scholarly journals Coordinated mechanisms of leaves and roots in response to drought stress underlying full-length transcriptome profiling in Vicia sativa L

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Xueyang Min ◽  
Xiaoshan Lin ◽  
Boniface NDAYAMBAZA ◽  
Yanrong Wang ◽  
Wenxian Liu
Keyword(s):  
Drought Stress ◽  
Transcriptome Profiling ◽  
Full Length ◽  
Vicia Sativa ◽  
Leaves And Roots

Physiological characteristic changes and full-length transcriptome of rose (Rosa chinensis) roots and leaves in response to drought stress

2020 ◽  
Author(s):  
Wei Li ◽  
Lufeng Fu ◽  
Ziwen Geng ◽  
Xiaojuan Zhao ◽  
Qinghua Liu ◽  
...  
Keyword(s):  
Acetic Acid ◽  
Drought Stress ◽  
Posttranscriptional Regulation ◽  
Regulatory Networks ◽  
Average Length ◽  
Physiological Characteristic ◽  
Full Length ◽  
Rosa Chinensis ◽  
New Genes ◽  
Leaves And Roots

Abstract Rose (Rosa chinensis) is the most important ornamental crops worldwide. However, the physiological and molecular mechanism of rose under drought stress remains elusive. In this study, we analyzed the changes of photosynthetic and phytohormone levels in the leaves and roots of rose seedlings grown under control (no drought/ND), mild (MD), and severe (SD) drought stress. The total chlorophyll content and water use efficiency were significantly enhanced under MD in rose leaves. In addition, the concentration of abscisic acid (ABA) was higher in the leaves compared to the roots, whereas the roots accumulated more indole-3-acetic acid (IAA), methylindole-3-acetic acid (Me-IAA) and indole-3-propionic acid (IPA). We also constructed the first full-length transcriptome for rose, and identified 96,201,862 full-length reads of average length 1,149 bp that included 65,789 novel transcripts. A total of 3,657 and 4,341 differentially expressed genes (DEGs) were identified in rose leaves and roots respectively. KEGG pathway analysis showed enrichment of plant hormone, signal transduction, and photosynthesis are among the DEGs. 42,544 alternatively spliced isoforms were also identified, and alternative 3ʹ splice site was the major alternative splicing (AS) event among the DEGs. Variations in the AS patterns of three genes between leaves and roots indicated the possibility of tissue-specific posttranscriptional regulation in response to drought stress. Furthermore, 2,410 novel long non-coding RNAs were detected that may participate in regulating the drought-induced DEGs. Our findings identified previously unknown splice sites and new genes in the rose transcriptome, and elucidated the drought stress-responsive genes as well as their intricate regulatory networks.

scholarly journals Flavonoids improve drought tolerance of maize seedlings by regulating the homeostasis of reactive oxygen species

2021 ◽  
Author(s):  
Baozhu Li ◽  
Ruonan Fan ◽  
Guiling Sun ◽  
Ting Sun ◽  
Yanting Fan ◽  
...  
Keyword(s):  
Free Radicals ◽  
Drought Stress ◽  
Drought Tolerance ◽  
Infrared Imaging ◽  
Oxygen Free Radicals ◽  
Transcriptome Profiling ◽  
Far Infrared ◽  
Drought Treatment ◽  
Physiological Characterization ◽  
Oxidative Damages

Abstract Background and aims As drought threatens the yield and quality of maize (Zea mays L.), it is important to dissect the molecular basis of maize drought tolerance. Flavonoids, participate in the scavenging of oxygen free radicals and alleviate stress-induced oxidative damages. This study aims to dissect the function of flavonoids in the improvement of maize drought tolerance. Methods Using far-infrared imaging screening, we previously isolated a drought overly insensitivity (doi) mutant from an ethyl methanesulfonate (EMS)-mutagenized maize library and designated it as doi57. In this study, we performed a physiological characterization and transcriptome profiling of doi57 in comparison to corresponding wild-type B73 under drought stress. Results Under drought stress, doi57 seedlings displayed lower leaf-surface temperature (LST), faster water loss, and better performance in growth than B73. Transcriptome analysis reveals that key genes involved in flavonoid biosynthesis are enriched among differentially expressed genes in doi57. In line with these results, more flavonols and less hydrogen peroxide (H2O2) were accumulated in guard cells of doi57 than in those of B73 with the decrease of soil water content (SWC). Moreover, the capacity determined from doi57 seedling extracts to scavenge oxygen free radicals was more effective than that of B73 under the drought treatment. Additionally, doi57 seedlings had higher photosynthetic rates, stomatal conductance, transpiration rates, and water use efficiency than B73 exposed to drought stress, resulting in high biomass and greater root/shoot ratios in doi57 mutant plants. Conclusion Flavonoids may facilitate maize seedling drought tolerance by lowering drought-induced oxidative damage as well regulating stomatal movement.

