Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR18750867_1.fastq.gz | Fastqsanger.gz | |||
| SRR18750867_2.fastq.gz | Fastqsanger.gz | |||
| SRR18750868_1.fastq.gz | Fastqsanger.gz | |||
| SRR18750868_2.fastq.gz | Fastqsanger.gz | |||
| SRR18750869_1.fastq.gz | Fastqsanger.gz |
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Project description:Abstract: In order to understand the expression patterns of miRNAs in alfalfa under alkali stress, small RNA sequencing was performed on alfalfa roots at different time points under alkali stress, and miRNAs were identified and analyzed.
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Project description:Medicago sativa L. is the most extensively cultivated and high biomass forage. Selenium is an essential microscale mineral for humans and animals and is a beneficial element for plants, which could increase yields under low concentration and have a poisoning effect under high concentration. LncRNA is involved in diverse biological processes such as flowering, photomorphogenesis, vernalization and stress response in the plants. To study the possible role of lncRNAs in Se accumulation and detoxification underlying alfalfa, we identified and analyzed lncRNAs in alfalfa leaves under 0 mg L-1, 100 mg L-1, 500 mg L-1 based on the degradome deep sequencing. We identified a total of 64,684 novel lncRNAs, from which 3155 were differentially expressed lncRNAs (DELs). The expression patterns of some lncRNAs can be significantly differentially expressed between high and low concentrations. The results of GO and KEGG analysis suggested that sulfate transporter and ABC transporter might be a contributor to Se accumulation in alfalfa. The jasmonic acid (JA) promoted by lipoxygenase and allene oxide synthase may play an important role in Se resistance. The high expression of some key genes of selenocompound metabolism may be beneficial to remove excess Se. The phenylpropanoid, flavonoid, isoflavonoid, and anthocyanidin biosynthesis and autophagy may alleviate the Se toxicity by scavenging reactive oxygen. The expression patterns of nine lncRNAs and their protein-coding genes were validated by qRT-PCR. The same expression pattern was observed between most lncRNAs and their target genes. This study has excavated potential lncRNAs and will give new insight and rich genetic resources to Se-enriched breeding.
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Project description:Alfalfa (Medicago sativa L.) is a forage legume with significant agricultural value worldwide. MicroRNAs (miRNAs) are key components of post-transcriptional gene regulation and essentially control almost all aspect of plant growth and development. Although miRNAs have been reported from alfalfa but their expression profiles in different tissues and novel miRNAs as well as their targets have not been confirmed in this plant species. Therefore, we sequenced small RNAs in whole plantlets, shoots and roots of three different alfalfa genotypes (Altet-4, NECS-141 and NF08ALF06) to identify tissue-specific profiles. After comprehensive analysis using bioinformatics methods, we have identified 100 miRNA families, of which 21 belongs to the highly conserved families whereas the remaining 79 families are conserved between M. truncatula and M. sativa. The profiles of the six highly expressed conserved miRNA families (miR156, 159, 166, 319, 396, 398,) were relatively similar between the plantlets, roots and shoots of three genotypes. Contrastingly, the differenecs were robust between shoots and roots for miR160 and miR408 levels, which were low in roots compared to shoots. The study also has identified 17 novel miRNAs that also differed in their abundanecs between tissues of the alfalfa genotypes. Additionally, we have generated and analyzed the degradome libraries from three alfalfa genotypes that has confirmed 69 genes as targets for 31 miRNA families in alfalfa. The identification of conserved and novel miRNAs as well as their targets in different tissues of three genotypes not only enhanced our understanding of miRNA-mediated gene regulation in alfalfa but could also be useful for practical applications in alfalfa as well as related legume species.
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Project description:This study investigated the effect of autophagy on flowering time in rice. Results provide important information of the response of flowering time to autophagy, such as specific flowerig time genes, up- or down-regulated specific flowering time functions.
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