Abstract
Cold tolerance is regulated by a variety of transcription factors (TFs) and their target genes. Except for the well-characterized C-repeat binding factors (CBFs)-dependent transcriptional cascade, the mechanisms of cold tolerance mediated by other transcriptional regulatory networks are still largely unknown. Here, we used the assay for transposase-accessible chromatin with sequencing (ATAC-seq) and RNA-seq to identify cold responsive TFs in Vitis amurensis, a grape species with high cold hardiness. Nine TFs, including CBF4, RAV1 and ERF104, were identified after cold treatment. Weighted gene co-expression network analysis (WGCNA) and gene ontology (GO) analysis revealed that these TFs may regulate cold response through different pathways. As a prime candidate TF, overexpression of VaRAV1 in grape cells improved its cold tolerance. The transgenic cells exhibited low electrolyte leakage and malondialdehyde content and high peroxidase activity. Moreover, the TF gene TCP8 and a gene involving in homogalacturonan biosynthesis were found to be regulated by VaRAV1, suggesting that the contribution of VaRAV1 to cold tolerance may be achieved by enhancing the stability of cell membrane and regulating the expression of target genes involved in plant cell wall composition. Our work provides novel insights into plant response to cold stress and demonstrates the utility of ATAC-seq and RNA-seq for the rapid identification of TFs in response to cold stress in grapevine. VaRAV1 may play an important role in adaption to cold stress.
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Claims 9
Claim · model-written summary
Nine transcription factors including CBF4, RAV1 and ERF104 were identified after cold treatment.
- Taxon
- Vitis amurensis
Vitis amurensise1 - Treatment
- cold treatmente0
- Gene
- CBF4, RAV1 and ERF104e0
- Outcome
- Nine TFse0
- Value
- Nine TFse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Nine TFs, including CBF4, RAV1 and ERF104, were identified after cold treatment”
e1“Vitis amurensis”
Claim · model-written summary
The transcription factors may regulate cold response through different pathways.
- Taxon
- Vitis amurensisVitis amurensise1
- Gene
- TFse0
- Outcome
- cold responsee0
- Qualifier
- through different pathwayse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these TFs may regulate cold response through different pathways”
e1“Vitis amurensis”
Claim · model-written summary
VaRAV1 overexpression improved cold tolerance in grape cells.
- Taxon
- Vitis amurensisVitis amurensise1
- Treatment
- overexpression of VaRAV1e0
- Gene
- VaRAV1e0
- Outcome
- cold tolerancee0
- Direction
- improvede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“overexpression of VaRAV1 in grape cells improved its cold tolerance”
e1“Vitis amurensis”
Claim · model-written summary
Transgenic grape cells had low electrolyte leakage and malondialdehyde content.
- Taxon
- Vitis amurensisVitis amurensise1
- Material
- transgenic cellse0
- Outcome
- electrolyte leakage and malondialdehyde contente0
- Direction
- lowe0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The transgenic cells exhibited low electrolyte leakage and malondialdehyde content”
e1“Vitis amurensis”
Claim · model-written summary
Transgenic grape cells had high peroxidase activity.
- Taxon
- Vitis amurensisVitis amurensise1
- Material
- transgenic cellse0
- Gene
- peroxidasee0
- Outcome
- peroxidase activitye0
- Direction
- highe0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“The transgenic cells exhibited low electrolyte leakage and malondialdehyde content and high peroxidase activity”
e1“Vitis amurensis”
Claim · model-written summary
VaRAV1 regulated TCP8.
- Taxon
- Vitis amurensisVitis amurensise1
- Gene
- TCP8e0
- Outcome
- regulated by VaRAV1e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“the TF gene TCP8 and a gene involving in homogalacturonan biosynthesis were found to be regulated by VaRAV1”
e1“Vitis amurensis”
Claim · model-written summary
VaRAV1 regulated a gene involved in homogalacturonan biosynthesis.
- Taxon
- Vitis amurensisVitis amurensise1
- Gene
- a gene involving in homogalacturonan biosynthesise0
- Outcome
- regulated by VaRAV1e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“the TF gene TCP8 and a gene involving in homogalacturonan biosynthesis were found to be regulated by VaRAV1”
e1“Vitis amurensis”
Claim · model-written summary
VaRAV1 may improve cold tolerance by stabilizing cell membranes and regulating cell-wall target genes.
- Taxon
- Vitis amurensisVitis amurensise1
- Gene
- VaRAV1e0
- Outcome
- cold tolerancee0
- Qualifier
- enhancing the stability of cell membrane and regulating the expression of target genes involved in plant cell wall compositione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“the contribution of VaRAV1 to cold tolerance may be achieved by enhancing the stability of cell membrane and regulating the expression of target genes involved in plant cell wall composition”
e1“Vitis amurensis”
Claim · model-written summary
ATAC-seq and RNA-seq enabled rapid identification of cold-response transcription factors in grapevine.
- Taxon
- Vitis amurensisVitis amurensise1
- Outcome
- rapid identification of TFse0
- Qualifier
- in response to cold stresse0
Not reportedComparatorValue
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“demonstrates the utility of ATAC-seq and RNA-seq for the rapid identification of TFs in response to cold stress in grapevine”
e1“Vitis amurensis”