scholarly journals New Insights in the Sugarcane Transcriptome Responding to Drought Stress as Revealed by Supersage

2012 ◽  
Vol 2012 ◽  
pp. 1-14 ◽  
Author(s):  
Éderson Akio Kido ◽  
José Ribamar Costa Ferreira Neto ◽  
Roberta Lane de Oliveira Silva ◽  
Valesca Pandolfi ◽  
Ana Carolina Ribeiro Guimarães ◽  
...  
Keyword(s):  
Drought Stress ◽  
Target Genes ◽  
Present Report ◽  
Transcriptome Profiling ◽  
Water Deficit Stress ◽  
New Genes ◽  
Drought Tolerant ◽  
Blastn Analysis ◽  
Root Tissues ◽  
Solexa Sequencing Technology

In the scope of the present work, four SuperSAGE libraries have been generated, using bulked root tissues from four drought-tolerant accessions as compared with four bulked sensitive genotypes, aiming to generate a panel of differentially expressed stress-responsive genes. Both groups were submitted to 24 hours of water deficit stress. The SuperSAGE libraries produced 8,787,315 tags (26 bp) that, after exclusion of singlets, allowed the identification of 205,975 unitags. Most relevant BlastN matches comprised 567,420 tags, regarding 75,404 unitags with 164,860 different ESTs. To optimize the annotation efficiency, the Gene Ontology (GO) categorization was carried out for 186,191 ESTs (BlastN against Uniprot-SwissProt), permitting the categorization of 118,208 ESTs (63.5%). In an attempt to elect a group of the best tags to be validated by RTqPCR, the GO categorization of the tag-related ESTs allowed thein silicoidentification of 213 upregulated unitags responding basically to abiotic stresses, from which 145 presented no hits after BlastN analysis, probably concerning new genes still uncovered in previous studies. The present report analyzes the sugarcane transcriptome under drought stress, using a combination of high-throughput transcriptome profiling by SuperSAGE with the Solexa sequencing technology, allowing the identification of potential target genes during the stress response.

scholarly journals Identification of novel drought-responsive miRNA regulatory network of drought stress response in common vetch (Vicia sativa)

2021 ◽  
Vol 16 (1) ◽  
pp. 1111-1121
Author(s):  
Yongqun Zhu ◽  
Qiuxu Liu ◽  
Wenzhi Xu ◽  
Li Yao ◽  
Xie Wang ◽  
...  
Keyword(s):  
Drought Stress ◽  
Stress Response ◽  
Protein Transport ◽  
Target Genes ◽  
Comparison Group ◽  
Stress Factors ◽  
Leguminous Plant ◽  
Vicia Sativa ◽  
Common Vetch ◽  
Drought Treatment

Abstract Drought is among the most important natural disasters with severe effects on animals and plants. MicroRNAs are a class of noncoding RNAs that play a crucial role in plant growth, development, and response to stress factors, including drought. However, the microRNAs in drought responses in common vetch (Vicia sativa), an annual herbaceous leguminous plant commonly used for forage by including it in mixed seeding during winter and spring, have not been characterized. To explore the microRNAs’ response to drought in common vetch, we sequenced 10 small RNA (sRNA) libraries by the next-generation sequencing technology. We obtained 379 known miRNAs belonging to 38 families and 47 novel miRNAs. The two groups had varying numbers of differentially expressed miRNAs: 85 in the comparison group D5 vs C5 and 38 in the comparison group D3 vs C3. Combined analysis of mRNA and miRNA in the same samples under drought treatment identified 318 different target genes of 123 miRNAs. Functional annotation of the target genes revealed that the miRNAs regulate drought-responsive genes, such as leucine-rich repeat receptor-like kinase-encoding genes (LRR-RLKs), ABC transporter G family member 1 (ABCG1), and MAG2-interacting protein 2 (MIP2). The genes were involved in various pathways, including cell wall biosynthesis, reactive oxygen removal, and protein transport. The findings in this study provide new insights into the miRNA-mediated regulatory networks of drought stress response in common vetch.

scholarly journals Genome-wide transcriptional and physiological responses to drought stress in leaves and roots of two willow genotypes

2015 ◽  
Vol 15 (1) ◽  
Author(s):  
Pascal Pucholt ◽  
Per Sjödin ◽  
Martin Weih ◽  
Ann Christin Rönnberg-Wästljung ◽  
Sofia Berlin
Keyword(s):  
Drought Stress ◽  
Physiological Responses ◽  
Genome Wide ◽  
Leaves And Roots

scholarly journals Understanding physiological and molecular mechanisms of Populus deltoides ‘DanHongYang’ tolerance to waterlogging by comparative transcriptome analysis

