decreased more than 10-fold, whereas those 18 FveMYB genes were increased, especially FveMYB10 and FveMYB74 increased more than 30-fold. In addition, the expression levels of 36, 68, 52, and 62 FveMYB genes were altered by gibberellic acid, abscisic acid, cold, and heat treatments, respectively, and among them, several genes exhibited similar expression patterns for multiple treatments, suggesting possible roles in the crosstalk of multiple signaling pathways. This study provides candidate genes for the study of stolon formation, fruit development and ripening, and abiotic stress responses.

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“…A large number of structural genes involved in anthocyanin biosynthesis, which including phenylalanine ammoniacalyase (PAL), 4-coumaryl: CoA ligase (4CL), chalcone synthase (CHS), chalcone isomerase (CHI), avonoid-3'-hydroxylase (F3'H), avonoid-3',5'hydroxylase (F3'5'H), avanone 3-hydroxylase (F3H), dihydro avonol-4-reductase (DFR), anthocyanidin synthase (ANS), and avonoid 3-O-glucosyltransferase (UFGT) [12,[14][15][16]]. Generally, the structural genes of anthocyanin biosynthesis are regulated by transcription factors, WD40, bHLH and R2R3-MYB proteins [17][18][19]. The transcription factors regulate the expression of structural genes by forming trimer complexes and binding with the promoters of structural genes [20].…”

Section: Introductionmentioning

confidence: 99%

Functional R2R3-MYB Transcription Factor NsMYB1, Regulating Anthocyanin Biosynthesis, Was Relative To The Fruit Color Differentiation in Nitraria Sibirica Pall

Xuemei

Zong

et al. 2021

Preprint

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Background Nitraria sibirica Pall. is an economic plant with two kinds of fruit color, widely spreads in the Qinghai Tibet Plateau. The chemical analysis and pharmacological evaluation had been carried out for several tens of years, the mechanism behind the fruit color differentiation is still unclear. Results In this manuscript, the chemical analysis of the extractions showed that the chemical composition of fruit color was anthocyanin, and two kind of Nitraria sibirica Pall. were caused by the content differentiation with the same anthocyanin kinds. Cya-nidin-3-[2ʹ’-(6ʹ’’-coumaroyl)-glucosyl]-glucoside (C3G) was the major anthocyanin. Transcriptome analysis and the qRT-PCR revealed that the structural genes relative to anthocyanin biosynthesis except CHS, F3’5’H and ANS were up-regulated in BF compared with RF, which indicated that transcript factor should be the reason for the expression difference of the structure genes. In the unigenes of the transcript factor MYB and bHLH, relative to anthocyanin, only NsMYB1 (Clus-ter-8422.10600), was high-expression and up-expression in the BF. NsMYB1 encoded the same length protein with four amino acid differences in the RF and BF, and both contained the intact DNA, HTH-MYB and SANT domains. NsMYB1 was close to the AtMYB114, AtMYB113 and AtPAP1, regulating anthocyanin biosynthesis, in phylogenetic relationship. Both NsMYB1r and NsMYB1b could promote the transcript of the structural genes, and induced the anthocyanin accumulation in all tissues of transgenic tobacco. The insertion of ‘TATA’ in the promoter of NsMYB1r gave one more promoter region, and was the reason for higher transcripts in black fruit possibly. Conclusions NsMYB1 was a functional R2R3-MYB transcription factor, regulated the anthocyanin biosynthesis, and leaded to the fruit color differentiation in Nitraria sibirica Pall.

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Evolution of the R2R3-MYB gene family in six Rosaceae species and expression in woodland strawberry

Cited by 33 publications

References 60 publications

Table_1.XLS

Table_1.XLS

Genome-Wide Identification and Expression Analysis of MYB Transcription Factors and Their Responses to Abiotic Stresses in Woodland Strawberry (Fragaria vesca)

Functional R2R3-MYB Transcription Factor NsMYB1, Regulating Anthocyanin Biosynthesis, Was Relative To The Fruit Color Differentiation in Nitraria Sibirica Pall

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