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ABSTRACT: research of C. paliurus under salt stress

PROVIDER: PRJNA799813 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18296375_1.fastq.gz	Fastqsanger.gz
	SRR18296375_2.fastq.gz	Fastqsanger.gz
	SRR18296376_1.fastq.gz	Fastqsanger.gz
	SRR18296376_2.fastq.gz	Fastqsanger.gz
	SRR18296377_1.fastq.gz	Fastqsanger.gz

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Project description:Soybean is an important economic crop for human diet, animal feeds and biodiesel due to high protein and oil content. Its productivity is significantly hampered by salt stress, which impairs plant growth and development by affecting gene expression, in part, through epigenetic modification of chromatin status. However, little is known about epigenetic regulation of stress response in soybean roots. Here, we used RNA-seq and ChIP-seq technologies to study the dynamics of genome-wide transcription and histone methylation patterns in soybean roots under salt stress. 8798 soybean genes changed their expression under salt stress treatment. Whole-genome ChIP-seq study of an epigenetic repressive mark, histone H3 lysine 27 trimethylation (H3K27me3), revealed the changes in H3K27me3 deposition during the response to salt stress. Unexpectedly, we found that most of the inactivation of genes under salt stress is strongly correlated with the de novo establishment of H3K27me3 in various parts of the promoter or coding regions where there is no H3K27me3 in control plants. In addition, the soybean histone modifiers were identified which may contribute to de novo histone methylation and gene silencing under salt stress. Thus, dynamic chromatin regulation, switch between active and inactive modes, occur at target loci in order to respond to salt stress in soybean. Our analysis demonstrates histone methylation modifications are correlated with the activation or inactivation of salt-inducible genes in soybean roots.

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Transcriptome Analysis of ER Stress-Related Genes in Cyclocarya paliurus

Project description:Cyclocarya (Juglandaceae) is a genus comprising only one species (C. paliurus (Batal.) Iljin.), which is considered an endangered tree species in China . It belongs to three types of protected plants and is mainly distributed in Hunan, Jiangxi, Anhui, and Guizhou.we investigated the genetic mechanisms of ER stress in C. paliurus by performing transcriptome analysis to compare the profiles of ER stress-related gene expression via different time-course Tunicamycin (TM) treatment（0 hour, 6 hour,14 hour）. A total 196,207 unigenes were detected, with 1,867 down-regulated and 3,040 up-regulated differentially expressed genes (DEGs) found in both treatment (TM_6h and TM_14h )compare to control(TM_0h).

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The rsa3-1 mutation affects global gene expression in Arabidopsis thaliana under salt stress.

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Identification of microRNAs and Their Targets in Ulmus pumila under Salt Stress by High-Throughput Sequencing

Project description:MicroRNAs (miRNAs) are a class of endogenous small RNAs that play important roles in growth, development, and environmental stress response processes in plants. Ulmus pumila is a typical deciduous broadleaved tree species of north temperate, and is widely distributed in central and northern Asia, which has important economic and ecological value. With the spread and aggravate of soil salinisation, salt stress has become a major abiotic stress that highly affects the normal growth and development of U. pumila. However, to date, no investigation into the influence of salt stress on U. pumila miRNAs has been reported. To identify miRNAs and predict their target mRNA genes under salt stress, three small RNA libraries were generated and sequenced from CK (without salt stress), LSS (light salt stress for a short time) and MSL (medium-heavy salt stress for a long time) roots of U. pumila seedlings. Through integrative analysis, 245 conserved miRNAs representing 30 families and 64 novel miRNAs were identified, of which 89 exhibited altered expression level under salt stress, and 232 potential targets for the miRNAs were predicted and annotated in U. pumila. The expressions of six differentially expressed miRNAs were validated by qRT-PCR. These salt responsive miRNAs may play crucial roles in U. pumila defense against salt stress, and our miRNA data provides valuable information regarding further functional analysis of miRNAs involved in salt tolerance of U. pumila and other forest tree species.

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Genome-wide profiling of small RNAs in Arabidopsis seedlings under salt and cold stresses

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