2020 ◽  
Vol 48 (3) ◽  
pp. 1613-1636
Author(s):  
Gang LI ◽  
Qiusheng FU ◽  
Zhongbin LIU ◽  
Jiabao YE ◽  
Weiwei ZHANG ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Populus Deltoides ◽  
Transcriptome Profiling ◽  
Endogenous Hormones ◽  
Waterlogging Tolerance ◽  
Adventitious Root Development ◽  
Leaves And Roots ◽  
Waterlogging Treatment ◽  
And Control ◽  
Comparative Transcriptomic Analysis

Populus deltoides ‘DanHongYang’ (DHY) was identified as a waterlogging-resistant cultivar in our previous study. Here, the phenotype, physiological features and transcriptome profiling of P. deltoides ‘DHY’ between the treatments of waterlogging and control were compared. Waterlogging treatment led to distinctly formation of adventitious roots from P. deltoides ‘DHY’ stems. The activities of ascorbate peroxidase and glutathione reductase significantly increased in the leaves of P. deltoides ‘DHY’ by waterlogging treatment. Comparative transcriptomic analysis showed that 2,447 and 9,465 differentially expressed genes (DEGs) were screened between the leaves and roots of P. deltoides ‘DHY’ under waterlogging and control, respectively. The KEGG analysis showed the most significantly up-regulated DEGs in the leaves and roots were enriched to the pathways of glycolyis and proline synthesis. Some genes involved in stress response, endogenous hormones, antioxidant system and adventitious root development in the waterlogged were identified to contribute to the waterlogging tolerance of P. deltoides ‘DHY’. In addition, some candidate transcription factors such as RAP, NAC, WRKY, and bHLH were also found to be associated with the waterlogging tolerance of P. deltoides ‘DHY’. These findings provided the insights into the physiological and molecular mechanisms underlying the tolerance of P. deltoides ‘DHY’ to waterlogging stresses.

scholarly journals Transcriptome Profiling of the Salt Stress Response in the Leaves and Roots of Halophytic Eutrema salsugineum

2021 ◽  
Vol 12 ◽  
Author(s):  
Chuanshun Li ◽  
Yuting Qi ◽  
Chuanzhi Zhao ◽  
Xingjun Wang ◽  
Quan Zhang
Keyword(s):  
Salt Stress ◽  
Salt Tolerance ◽  
Soluble Sugars ◽  
Lignin Biosynthesis ◽  
Sugar Metabolism ◽  
Transcriptome Profiling ◽  
Salt Stress Response ◽  
Salt Shock ◽  
Eutrema Salsugineum ◽  
Leaves And Roots

Eutrema salsugineum can grow in natural harsh environments; however, the underlying mechanisms for salt tolerance of Eutrema need to be further understood. Herein, the transcriptome profiling of Eutrema leaves and roots exposed to 300 mM NaCl is investigated, and the result emphasized the role of genes involved in lignin biosynthesis, autophagy, peroxisome, and sugar metabolism upon salt stress. Furthermore, the expression of the lignin biosynthesis and autophagy-related genes, as well as 16 random selected genes, was validated by qRT-PCR. Notably, the transcript abundance of a large number of lignin biosynthesis genes such as CCoAOMT, C4H, CCR, CAD, POD, and C3′H in leaves was markedly elevated by salt shock. And the examined lignin content in leaves and roots demonstrated salt stress led to lignin accumulation, which indicated the enhanced lignin level could be an important mechanism for Eutrema responding to salt stress. Additionally, the differentially expressed genes (DEGs) assigned in the autophagy pathway including Vac8, Atg8, and Atg4, as well as DEGs enriched in the peroxisome pathway such as EsPEX7, EsCAT, and EsSOD2, were markedly induced in leaves and/or roots. In sugar metabolism pathways, the transcript levels of most DEGs associated with the synthesis of sucrose, trehalose, raffinose, and xylose were significantly enhanced. Furthermore, the expression of various stress-related transcription factor genes including WRKY, AP2/ERF-ERF, NAC, bZIP, MYB, C2H2, and HSF was strikingly improved. Collectively, the increased expression of biosynthesis genes of lignin and soluble sugars, as well as the genes in the autophagy and peroxisome pathways, suggested that Eutrema encountering salt shock possibly possess a higher capacity to adjust osmotically and facilitate water transport and scavenge reactive oxidative species and oxidative proteins to cope with the salt environment. Thus, this study provides a new insight for exploring the salt tolerance mechanism of halophytic Eutrema and discovering new gene targets for the genetic improvement of crops.

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