RNA-seq analysis of the salt stress-induced transcripts in fast-growing bioenergy tree, <i>Paulownia elongata</i>

Chaires, Michel; Gupta, Dinesh; Joshee, Nirmal; Cooper, Kerry K.; Basu, Chhandak

doi:10.1080/17429145.2017.1298851

Cited by 11 publications

(6 citation statements)

References 32 publications

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“…Previous reports indicated that the overexpression of GDSL esterase lipases (GLIPs) could release fatty acids acting as hormone signal transduction molecules [ 73 ]. It has also been reported that excessive GLIPs exhibited improved salinity stress tolerance in Oryza sativa and Arabidopsis thaliana [ 74 , 75 ].…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis of bread wheat leaves in response to salt stress

et al. 2021

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Salinity is one of the main abiotic stresses limiting crop productivity. In the current study, the transcriptome of wheat leaves in an Iranian salt-tolerant cultivar (Arg) was investigated in response to salinity stress to identify salinity stress-responsive genes and mechanisms. More than 114 million reads were generated from leaf tissues by the Illumina HiSeq 2500 platform. An amount of 81.9% to 85.7% of reads could be mapped to the wheat reference genome for different samples. The data analysis led to the identification of 98819 genes, including 26700 novel transcripts. A total of 4290 differentially expressed genes (DEGs) were recognized, comprising 2346 up-regulated genes and 1944 down-regulated genes. Clustering of the DEGs utilizing Kyoto Encyclopedia of Genes and Genomes (KEGG) indicated that transcripts associated with phenylpropanoid biosynthesis, transporters, transcription factors, hormone signal transduction, glycosyltransferases, exosome, and MAPK signaling might be involved in salt tolerance. The expression patterns of nine DEGs were investigated by quantitative real-time PCR in Arg and Moghan3 as the salt-tolerant and susceptible cultivars, respectively. The obtained results were consistent with changes in transcript abundance found by RNA-sequencing in the tolerant cultivar. The results presented here could be utilized for salt tolerance enhancement in wheat through genetic engineering or molecular breeding.

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Section: Discussionmentioning

confidence: 99%

Transcriptome analysis of bread wheat leaves in response to salt stress

et al. 2021

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“…It is also reported that salicylic acid (SA) induced under salt stress leads to the overexpression of GDSL. The excessive GDSL can later release fatty acids involved in signal transduction and SA pathway, which eventually strengthens tolerance to salt stress (Jiang et al 2012; Naranjo et al 2006; Chaires et al 2017) .…”

Section: Discussionmentioning

confidence: 99%

Dissecting molecular mechanisms underlying salt tolerance in rice: a comparative transcriptional profiling of the contrasting genotypes

Mansuri

Shobbar

Jelodar

et al. 2019

Rice

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Background Salinity expansion in arable land is a threat to crop plants. Rice is the staple food crop across several countries worldwide; however, its salt sensitive nature severely affects its growth under excessive salinity. FL478 is a salt tolerant indica recombinant inbred line, which can be a good source of salt tolerance at the seedling stage in rice. To learn about the genetic basis of its tolerance to salinity, we compared transcriptome profiles of FL478 and its sensitive parent (IR29) using RNA-seq technique. Results A total of 1714 and 2670 genes were found differentially expressed (DEGs) under salt stress compared to normal conditions in FL478 and IR29, respectively. Gene ontology analysis revealed the enrichment of transcripts involved in salinity response, regulation of gene expression, and transport in both genotypes. Comparative transcriptome analysis revealed that 1063 DEGs were co-expressed, while 338/252 and 572/908 DEGs were exclusively up/down-regulated in FL478 and IR29, respectively. Further, some biological processes (e.g. iron ion transport, response to abiotic stimulus, and oxidative stress) and molecular function terms (e.g. zinc ion binding and cation transmembrane transporter activity) were specifically enriched in FL478 up-regulated transcripts. Based on the metabolic pathways analysis, genes encoding transport and major intrinsic proteins transporter superfamily comprising aquaporin subfamilies and genes involved in MAPK signaling and signaling receptor kinases were specifically enriched in FL478. A total of 1135 and 1894 alternative splicing events were identified in transcripts of FL478 and IR29, respectively. Transcripts encoding two potassium transporters and two major facilitator family transporters were specifically up-regulated in FL478 under salt stress but not in the salt sensitive genotype. Remarkably, 11 DEGs were conversely regulated in the studied genotypes; for example, OsZIFL , OsNAAT , OsGDSL, and OsELIP genes were up-regulated in FL478, while they were down-regulated in IR29. Conclusions The achieved results suggest that FL478 employs more efficient mechanisms (especially in signal transduction of salt stress, influx and transport of k + , ionic and osmotic homeostasis, as well as ROS inhibition) to respond to the salt stress compared to its susceptible parent. Electronic supplementary material The online version of this article (10.1186/s12284-019-0273-2) contains supplementary material, which is available to authorized users.

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“…Among these species, Paulownia elongata is a widely distributed tree native to Asia and known for its high adaptability and rapid growth rate (Chaires et al 2017). In addition, P. elongata is also highly tolerant to a wide variety of biotic and abiotic stresses (Chaires et al 2017). However, information on the genetic background of P. elongata remains scarce.…”

Section: Paulownia Elongata; Chloroplast Genome; Phylogeny Inferencementioning

confidence: 99%

The complete chloroplast genome of Paulownia elongata and phylogenetic implications in Lamiales

Zhao

Li²,

Shang

2019

Mitochondrial DNA Part B

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Paulownia elongata (Paulowniaceae) is an ornamental tree native to Asia. In this study, the chloroplast (cp) genome of P. elongata was assembled using genome skimming sequencing, and the phylogeny of Lamiales was reconstructed based on whole cp genome data. The cp genome of P. elongata is 154,670 bp in length, comprising two copies of inverted region (IR, 25,783 bp), regions separated by the large single copy (LSC, 85,370 bp) and small single copy (SSC, 17,734 bp) regions. The cp genome encodes 114 unique genes, including 80 different protein-coding genes, 30 tRNA genes, and four rRNA genes, with 19 duplicated genes in the IR regions. Phylogenetic analysis indicates that P. elongata together with two other Paulownia species form a clade, which is sister to Triaenophora shennongjiaensis.

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RNA-seq analysis of the salt stress-induced transcripts in fast-growing bioenergy tree, Paulownia elongata

Cited by 11 publications

References 32 publications

Transcriptome analysis of bread wheat leaves in response to salt stress

Transcriptome analysis of bread wheat leaves in response to salt stress

Dissecting molecular mechanisms underlying salt tolerance in rice: a comparative transcriptional profiling of the contrasting genotypes

The complete chloroplast genome of Paulownia elongata and phylogenetic implications in Lamiales

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