De novo RNA sequencing analysis of Aeluropus littoralis halophyte plant under salinity stress
| Autor: | Mohammad Reza Bakhtiarizadeh, Elham Younesi-Melerdi, Seyed Abolfazl Motahari, Ghorbanali Nematzadeh, Ali Pakdin-Parizi |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
Agricultural genetics
0106 biological sciences 0301 basic medicine Cell division Bioinformatics Mitotic cell cycle process lcsh:Medicine Phosphatidylcholine biosynthetic process Sodium Chloride Biology Poaceae Salt Stress 01 natural sciences Article Transcriptome 03 medical and health sciences chemistry.chemical_compound Plant Growth Regulators Halophyte Jasmonic acid mediated signaling pathway lcsh:Science Abscisic acid Plant Proteins Principal Component Analysis Multidisciplinary Plant Extracts Sequence Analysis RNA lcsh:R Salt-Tolerant Plants Cell cycle Cell biology 030104 developmental biology chemistry RNA Plant lcsh:Q Signal Transduction 010606 plant biology & botany |
| Zdroj: | Scientific Reports, Vol 10, Iss 1, Pp 1-14 (2020) Scientific Reports |
| ISSN: | 2045-2322 |
| DOI: | 10.1038/s41598-020-65947-5 |
| Popis: | The study of salt tolerance mechanisms in halophyte plants can provide valuable information for crop breeding and plant engineering programs. The aim of the present study was to investigate whole transcriptome analysis of Aeluropus littoralis in response to salinity stress (200 and 400 mM NaCl) by de novo RNA-sequencing. To assemble the transcriptome, Trinity v2.4.0 and Bridger tools, were comparatively used with two k-mer sizes (25 and 32 bp). The de novo assembled transcriptome by Bridger (k-mer 32) was chosen as final assembly for subsequent analysis. In general, 103290 transcripts were obtained. The differential expression analysis (log2FC > 1 and FDR A. littoralis, which well-known salinity stress-related pathways are induced in 400 mM NaCl, while less considered pathways, e.g. cell cycle and DNA replication, are highlighted under 200 mM NaCl treatment. |
| Databáze: | OpenAIRE |
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