scholarly journals PncStress: a manually curated database of experimentally validated stress-responsive non-coding RNAs in plants

Database ◽  
2020 ◽  
Vol 2020 ◽  
Author(s):  
Wenyi Wu ◽  
Yan Wu ◽  
Dahui Hu ◽  
Yincong Zhou ◽  
Yanshi Hu ◽  
...  
Keyword(s):  
Stress Responses ◽  
Abiotic Stresses ◽  
Plant Stress ◽  
Biological Information ◽  
Network Visualization ◽  
Circular Rnas ◽  
Biological Processes ◽  
Current Version ◽  
Plant Stress Responses ◽  
Non Coding Rnas

Abstract Non-coding RNAs (ncRNAs) are recognized as key regulatory molecules in many biological processes. Accumulating evidence indicates that ncRNA-related mechanisms play important roles in plant stress responses. Although abundant plant stress-responsive ncRNAs have been identified, these experimentally validated results have not been gathered into a single public domain archive. Therefore, we established PncStress by curating experimentally validated stress-responsive ncRNAs in plants, including microRNAs, long non-coding RNAs and circular RNAs. The current version of PncStress contains 4227 entries from 114 plants covering 48 biotic and 91 abiotic stresses. For each entry, PncStress has biological information and network visualization. Serving as a manually curated database, PncStress will become a valuable resource in support of plant stress response research.

scholarly journals Perturbations of the AMI1 IAM-amidohydrolase expression trigger plant stress responses in Arabidopsis thaliana

2020 ◽  
Author(s):  
Marta-Marina Pérez-Alonso ◽  
Paloma Ortiz-García ◽  
José Moya-Cuevas ◽  
Thomas Lehmann ◽  
Beatriz Sánchez-Parra ◽  
...  
Keyword(s):  
Plant Growth ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Plant Stress ◽  
Physiological Role ◽  
Auxin Homeostasis ◽  
Plant Stress Responses ◽  
Adaptive Processes ◽  
Aba Biosynthesis

ABSTRACTThe evolutionary success of plants relies to a large extent on their extraordinary ability to adapt to changes in their environment. These adaptations require that plants balance their growth with their stress responses. Plant hormones are crucial mediators orchestrating the underlying adaptive processes. However, whether and how the growth-related hormone auxin and the stress-related hormones jasmonic acid (JA), salicylic acid, and abscisic acid (ABA) are coordinated remains largely elusive. Here, we analyze the physiological role of AMIDASE 1 (AMI1) in plant growth and its possible connection to plant adaptations to abiotic stresses. AMI1 contributes to cellular auxin homeostasis by catalyzing the conversion of indole-acetamide into the major plant auxin indole-3-acetic acid. Functional impairment of AMI1 increases the plants’ stress status rendering mutant plants more susceptible to abiotic stresses. Transcriptomic analysis of ami1 mutants disclosed the reprogramming of a considerable number of stress-related genes, including JA and ABA biosynthesis genes. The ami1 mutants exhibit only moderately repressed growth, but an enhanced ABA accumulation, which suggests a role for AMI1 in the crosstalk between auxin and ABA. Altogether, our results suggest that AMI1 is involved in coordinating the trade-off between plant growth and stress responses, balancing auxin with ABA homeostasis.HIGHLIGHTThe IAM amidohydrolase AMI1 catalyzes the conversion of IAM into IAA in vivo. Expression of AMI1 is specifically repressed by osmotic stress conditions, which triggers ABA biosynthesis through the induction of NCED3, thereby linking auxin homeostasis with plant stress responses.

scholarly journals Characterization and expression analysis of growth regulating factor (GRF) family genes in cucumber

2018 ◽  
Vol 70 (4) ◽  
pp. 629-637 ◽  
Author(s):  
Yong Zhou ◽  
Lingli Ge ◽  
Guanghua Li ◽  
Lunwei Jiang ◽  
Yingui Yang
Keyword(s):  
Stress Responses ◽  
Expression Patterns ◽  
Plant Stress ◽  
Biological Processes ◽  
Transcriptome Data ◽  
Conserved Domains ◽  
Plant Stress Responses ◽  
Salt And Drought Stress ◽  
Profiling Analysis ◽  
Different Tissues

