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Transcriptomic Analysis of Betula halophila in Response to Salt Stress

Soil salinization is a matter of concern worldwide. It can eventually lead to the desertification of land and severely damage local agricultural production and the ecological environment. Betula halophila is a tree with high salt tolerance, so it is of importance to understand and discover the salt...

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Autores principales: Shao, Fenjuan, Zhang, Lisha, Wilson, Iain W., Qiu, Deyou
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6274945/
https://www.ncbi.nlm.nih.gov/pubmed/30384437
http://dx.doi.org/10.3390/ijms19113412
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author Shao, Fenjuan
Zhang, Lisha
Wilson, Iain W.
Qiu, Deyou
author_facet Shao, Fenjuan
Zhang, Lisha
Wilson, Iain W.
Qiu, Deyou
author_sort Shao, Fenjuan
collection PubMed
description Soil salinization is a matter of concern worldwide. It can eventually lead to the desertification of land and severely damage local agricultural production and the ecological environment. Betula halophila is a tree with high salt tolerance, so it is of importance to understand and discover the salt responsive genes of B. halophila for breeding salinity resistant varieties of trees. However, there is no report on the transcriptome in response to salt stress in B. halophila. Using Illumina sequencing platform, approximately 460 M raw reads were generated and assembled into 117,091 unigenes. Among these unigenes, 64,551 unigenes (55.12%) were annotated with gene descriptions, while the other 44.88% were unknown. 168 up-regulated genes and 351 down-regulated genes were identified, respectively. These Differentially Expressed Genes (DEGs) involved in multiple pathways including the Salt Overly Sensitive (SOS) pathway, ion transport and uptake, antioxidant enzyme, ABA signal pathway and so on. The gene ontology (GO) enrichments suggested that the DEGs were mainly involved in a plant-type cell wall organization biological process, cell wall cellular component, and structural constituent of cell wall molecular function. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment showed that the top-four enriched pathways were ‘Fatty acid elongation’, ‘Ribosome’, ‘Sphingolipid metabolism’ and ‘Flavonoid biosynthesis’. The expression patterns of sixteen DEGs were analyzed by qRT-PCR to verify the RNA-seq data. Among them, the transcription factor AT-Hook Motif Nuclear Localized gene and dehydrins might play an important role in response to salt stress in B. halophila. Our results provide an important gene resource to breed salt tolerant plants and useful information for further elucidation of the molecular mechanism of salt tolerance in B. halophila.
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spelling pubmed-62749452018-12-15 Transcriptomic Analysis of Betula halophila in Response to Salt Stress Shao, Fenjuan Zhang, Lisha Wilson, Iain W. Qiu, Deyou Int J Mol Sci Article Soil salinization is a matter of concern worldwide. It can eventually lead to the desertification of land and severely damage local agricultural production and the ecological environment. Betula halophila is a tree with high salt tolerance, so it is of importance to understand and discover the salt responsive genes of B. halophila for breeding salinity resistant varieties of trees. However, there is no report on the transcriptome in response to salt stress in B. halophila. Using Illumina sequencing platform, approximately 460 M raw reads were generated and assembled into 117,091 unigenes. Among these unigenes, 64,551 unigenes (55.12%) were annotated with gene descriptions, while the other 44.88% were unknown. 168 up-regulated genes and 351 down-regulated genes were identified, respectively. These Differentially Expressed Genes (DEGs) involved in multiple pathways including the Salt Overly Sensitive (SOS) pathway, ion transport and uptake, antioxidant enzyme, ABA signal pathway and so on. The gene ontology (GO) enrichments suggested that the DEGs were mainly involved in a plant-type cell wall organization biological process, cell wall cellular component, and structural constituent of cell wall molecular function. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment showed that the top-four enriched pathways were ‘Fatty acid elongation’, ‘Ribosome’, ‘Sphingolipid metabolism’ and ‘Flavonoid biosynthesis’. The expression patterns of sixteen DEGs were analyzed by qRT-PCR to verify the RNA-seq data. Among them, the transcription factor AT-Hook Motif Nuclear Localized gene and dehydrins might play an important role in response to salt stress in B. halophila. Our results provide an important gene resource to breed salt tolerant plants and useful information for further elucidation of the molecular mechanism of salt tolerance in B. halophila. MDPI 2018-10-31 /pmc/articles/PMC6274945/ /pubmed/30384437 http://dx.doi.org/10.3390/ijms19113412 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Shao, Fenjuan
Zhang, Lisha
Wilson, Iain W.
Qiu, Deyou
Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title_full Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title_fullStr Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title_full_unstemmed Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title_short Transcriptomic Analysis of Betula halophila in Response to Salt Stress
title_sort transcriptomic analysis of betula halophila in response to salt stress
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6274945/
https://www.ncbi.nlm.nih.gov/pubmed/30384437
http://dx.doi.org/10.3390/ijms19113412
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AT qiudeyou transcriptomicanalysisofbetulahalophilainresponsetosaltstress