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Transcriptomic analysis of Verbena bonariensis roots in response to cadmium stress

ABSTRACT: Transcriptomic analysis of Verbena bonariensis roots in response to cadmium stress

PROVIDER: PRJNA453122 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7058710_1.fastq.gz	Fastqsanger.gz
	SRR7058710_2.fastq.gz	Fastqsanger.gz
	SRR7058711_1.fastq.gz	Fastqsanger.gz
	SRR7058711_2.fastq.gz	Fastqsanger.gz
	SRR7058712_1.fastq.gz	Fastqsanger.gz

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Identification of cadmium resistance and transcriptome sequence analysis under Cadmium Stress in Verbena bonariensis

Project description:Verbena bonariensis is a species with excellent garden plant, good environmental adaptability and great potential for future development.Cadmium has caused serious heavy metal pollution in the soil, which has posed a great threat to plant growth. In this study, Illumina sequencing technology was used to sequence the transcriptome of Verbena bonariensis leaf under normal and Cd stress, respectively. In total, 95,013 transcripts and 63021 genes with an average length of 923 bp and 1,246 bp were constructed from the clean sequence reads, respectively. And 1037 DEGs were found in response to cadmium treatment, of which 10 were selected for qRT-PCR. In conclusion, this study first identified the Verbena bonariensis as a heavy metal tolerant plant and provided the first large-scale transcriptional data set in response to cadmium stress. Our research will help to understand the mechanism of resistance to Cd in the Verbena bonariensis and provide clues for further studies on the relationships between plants and heavy metals in other Verbenaceae plants.

2018-01-18 | GSE101600 | GEO

Verbena bonariensis

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Verbena bonariensis

Project description:Identification of cadmium resistance and transcriptome sequence analysis under Cadmium Stress in Verbena bonariensis

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Transcriptomic analysis of Verbena bonariensis roots in response to cadmium stress.

Project description:BACKGROUND:Cadmium (Cd) is a serious heavy metal (HM) soil pollutant. To alleviate or even eliminate HM pollution in soil, environmental-friendly methods are applied. One is that special plants are cultivated to absorb the HM in the contaminated soil. As an excellent economical plant with ornamental value and sound adaptability, V. bonariensis could be adapted to this very situation. In our study, the Cd tolerance in V. bonariensis was analyzed as well as an overall analysis of transcriptome. RESULTS:In this study, the tolerance of V. bonariensis to Cd stress was investigated in four aspects: germination, development, physiological changes, and molecular alterations. The results showed that as a non-hyperaccumulator, V. bonariensis did possess the Cd tolerance and the capability to concentration Cd. Under Cd stress, all 237, 866 transcripts and 191, 370 unigenes were constructed in the transcriptome data of V. bonariensis roots. The enrichment analysis of gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway revealed that differentially expressed genes (DEGs) under Cd stress were predominately related to cell structure, reactive oxygen species (ROS) scavenging system, chelating reaction and secondary metabolites, transpiration and photosynthesis. DEGs encoding lignin synthesis, chalcone synthase (CHS) and anthocyanidin synthase (ANS) were prominent in V. bonariensis under Cd stress. The expression patterns of 10 DEGs, validated by quantitative real-time polymerase chain reaction (qRT-PCR), were in highly accordance with the RNA-Sequence (RNA-Seq) results. The novel strategies brought by our study was not only benefit for further studies on the tolerance of Cd and functional genomics in V. bonariensis, but also for the improvement molecular breeding and phytoremediation.

| S-EPMC6868873 | biostudies-literature

Verbena bonariensis cultivar:Finesse

Project description:Verbena bonariensis cultivar:Finesse Raw sequence reads

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Transcriptomic analysis of Verbena bonariensis roots in response to cadmium stress

Project description:The samples were respectively from three replicates of the Cd-stress treatment and the control, then we obtained six cDNA libraries. In total, 237，866 transcripts and 191，370 unigenes were constructed. We got a total of 23，424 differentially expressed genes (DEGs), of which 12，558 were up-regulated and the other 10，866 were down regulated under the Cd treatment.

2019-04-24 | GSE113569 | GEO

Transcriptomic analysis of Verbena bonariensis leaves in response to low temperature

Project description:Transcriptomic analysis of Verbena bonariensis leaves in response to low temperature

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Differential expression pattern of the proteome in response to cadmium stress based on proteomics analysis of wheat roots

Project description:Background: Heavy metal cadmium (Cd) is a common environmental pollutant in soils, which has an negative impacts on crop growth and development. At present, cadmium has become a major soil and water heavy metal pollutant, which not only causes permanent and irreversible health problems for humans, but also causes a significant reduction in crop yields. Results: This study examined the chemical forms of Cd in the roots of two wheat varieties (M1019 and Xinong20) by continuous extraction and analyzed differences in distribution characteristics of Cd in the root cell wall, cytoplasm, and organelles by elemental content determination and subcellular separation. Furthermore, we conducted proteomics analysis of the roots of the two varieties under Cd pollution using mass spectrometry quantitative proteomics techniques. A total of 11,651 proteins were identified, of which 10,532 proteins contained quantitative information. In addition, the differentially expressed proteins in the two varieties were related to DNA replication and repair, protein metabolism, and the glutathione metabolism pathway. Conclusion: The results of this study improve our understanding of the mechanism of plant responses to Cd stress.

2020-03-30 | PXD018179 | Pride

Whole-Transcriptome Sequence Analysis of Verbena bonariensis in Response to Drought Stress.

Project description:Drought is an important abiotic factor that threatens the growth and development of plants. Verbena bonariensis is a widely used landscape plant with a very high ornamental value. We found that Verbena has drought tolerance in production practice, so in order to delve into its mechanism of drought resistance and screen out its drought-resistance genes, we used the RNA-Seq platform to perform a de novo transcriptome assembly to analyze Verbena transcription response to drought stress. By high-throughput sequencing with Illumina Hiseq Xten, a total of 44.59 Gb clean data was obtained from T01 (control group) and T02 (drought experiment group). After assembly, 111,313 unigenes were obtained, and 53,757 of them were annotated by compared databases. In this study, 4829 differentially expressed genes were obtained, of which 4165 were annotated. We performed GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analyses, and explored a lot of differently expressed genes related to plant energy production, hormone synthesis, cell signal transduction, and metabolism to understand the stress response of Verbena in drought stress. In addition, we also found that a series of TFs related to drought-resistance of Verbena and provide excellent genetic resources for improving the drought tolerance of crops.

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Transcription profiling of Arabidopsis treated with of two cadmium concentrations on leaves and roots at three different times

Project description:Dynamic of the Arabidopsis thaliana transcriptome following a cadmium exposition.<br> The goal of the project is to developp a global approach without a priori in order to identify the key players involved in response to cadmium: signalisation and mechanisms of detoxification in the model plant Arabidopsis thaliana. An originality of this project is to investigate the response of this organism by analyzing separately leaves and roots. This analysis will be performed in response to sub-toxic and toxic levels at different times. <br> Effects of two cadmium concentrations on leaves and roots at three different times.

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