The growth regulating factor (GRF) family is a conserved class of transcription factors involved in various biological processes in plants. However, there have been only a few studies of the GRF family genes in cucumber, Cucumis sativus (Cs). In this study, we identified and characterized 8 CsGRF genes in cucumber. Two highly conserved domains, QLQ and WRC, were identified to be present in all CsGRF proteins. In addition, three less conserved domains (FFD, TQL, and GGPL) were also detected in some CsGRF members. Based on phylogenetic analysis, the GRF genes from cucumber, Arabidopsis, tomato, rice and maize could be classified into 10 groups, and CsGRFs were clustered closer with the GRF genes from dicots (Arabidopsis and tomato) than with those from monocots (rice and maize). Promoter analysis revealed that the CsGRF genes were involved in cucumber growth and development as well as in responses to various hormones and stresses. Transcriptome data showed that the CsGRF genes have distinct expression patterns in different tissues, especially in ovaries and leaves. Expression profiling analysis indicated that all CsGRF genes were responsive to salt and drought stress treatments. These results demonstrate that the cucumber GRF gene family may function in organ development and plant stress responses.

scholarly journals Endogenous indole-3-acetamide levels contribute to the crosstalk between auxin and abscisic acid, and trigger plant stress responses in Arabidopsis

2020 ◽  
Author(s):  
Marta-Marina Pérez-Alonso ◽  
Paloma Ortiz-García ◽  
José Moya-Cuevas ◽  
Thomas Lehmann ◽  
Beatriz Sánchez-Parra ◽  
...  
Keyword(s):  
Abscisic Acid ◽  
Plant Growth ◽  
Jasmonic Acid ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Plant Stress ◽  
Physiological Role ◽  
Plant Stress Responses ◽  
Adaptive Processes ◽  
Stress Related Genes

Abstract The evolutionary success of plants relies to a large extent on their extraordinary ability to adapt to changes in their environment. These adaptations require that plants balance their growth with their stress responses. Plant hormones are crucial mediators orchestrating the underlying adaptive processes. However, whether and how the growth-related hormone auxin and the stress-related hormones jasmonic acid, salicylic acid, and abscisic acid (ABA) are coordinated remains largely elusive. Here, we analyse the physiological role of AMIDASE 1 (AMI1) in Arabidopsis plant growth and its possible connection to plant adaptations to abiotic stresses. AMI1 contributes to cellular auxin homeostasis by catalysing the conversion of indole-acetamide into the major plant auxin indole-3-acetic acid. Functional impairment of AMI1 increases the plant’s stress status rendering mutant plants more susceptible to abiotic stresses. Transcriptomic analysis of ami1 mutants disclosed the reprogramming of a considerable number of stress-related genes, including jasmonic acid and ABA biosynthesis genes. The ami1 mutants exhibit only moderately repressed growth but an enhanced ABA accumulation, which suggests a role for AMI1 in the crosstalk between auxin and ABA. Altogether, our results suggest that AMI1 is involved in coordinating the trade-off between plant growth and stress responses, balancing auxin and ABA homeostasis.

scholarly journals Function and Mechanism of Jasmonic Acid in Plant Responses to Abiotic and Biotic Stresses

2021 ◽  
Vol 22 (16) ◽  
pp. 8568
Author(s):  
Yun Wang ◽  
Salma Mostafa ◽  
Wen Zeng ◽  
Biao Jin
Keyword(s):  
Jasmonic Acid ◽  
Plant Hormones ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Plant Stress ◽  
Plant Responses ◽  
Biotic And Abiotic Stresses ◽  
Research Attention ◽  
Biotic Stresses ◽  
Plant Stress Responses

