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Comparative transcriptomics of 5 Mesorhizobium strains (ORS3324, ORS3359, ORS3356, ORS3365, STM8773) under salt stress

ABSTRACT: Comparative transcriptomics of 5 Mesorhizobium strains (ORS3324, ORS3359, ORS3356, ORS3365, STM8773) under salt stress

PROVIDER: PRJEB12318 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1200770.fastq.gz	Fastqsanger.gz
	ERR1200771.fastq.gz	Fastqsanger.gz
	ERR1200762.fastq.gz	Fastqsanger.gz
	ERR1200763.fastq.gz	Fastqsanger.gz
	ERR1200764.fastq.gz	Fastqsanger.gz

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Comparative transcriptomics of 5 Mesorhizobium strains (ORS3324, ORS3359, ORS3356, ORS3365, STM8773) under salt stress

Project description:We analysed the transcriptomic response by RNAseq of 5 Mesorhizobium strains with different tolerance to the presence of salt (NaCl) in their liquid culture medium (medium used TY- Tryptone Yeast Extract).

2023-12-22 | E-MTAB-4148 | biostudies-arrayexpress

Global transcriptome analysis of gene expression changes in Mesorhizobium alhagi CCNWXJ12-2 under salt stress

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Global transcriptome analysis of gene expression changes in Mesorhizobium alhagi CCNWXJ12-2 under salt stress

Project description:Analysis of gene expression changes of Mesorhizobium alhagi CCNWXJ12-2 under high salt stress. Mesorhizobium alhagi CCNWXJ12-2 is isolated from Alhagi sparsifolia in northwest of China. Total RNA extracted from Mesorhizobium alhagi CCNWXJ12-2 growing in TY medium containing 0.4 M NaCl and 0 M NaCl.

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Comparative transcriptome analysis between two tomato materials under salt stress

Project description:RNA sequencing was performed to investigate the the response mechanism of tomato response to salt stress.

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RNA-seq based transcriptome analysis of plant pathogens under salt stress condition

Project description:Plant pathogens require lethal virulence factors, susceptible hosts, and optimal environmental conditions for disease establishment. High soil salinity, exacerbated by climate change, significantly impacts agro-biological ecosystems. However, the overall interactions between plant pathogens and salt stress are not fully characterized or understood. This study examines the effects of salt stress on representative plant pathogens: Burkholderia gladioli, Pectobacterium carotovorum subsp. carotovorum, and Ralstonia solanacearum. Using pan-genome-based comparative transcriptomics, we analyzed the comprehensive alterations within the biological systems of plant pathogens when treated with 200 mM NaCl. Our results highlight the differential responses between salt-sensitive and salt-tolerant pathogens to salt stress.

2024-08-08 | GSE272984 | GEO

Global transcriptome analysis of Mesorhizobium alhagi CCNWXJ12-2 under salt stress.

Project description:BACKGROUND: Mesorhizobium alhagi CCNWXJ12-2 is a ?-proteobacterium which could be able to fix nitrogen in the nodules formed with Alhagi sparsifolia in northwest of China. Desiccation and high salinity are the two major environmental problems faced by M. alhagi CCNWXJ12-2. In order to identify genes involved in salt-stress adaption, a global transcriptional analysis of M. alhagi CCNWXJ12-2 growing under salt-free and high salt conditions was carried out. The next generation sequencing technology, RNA-Seq, was used to obtain the transcription profiles. RESULTS: We have compared the transcriptome of M. alhagi growing in TY medium under high salt conditions (0.4 M NaCl) with salt free conditions as a control. A total of 1,849 differentially expressed genes (fold change ? 2) were identified and 933 genes were downregulated while 916 genes were upregulated under high salt condition. Except for the upregulation of some genes proven to be involved in salt resistance, we found that the expression levels of protein secretion systems were changed under high salt condition and the expression levels of some heat shock proteins were reduced by salt stress. Notably, a gene encoding YadA domain-containing protein (yadA), a gene encoding trimethylamine methyltransferase (mttB) and a gene encoding formate--tetrahydrofolate ligase (fhs) were highly upregulated. Growth analysis of the three gene knockout mutants under salt stress demonstrated that yadA was involved in salt resistance while the other two were not. CONCLUSIONS: To our knowledge, this is the first report about transcriptome analysis of a rhizobia using RNA-Seq to elucidate the salt resistance mechanism. Our results showed the complex mechanism of bacterial adaption to salt stress and it was a systematic work for bacteria to cope with the high salinity environmental problems. Therefore, these results could be helpful for further investigation of the bacterial salt resistance mechanism.

