De novo transcriptome assembly and analysis of Phragmites karka, an invasive halophyte, to study the mechanism of salinity stress tolerance.
DNA, Plant
/ genetics
Gene Expression Regulation, Plant
Gene Ontology
High-Throughput Nucleotide Sequencing
India
Introduced Species
Plant Leaves
/ metabolism
Plant Roots
/ metabolism
Poaceae
/ genetics
RNA, Plant
/ biosynthesis
Salt Stress
/ genetics
Salt Tolerance
/ genetics
Seedlings
/ metabolism
Transcription Factors
/ metabolism
Transcriptome
Wetlands
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
23 03 2020
23 03 2020
Historique:
received:
25
11
2019
accepted:
27
02
2020
entrez:
7
4
2020
pubmed:
7
4
2020
medline:
1
12
2020
Statut:
epublish
Résumé
With the rapidly deteriorating environmental conditions, the development of stress tolerant plants has become a priority for sustaining agricultural productivity. Therefore, studying the process of stress tolerance in naturally tolerant species hold significant promise. Phragmites karka is an invasive plant species found abundantly in tropical and sub tropical regions, fresh water regions and brackish marshy areas, such as river banks and lake shores. The plant possesses the ability to adapt and survive under conditions of high salinity. We subjected P. karka seedlings to salt stress and carried out whole transcriptome profiling of leaf and root tissues. Assessing the global transcriptome changes under salt stress resulted in the identification of several genes that are differentially regulated under stress conditions in root and leaf tissue. A total of 161,403 unigenes were assembled and used as a reference for digital gene expression analysis. A number of key metabolic pathways were found to be over-represented. Digital gene expression analysis was validated using qRT-PCR. In addition, a number of different transcription factor families including WRKY, MYB, CCCH, NAC etc. were differentially expressed under salinity stress. Our data will facilitate further characterisation of genes involved in salinity stress tolerance in P. karka. The DEGs from our results are potential candidates for understanding and engineering abiotic stress tolerance in plants.
Identifiants
pubmed: 32251358
doi: 10.1038/s41598-020-61857-8
pii: 10.1038/s41598-020-61857-8
pmc: PMC7089983
doi:
Substances chimiques
DNA, Plant
0
RNA, Plant
0
Transcription Factors
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
5192Références
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