As sessile organisms, plants must tolerate various environmental stresses. Plant hormones play vital roles in plant responses to biotic and abiotic stresses. Among these hormones, jasmonic acid (JA) and its precursors and derivatives (jasmonates, JAs) play important roles in the mediation of plant responses and defenses to biotic and abiotic stresses and have received extensive research attention. Although some reviews of JAs are available, this review focuses on JAs in the regulation of plant stress responses, as well as JA synthesis, metabolism, and signaling pathways. We summarize recent progress in clarifying the functions and mechanisms of JAs in plant responses to abiotic stresses (drought, cold, salt, heat, and heavy metal toxicity) and biotic stresses (pathogen, insect, and herbivore). Meanwhile, the crosstalk of JA with various other plant hormones regulates the balance between plant growth and defense. Therefore, we review the crosstalk of JAs with other phytohormones, including auxin, gibberellic acid, salicylic acid, brassinosteroid, ethylene, and abscisic acid. Finally, we discuss current issues and future opportunities in research into JAs in plant stress responses.

scholarly journals Metabolomics and biochemical approaches link salicylic acid biosynthesis to cyanogenesis in peach plants

2017 ◽  
Author(s):  
Diaz-Vivancos Pedro ◽  
Bernal-Vicente Agustina ◽  
Cantabella Daniel ◽  
Petri Cesar ◽  
Hernández José Antonio
Keyword(s):  
Salicylic Acid ◽  
Stress Responses ◽  
Biosynthetic Pathway ◽  
Plant Stress ◽  
Stress Conditions ◽  
Plum Pox Virus ◽  
Biological Processes ◽  
Cyanogenic Glycosides ◽  
Partial Protection ◽  
Plant Stress Responses

HighlightMandelonitrile, and hence cyanogenic glycosides turnover, is involved in salicylic acid (SA) biosynthesis in peach plants under control and stress conditions. A third pathway for SA synthesis in peach is proposed.AbstractDespite the long-established importance of salicylic acid (SA) in plant stress responses and other biological processes, its biosynthetic pathway has not been fully characterized. The proposed SA synthesis originates from chorismate by two distinct pathways: isochorismate and penhylalanine (Phe) ammonia-lyase (PAL) pathways. Cyanogenesis is the process related to the release of hydrogen cyanide from endogenous cyanogenic glycosides (CNglcs), and it has been linked to plant plasticity improvement. To date, however, no relationship has been suggested between both pathways. In this work, by metabolomics and biochemical approaches (including [13C]-labelled compounds), we provide evidences showing that CNglcs turnover is involved, at least in part, in SA biosynthesis in peach plants under control and stress conditions.The main CNglcs in peach are prunasin and amygdalin, with mandelonitrile (MD), synthesized from Phe, controlling their turnover. In peach plants MD is at the hub of the suggested new SA biosynthetic pathway and CNglcs turnover, regulating both the amygdalin and SA biosynthesis. MD-treated peach plants displayed increased SA levels via benzoic acid (SA precursor). In addition, MD also provides partial protection against Plum pox virus infection in peach seedlings. Thus, we proposed a third pathway, alternative to the PAL pathway, for SA synthesis in peach plants.

Abiotic Stress Tolerance in Soybean : Regulated by ncRNA

2016 ◽  
Vol 3 (1) ◽  
Author(s):  
YASIN JESHIMA KHAN ◽  
HUSNARA Tyagi ◽  
Anil kumar Singh ◽  
Santosh kumar. Magadum
Keyword(s):  
Abiotic Stresses ◽  
Target Genes ◽  
Abiotic Stress Tolerance ◽  
Crop Improvement ◽  
Vital Role ◽  
Grain Legume ◽  
Biological Processes ◽  
Small Interfering Rnas ◽  
Cellular Environment ◽  
Non Coding Rnas

