scholarly journals Tissue-Specific Transcriptome Analysis Reveals Multiple Responses to Salt Stress in Populus euphratica Seedlings

Genes ◽  
2017 ◽  
Vol 8 (12) ◽  
pp. 372 ◽  
Author(s):  
Le Yu ◽  
Jianchao Ma ◽  
Zhimin Niu ◽  
Xiaotao Bai ◽  
Wenli Lei ◽  
...  
Keyword(s):  
Salt Stress ◽  
Transcriptome Analysis ◽  
Populus Euphratica ◽  
Multiple Responses ◽  
Tissue Specific

scholarly journals Beyond the greenhouse: coupling environmental and salt stress response reveals unexpected global transcriptional regulatory networks in Salicornia bigelovii

2020 ◽  
Author(s):  
Houda Chelaifa ◽  
Manikandan Vinu ◽  
Massar Dieng ◽  
Youssef Idaghdour ◽  
Ayesha Hasan ◽  
...  
Keyword(s):  
Salt Stress ◽  
Salt Tolerance ◽  
Model Systems ◽  
Biofuel Production ◽  
Salt Tolerant ◽  
Plant Model ◽  
Tissue Specific ◽  
Stress Regulation ◽  
Salicornia Bigelovii ◽  
Tolerant Plant

AbstractSoil salinity is an increasing threat to global food production systems. As such, there is a need for salt tolerant plant model systems in order to understand salt stress regulation and response. Salicornia bigelovii, a succulent obligatory halophyte, is one of the most salt tolerant plant species in the world. It possesses distinctive characteristics that make it a candidate plant model for studying salt stress regulation and tolerance, showing promise as an economical non-crop species that can be used for saline land remediation and for large-scale biofuel production. However, available S. bigelovii genomic and transcriptomic data are insufficient to reveal its molecular mechanism of salt tolerance. We performed transcriptome analysis of S. bigelovii flowers, roots, seeds and shoots tissues cultivated under desert conditions and irrigated with saline aquaculture effluent. We identified a unique set of tissue specific transcripts present in this non-model crop. A total of 66,943 transcripts (72.63%) were successfully annotated through the GO database with 18,321 transcripts (27.38%) having no matches to known transcripts. Excluding non-plant transcripts, differential expression analysis of 49,914 annotated transcripts revealed differentially expressed transcripts (DETs) between the four tissues and identified shoots and flowers as the most transcriptionally similar tissues relative to roots and seeds. The DETs between above and below ground tissues, with the exclusion of seeds, were primarily involved in osmotic regulation and ion transportation. We identified DETs between shoots and roots implicated in salt tolerance including SbSOS1, SbNHX, SbHKT6 upregulated in shoots relative to roots, while aquaporins (AQPs) were up regulated in roots. We also noted that DETs implicated in osmolyte regulation exhibit a different profile among shoots and roots. Our study provides the first report of a highly upregulated HKT6 from S. bigelovii shoot tissue. Furthermore, we identified two BADH transcripts with divergent sequence and tissue specific expression pattern. Overall, expression of the ion transport transcripts suggests Na+ accumulation in S. bigelovii shoots. Our data led to novel insights into transcriptional regulation across the four tissues and identified a core set of salt stress-related transcripts in S. bigelovii.

scholarly journals Gene Discovery and Tissue-Specific Transcriptome Analysis in Chickpea with Massively Parallel Pyrosequencing and Web Resource Development

2011 ◽  
Vol 156 (4) ◽  
pp. 1661-1678 ◽  
Author(s):  
Rohini Garg ◽  
Ravi K. Patel ◽  
Shalu Jhanwar ◽  
Pushp Priya ◽  
Annapurna Bhattacharjee ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Gene Discovery ◽  
Resource Development ◽  
Massively Parallel ◽  
Tissue Specific ◽  
Web Resource ◽  
Parallel Pyrosequencing

Global identification of miRNAs and targets in Populus euphratica under salt stress

2013 ◽  
Vol 81 (6) ◽  
pp. 525-539 ◽  
Author(s):  
Bosheng Li ◽  
Hui Duan ◽  
Jigang Li ◽  
Xing Wang Deng ◽  
Weilun Yin ◽  
...  
Keyword(s):  
Salt Stress ◽  
Populus Euphratica ◽  
Global Identification

scholarly journals Screening of Salt Stress Responsive Genes in Brachypodium distachyon (L.) Beauv. by Transcriptome Analysis

Plants ◽  
2020 ◽  
Vol 9 (11) ◽  
pp. 1522
Author(s):  
Xiuxiu Guo ◽  
Qingjun Wang ◽  
Yuan Liu ◽  
Xuejie Zhang ◽  
Luoyan Zhang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Transcriptome Analysis ◽  
Brachypodium Distachyon ◽  
Stomatal Closure ◽  
Differential Analysis ◽  
Oxygen Scavenging ◽  
Go Enrichment ◽  
Mapman Analysis ◽  
Upregulated Genes ◽  
Substance Metabolism

