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Investigation on different small RNA expression of TT19 suppressors under anthocyanin induction condition (AIC) using Small RNA-seq

ABSTRACT: Investigation on different small RNA expression of TT19 suppressors under anthocyanin induction condition (AIC) using Small RNA-seq

PROVIDER: PRJNA564017 | ENA |

REPOSITORIES: ENA

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Investigation on different small RNA expression of TT19 suppressors under anthocyanin induction condition (AIC) using Small RNA-seq

Project description:To investigate the functions of TRANSPARENT TESTA 19 (TT19) on anthocyanin accumulation and stabilization using forward genetic screening approach. EMS mutagenized tt19 mutant to screen tt19 mutant suppressors that could restore the anthocyanin accumulation and the causative mutations were identified as point mutations in the RDR6/SGS3/DCL4 siRNA biogenesis pathway using whole genome re-sequencing. The idea for RNA-Seq and small RNA-Seq analysis is to illustrate the connection between siRNA biogenesis, TT19, and anthocyanin restoration. RNA's of 4 Arabidopsis lines (col-0, tt19 and two TT19 suppressors, all in triplicate) which were under AIC (3% sucrose shaking four days under 24h light) for four days was extracted. Small RNA libraries were prepared by BGI company and sequenced using BGISEQ-500 as 50SE.

2020-04-20 | GSE136901 | GEO

Investigation on different gene and small RNA expression of TT19 suppressors under anthocyanin inducing conditions (AIC)

Project description:Investigation on different gene and small RNA expression of TT19 suppressors under anthocyanin inducing conditions (AIC)

| PRJNA564253 | ENA

Investigation on different gene expression of TT19 suppressors under anthocyanin inducing conditions (AIC) using RNA-seq

Project description:24 samples of total RNA of 8 Arabidopsis lines (col-0, tt19, and six tt19 suppressors in triplicate) which were under AIC (shaking in 3% sucrose for four days under 24hrs of light) was extracted. mRNA libraries were prepared by BGI company and sequenced BGISEQ-500 as 100PE.

2020-04-20 | GSE136680 | GEO

Investigation on different gene expression of TT19 suppressors under anthocyanin inducing conditions (AIC) using RNA-seq

Project description:Investigation on different gene expression of TT19 suppressors under anthocyanin inducing conditions (AIC) using RNA-seq

| PRJNA563055 | ENA

Investigation on different gene and small RNA expression of TT19 suppressors under anthocyanin inducing conditions (AIC)

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-04-20 | GSE137004 | GEO

microRNA172 targets APETALA2 to regulate anthocyanin biosynthesis

Project description:MicroRNA172 (miR172) plays a role in regulating a diverse range of plant developmental processes. However, its role in regulating anthocyanin biosynthesis is unclear. In this study, we show that transgenic apple plants over-expressing miR172 show a reduction in red colouration and anthocyanin accumulation in multiple tissue types. This reduction was consistent with decreased expression of APETALA2 homolog MdAP2_1a (a miR172 target gene), MdMYB10, and targets of MdMYB10, as demonstrated by both RNA-seq and RT-PCR analyses. During the onset of anthocyanin biosynthesis in apple fruit skin, miR172 transcript abundance was negatively correlated and MdAP2_1a mRNA concentration was positively correlated with fruit skin red-colouration. The positive role of MdAP2_1a in regulating anthocyanin biosynthesis was supported by the enhanced petal anthocyanin accumulation in transgenic tobacco plants overexpressing MdAP2_1a, and by the reduction in anthocyanin accumulation in apple and cherry fruits transfected with an MdAP2_1a virus-induced-gene-silencing construct. We demonstrated that MdAP2_1a could bind directly to the promoter and protein sequences of MdMYB10 in yeast and tobacco, and enhance MdMYB10 promotor activity. In Arabidopsis, over-expression of miR172 reduced anthocyanin concentration and RNA transcript abundance of anthocyanin genes in plantlets cultured on medium containing 7% sucrose. The anthocyanin content and RNA abundance of anthocyanin genes could be partially restored by using a synonymous mutant of MdAP2_1a, which had lost the miR172 target sequences at mRNA level, but not restored by using a WT MdAP2_1a. These results indicate that miR172 inhibits anthocyanin biosynthesis through suppressing the expression of an AP2 transcription factor that positively regulates MdMYB10.

2022-12-24 | GSE173297 | GEO

Investigation of different gene expression of putative tt mutants under AIC condition using RNA-seq

Project description:Characterization of transparent testa mutants from large T-DNA collections

2020-04-09 | GSE129589 | GEO

A cluster of miRNAs regulate MYB repressors to promote anthocyanin accumulation in grapes (RNA-Seq)

Project description:MicroRNAs are a class of endogeneously expressed non-coding small, ~21nt RNAs involved in the negative regulation of gene expression. In plants, miRNAs are known to play a critical role in developmental and metabolic pathways, as they predominantly target transcription factors. Studies in Arabidopsis and apple have shown that few microRNAs and small interfering (si) RNAs target MYB transcription factors, which are key regulators of phenylpropanoid pathway. However, it is not well-understood how miRNAs mediate regulation of MYBs to produce secondary metabolites such as anthocyanins and flavonoids. Here we show that, a cluster of abundant miRNAs target MYB transcription factors in anthocyanin rich fruits such as grapes. Using RNA-sequencing we establish that grape varieties with high anthocyanin content express abundant MYB-targeting miRNAs resulting in differential expression of MYB proteins among grape varieties, thereby regulating the phenylpropanoid pathway.

2017-12-20 | GSE107905 | GEO

A cluster of miRNAs regulate MYB repressors to promote anthocyanin accumulation in grapes (sRNA-Seq)

Project description:MicroRNAs are a class of endogeneously expressed non-coding small, ~21nt RNAs involved in the negative regulation of gene expression. In plants, miRNAs are known to play a critical role in developmental and metabolic pathways, as they predominantly target transcription factors. Studies in Arabidopsis and apple have shown that few microRNAs and small interfering (si) RNAs target MYB transcription factors, which are key regulators of phenylpropanoid pathway. However, it is not well-understood how miRNAs mediate regulation of MYBs to produce secondary metabolites such as anthocyanins and flavonoids. Here we show that, a cluster of abundant miRNAs target MYB transcription factors in anthocyanin rich fruits such as grapes. Using deep small RNA-sequencing we establish that grape varieties with high anthocyanin content express abundant MYB-targeting miRNAs resulting in differential expression of MYB proteins among grape varieties, thereby regulating the phenylpropanoid pathway.

2017-12-20 | GSE107907 | GEO

A cluster of miRNAs regulate MYB repressors to promote anthocyanin accumulation in grapes [Degradome]

2019-10-08 | GSE118701 | GEO

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