Plants respond through a cascade of reactions resulting in varied cellular environment leading to alterations in the patterns of protein expression resulting in phonotypic changes. Single cell genomics and global proteomics came out to be powerful tools and efficient techniques in studying stress tolerant plants. Non-coding RNAs are a distinct class of regulatory RNAs in plants and animals that control a variety of biological processes. Small ncRNAs play a vital role in post transcriptional gene regulation by either translational repression or by inducing mRNA cleavage. The major classes of small RNAs include microRNAs (miRNAs) and small interfering RNAs (siRNAs), which differ in their biogenesis. miRNAs control the expression of cognate target genes by binding to complementary sequences, resulting in cleavage or translational inhibition of the target RNAs. siRNAs too have a similar structure, function, and biogenesis like miRNAs but are derived from long double-stranded RNAs and can often direct DNA methylation at target sequences.In this review, we focus on the involvement of ncRNAs in comabting abiotic stresses of soybean. This review emphasis on previously known miRNAs as they play important role in several abiotic stresses like drought, salinity, chilling and heat stress by their diverse roles in mediating biological processes like gene expression, chromatin formation, defense of genome against invading viruses. This review attempts to elucidate the various kinds of non-coding RNAs explored, their discovery, biogenesis, functions, and response for different type of abiotic stresses and future aspects for crop improvement in the context of soybean, a representative grain legume.

scholarly journals Versatile Physiological Functions of Plant GSK3-Like Kinases

Genes ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 697
Author(s):  
Juan Mao ◽  
Wenxin Li ◽  
Jing Liu ◽  
Jianming Li
Keyword(s):  
Stress Responses ◽  
Glycogen Synthase ◽  
Plant Stress ◽  
Normal Growth ◽  
Growth Conditions ◽  
Genetic Studies ◽  
Physiological Functions ◽  
Environmental Signals ◽  
Plant Stress Responses ◽  
Diverse Plant

The plant glycogen synthase kinase 3 (GSK3)-like kinases are highly conserved protein serine/threonine kinases that are grouped into four subfamilies. Similar to their mammalian homologs, these kinases are constitutively active under normal growth conditions but become inactivated in response to diverse developmental and environmental signals. Since their initial discoveries in the early 1990s, many biochemical and genetic studies were performed to investigate their physiological functions in various plant species. These studies have demonstrated that the plant GSK3-like kinases are multifunctional kinases involved not only in a wide variety of plant growth and developmental processes but also in diverse plant stress responses. Here we summarize our current understanding of the versatile physiological functions of the plant GSK3-like kinases along with their confirmed and potential substrates.

scholarly journals OsNAC45 is Involved in ABA Response and Salt Tolerance in Rice

Rice ◽  
2020 ◽  
Vol 13 (1) ◽  
Author(s):  
Xiang Zhang ◽  
Yan Long ◽  
Jingjing Huang ◽  
Jixing Xia
Keyword(s):  
Transcription Factors ◽  
Salt Stress ◽  
Salt Tolerance ◽  
Stress Responses ◽  
Crop Yields ◽  
Plant Stress ◽  
Root Cells ◽  
Nac Transcription Factors ◽  
Rice Plants ◽  
Plant Stress Responses

Abstract Background Salt stress threatens crop yields all over the world. Many NAC transcription factors have been reported to be involved in different abiotic stress responses, but it remains unclear how loss of these transcription factors alters the transcriptomes of plants. Previous reports have demonstrated that overexpression of OsNAC45 enhances salt and drought tolerance in rice, and that OsNAC45 may regulate the expression of two specific genes, OsPM1 and OsLEA3–1. Results Here, we found that ABA repressed, and NaCl promoted, the expression of OsNAC45 in roots. Immunostaining showed that OsNAC45 was localized in all root cells and was mainly expressed in the stele. Loss of OsNAC45 decreased the sensitivity of rice plants to ABA and over-expressing this gene had the opposite effect, which demonstrated that OsNAC45 played an important role during ABA signal responses. Knockout of OsNAC45 also resulted in more ROS accumulation in roots and increased sensitivity of rice to salt stress. Transcriptome sequencing assay found that thousands of genes were differently expressed in OsNAC45-knockout plants. Most of the down-regulated genes participated in plant stress responses. Quantitative real time RT-PCR suggested that seven genes may be regulated by OsNAC45 including OsCYP89G1, OsDREB1F, OsEREBP2, OsERF104, OsPM1, OsSAMDC2, and OsSIK1. Conclusions These results indicate that OsNAC45 plays vital roles in ABA signal responses and salt tolerance in rice. Further characterization of this gene may help us understand ABA signal pathway and breed rice plants that are more tolerant to salt stress.

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