As one of the most common abiotic stresses, salt stress seriously impairs crop yield. Brachypodium distachyon (L.) Beauv. is a model species for studying wheat and other grasses. In the present investigation, the physiological responses of B. distachyon treated with different concentrations of NaCl for 24 h were measured. Therefore, the control and the seedlings of B. distachyon treated with 200 mM NaCl for 24 h were selected for transcriptome analysis. Transcriptome differential analysis showed that a total of 4116 differentially expressed genes (DEGs) were recognized, including 3120 upregulated and 996 downregulated ones. GO enrichment assay indicated that some subsets of genes related to the active oxygen scavenging system, osmoregulatory substance metabolism, and abscisic-acid (ABA)-induced stomatal closure were significantly upregulated under salt stress. The MapMan analysis revealed that the upregulated genes were dramatically enriched in wax metabolic pathways. The expressions of transcription factor (TF) family members such as MYB, bHLH, and AP2/ERF were increased under salt stress, regulating the response of plants to salt stress. Collectively, these findings provided valuable insights into the mechanisms underlying the responses of grass crops to salt stress.

scholarly journals Identification of Salt Stress Responding Genes Using Transcriptome Analysis in Green Alga Chlamydomonas reinhardtii

2018 ◽  
Vol 19 (11) ◽  
pp. 3359 ◽  
Author(s):  
Ning Wang ◽  
Zhixin Qian ◽  
Manwei Luo ◽  
Shoujin Fan ◽  
Xuejie Zhang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Chlamydomonas Reinhardtii ◽  
Green Alga ◽  
Transcriptome Analysis ◽  
Stress Responses ◽  
Electron Flow ◽  
Saline Stress ◽  
Alternative Source ◽  
Salt Stress Response ◽  
Stress Responding

Salinity is one of the most important abiotic stresses threatening plant growth and agricultural productivity worldwide. In green alga Chlamydomonas reinhardtii, physiological evidence indicates that saline stress increases intracellular peroxide levels and inhibits photosynthetic-electron flow. However, understanding the genetic underpinnings of salt-responding traits in plantae remains a daunting challenge. In this study, the transcriptome analysis of short-term acclimation to salt stress (200 mM NaCl for 24 h) was performed in C. reinhardtii. A total of 10,635 unigenes were identified as being differently expressed by RNA-seq, including 5920 up- and 4715 down-regulated unigenes. A series of molecular cues were screened for salt stress response, including maintaining the lipid homeostasis by regulating phosphatidic acid, acetate being used as an alternative source of energy for solving impairment of photosynthesis, and enhancement of glycolysis metabolism to decrease the carbohydrate accumulation in cells. Our results may help understand the molecular and genetic underpinnings of salt stress responses in green alga C. reinhardtii.

scholarly journals De novo transcriptome analysis of halotolerant bacterium Staphylococcus sp. strain P-TSB-70 isolated from East coast of India: In search of salt stress tolerant genes

PLoS ONE ◽  
2020 ◽  
Vol 15 (2) ◽  
pp. e0228199 ◽  
Author(s):  
Priyanka Das ◽  
Bijay Kumar Behera ◽  
Soumendranath Chatterjee ◽  
Basanta Kumar Das ◽  
Trilochan Mohapatra
Keyword(s):  
Salt Stress ◽  
Transcriptome Analysis ◽  
East Coast ◽  
De Novo ◽  
De Novo Transcriptome ◽  
East Coast Of India ◽  
Halotolerant Bacterium

scholarly journals De novo transcriptome analysis of the critically endangered alpine Himalayan herb Nardostachys jatamansi reveals the biosynthesis pathway genes of tissue-specific secondary metabolites

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Nisha Dhiman ◽  
Anil Kumar ◽  
Dinesh Kumar ◽  
Amita Bhattacharya
Keyword(s):  
Secondary Metabolites ◽  
Transcriptome Analysis ◽  
Vegetative Growth ◽  
De Novo ◽  
Biosynthesis Pathway ◽  
De Novo Transcriptome ◽  
Tissue Specific ◽  
Nardostachys Jatamansi ◽  
Secondary Metabolite Biosynthesis

Abstract The study is the first report on de novo transcriptome analysis of Nardostachys jatamansi, a critically endangered medicinal plant of alpine Himalayas. Illumina GAIIx sequencing of plants collected during end of vegetative growth (August) yielded 48,411 unigenes. 74.45% of these were annotated using UNIPROT. GO enrichment analysis, KEGG pathways and PPI network indicated simultaneous utilization of leaf photosynthates for flowering, rhizome fortification, stress response and tissue-specific secondary metabolites biosynthesis. Among the secondary metabolite biosynthesis genes, terpenoids were predominant. UPLC-PDA analysis of in vitro plants revealed temperature-dependent, tissue-specific differential distribution of various phenolics. Thus, as compared to 25 °C, the phenolic contents of both leaves (gallic acid and rutin) and roots (p-coumaric acid and cinnamic acid) were higher at 15 °C. These phenolics accounted for the therapeutic properties reported in the plant. In qRT-PCR of in vitro plants, secondary metabolite biosynthesis pathway genes showed higher expression at 15 °C and 14 h/10 h photoperiod (conditions representing end of vegetative growth period). This provided cues for in vitro modulation of identified secondary metabolites. Such modulation of secondary metabolites in in vitro systems can eliminate the need for uprooting N. jatamansi from wild. Hence, the study is a step towards effective conservation of the plant.

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