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Transcriptome analysis of Suaeda salsa under salt stress

Project description:To understand the molecular mechanisms of Suaeda salsa under salt stress, RNA-seq analysis was used to identify genes expressed in Suaeda salsa during salt stress response.

2020-02-17 | GSE145366 | GEO

Expression data of Frankia sp. strain CcI6 under salt stress, osmotic stress, and control conditions (no salt/osmotic stress)

Project description:Purpose:to identify the response of Frankia sp.strain CcI6 to salt and osmotic stress. Frankia sp.strain CcI6 was exposed to salt and osmotic stress for seven days. RNAseq analysis was carried out to ge an insight into the response of the bacterium under salt and osmotic stress conditons

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Comparative proteomic analysis of okra (Abelmoschus esculentusL.) seedlings under salt stress

Project description:Background Salinization seriously threatens land use efficiency and crop yields across the world. Understanding the mechanisms plants use to protect against salt stress will help breeders develop salt-tolerant vegetable crops. Okra (Abelmoschus esculentus L) is an important vegetable crop of the mallow family, which is now cultivated in warm regions worldwide. To understand the effects of salt stress on the protein level of okra, a comparative proteomic analysis of okra seedlings grown in the presence of 0 or 300 mmol L-1 NaCl treatment was performed using an integrated approach of Tandem Mass Tag labeling and LC-MS/MS integrated approach. Results A total of 7179 proteins was identified in this study, for which quantitative information was available for 5,774 proteins. In the NaCl/control comparison group, there were 317 differentially expressed proteins (DEPs), of which 165 proteins were upregulated and 152 proteins downregulatedin the presence of NaCl. Based on the above data, we carried out a systematic bioinformatics analysis of proteins with information, including protein annotation, domain characteristics,functional classification,and pathway enrichment. Enriched gene ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis showed that the DEPs were most strongly associated with“response to stress” and “protein processing in endoplasmic reticulum”. Furthermore, several heat shock proteins were identified as DEPs. Conclusions This informationprovides a reference direction for further research on the okraproteome in the downstreamof the salt stress response, with our data revealing that the responses of okra to salt stress involves by various pathways.

2019-11-12 | PXD011612 | Pride

Comparative physiological and transcriptomic profiling reveals the characteristics of tissue　tolerance mechanisms in Japanese rice landrace under salt stress

Project description:The aim of this study was to characterize the tissue tolerance mechanisms of rice under salt stress. Our preliminary experiment identified a japonica rice landrace Shuzenji-kokumai (SZK), which is considered to be tissue-tolerant because it can maintain better growth than salt-sensitive rice while having a high Na+ concentration in the shoots under salt stress. These mechanisms differ from those of most salt-tolerant rice varieties, which have low Na+ concentrations in the shoots. We compared the physiological and molecular characteristics of SZK with those of FL478, a salt-tolerant variety, and Kunishi, a salt-sensitive variety. Under salt stress conditions, SZK accumulated high levels of Na+ in roots, leaf sheaths, and leaf blades, which were almost as high as those in the salt-sensitive Kunishi. Simultaneously, SZK maintained better growth and physiological status, as determined by its higher dry weight, lower electrolyte leakage ratio, and lower malondialdehyde concentration. OsNHX1 and OsNHX2 were up-regulated in the leaf sheaths of SZK, suggesting that Na+ is compartmentalized in the vacuole to avoid Na+ toxicity. In contrast, FL478 showed up-regulation of OsHKT1;5 and OsSOS1 in the roots, which exclude Na+ from the shoots. RNA-seq analysis showed that 4623 and 1998 differentially expressed genes (DEGs) were detected in the leaf sheaths and leaf blades of SZK, respectively. Among them, the HSP (heat shock protein) gene expression was highly up-regulated only in SZK, indicating that SZK protects against the protein damage caused by Na+ toxicity. Our findings suggest that SZK has atypical survival mechanisms under salt-stress conditions. These mechanisms offer potential traits for improving salt tolerance in rice.

2024-05-08 | GSE266657 | GEO

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