scholarly journals The use of metabolomics to dissect plant responses to abiotic stresses

2012 ◽  
Vol 69 (19) ◽  
pp. 3225-3243 ◽  
Author(s):  
Toshihiro Obata ◽  
Alisdair R. Fernie
Keyword(s):  
Abiotic Stresses ◽  
Plant Responses

scholarly journals Metabolomics-Guided Elucidation of Plant Abiotic Stress Responses in the 4IR Era: An Overview

Metabolites ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 445
Author(s):  
Morena M. Tinte ◽  
Kekeletso H. Chele ◽  
Justin J. J. van der Hooft ◽  
Fidele Tugizimana
Keyword(s):  
Machine Learning ◽  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Industrial Revolution ◽  
Chemical Space ◽  
Big Data Analytics ◽  
Plant Responses ◽  
Next Generation ◽  
Computational Tools

Plants are constantly challenged by changing environmental conditions that include abiotic stresses. These are limiting their development and productivity and are subsequently threatening our food security, especially when considering the pressure of the increasing global population. Thus, there is an urgent need for the next generation of crops with high productivity and resilience to climate change. The dawn of a new era characterized by the emergence of fourth industrial revolution (4IR) technologies has redefined the ideological boundaries of research and applications in plant sciences. Recent technological advances and machine learning (ML)-based computational tools and omics data analysis approaches are allowing scientists to derive comprehensive metabolic descriptions and models for the target plant species under specific conditions. Such accurate metabolic descriptions are imperatively essential for devising a roadmap for the next generation of crops that are resilient to environmental deterioration. By synthesizing the recent literature and collating data on metabolomics studies on plant responses to abiotic stresses, in the context of the 4IR era, we point out the opportunities and challenges offered by omics science, analytical intelligence, computational tools and big data analytics. Specifically, we highlight technological advancements in (plant) metabolomics workflows and the use of machine learning and computational tools to decipher the dynamics in the chemical space that define plant responses to abiotic stress conditions.

scholarly journals Plant Metabolomics: A Characterisation of Plant Responses to Abiotic Stresses

10.5772/23844 ◽  
2011 ◽  
Author(s):  
Annamaria Genga ◽  
Monica Mattana ◽  
Immacolata Coraggio ◽  
Franca Locatelli ◽  
Pietro Piffanelli ◽  
...  
Keyword(s):  
Abiotic Stresses ◽  
Plant Responses ◽  
Plant Metabolomics

Monovalent cation/proton antiporters (CPAs) in moso bamboo (Phyllostachys edulis): genome-wide identification, molecular evolutionary and functional description

2020 ◽  
Author(s):  
Lin Wu ◽  
Min Wu ◽  
Huanlong Liu ◽  
Yameng Gao ◽  
Feng Chen ◽  
...  
Keyword(s):  
Abiotic Stresses ◽  
Monovalent Cation ◽  
Potential Interaction ◽  
Moso Bamboo ◽  
Plant Responses ◽  
Cis Acting ◽  
Biotic Stresses ◽  
Genes Encoding ◽  
Protein Functions ◽  
Ppi Prediction

Abstract Background: Plant monovalent cation/proton enantiomer (CPA) family is a type of transmembrane transporters that plays an important role in resistance to plant abiotic stresses such as salt, drought and osmotic stress. Results: In this study, 32 CPA family members were firstly identified from moso bamboo, and divided into two subfamilies, including 8 in CPA1 and 24 in CPA2. Members of the same group shared similar structures and subcellular localization predictions. Gene duplication analysis found that the expansion of the CPA genes in moso bamboo may depend on whole genome duplication (WGD) event approximately 11.18 million years ago (MYA). Gene Ontology (GO) analysis revealed that PheCPA proteins are ion transporter localized on the membrane, and the post-translational modifications (PTMs) prediction indicated there are many PTMs sites may be involved in regulating CPA protein functions. Promoter analysis revealed various cis-acting elements related to abiotic and biotic stresses, plant growth and development and phytohormone responses. The significant change of expression levels of eight PheNHXs, which belong to CPA1, under the treatment of ABA, NaCl and PEG, suggesting that they may have played an important role in moso bamboo response to these abiotic stresses. Additionally, PPI prediction reveals potential interaction proteins of PheNHX subfamily members. Conclusions: The results suggested that the CPA family may plays an important role in plant responses to stress conditions. The comprehensive identification and analysis of PheCPAs indicated that PheCPAs, particularly those genes encoding PheNHXs, might serve as valuable genetic resources for the improvement of moso bamboo growth and resistance to abiotic stress.

scholarly journals Depicting the Core Transcriptome Modulating Multiple Abiotic Stresses Responses in Sesame (Sesamum indicum L.)

2019 ◽  
Vol 20 (16) ◽  
pp. 3930 ◽  
Author(s):  
Komivi Dossa ◽  
Marie A. Mmadi ◽  
Rong Zhou ◽  
Tianyuan Zhang ◽  
Ruqi Su ◽  
...  
Keyword(s):  
Abiotic Stresses ◽  
Meta Analysis ◽  
Plant Responses ◽  
Proof Of Concept ◽  
Rna Seq ◽  
Wild Type ◽  
Salt Treatment ◽  
Hub Genes ◽  
Hub Gene ◽  
The Core

Sesame is a source of a healthy vegetable oil, attracting a growing interest worldwide. Abiotic stresses have devastating effects on sesame yield; hence, studies have been performed to understand sesame molecular responses to abiotic stresses, but the core abiotic stress-responsive genes (CARG) that the plant reuses in response to an array of environmental stresses are unknown. We performed a meta-analysis of 72 RNA-Seq datasets from drought, waterlogging, salt and osmotic stresses and identified 543 genes constantly and differentially expressed in response to all stresses, representing the sesame CARG. Weighted gene co-expression network analysis of the CARG revealed three functional modules controlled by key transcription factors. Except for salt stress, the modules were positively correlated with the abiotic stresses. Network topology of the modules showed several hub genes predicted to play prominent functions. As proof of concept, we generated over-expressing Arabidopsis lines with hub and non-hub genes. Transgenic plants performed better under drought, waterlogging, and osmotic stresses than the wild-type plants but did not tolerate the salt treatment. As expected, the hub gene was significantly more potent than the non-hub gene. Overall, we discovered several novel candidate genes, which will fuel investigations on plant responses to multiple abiotic stresses.

scholarly journals Infection with an asymptomatic virus in rice results in a delayed drought response

2020 ◽  
Vol 47 (3) ◽  
pp. 239 ◽  
Author(s):  
Jaymee R. Encabo ◽  
Reena Jesusa A. Macalalad-Cabral ◽  
Jerlie Mhay K. Matres ◽  
Sapphire Charlene Thea P. Coronejo ◽  
Gilda B. Jonson ◽  
...  
Keyword(s):  
Drought Stress ◽  
Abiotic Stresses ◽  
Water Status ◽  
Drought Response ◽  
Plant Responses ◽  
Leaf Rolling ◽  
Rice Tungro Spherical Virus ◽  
Biotic And Abiotic Stresses ◽  
Rice Plants ◽  
Increased Susceptibility

Infection of viruses in plants often modifies plant responses to biotic and abiotic stresses. In the present study we examined the effects of Rice tungro spherical virus (RTSV) infection on drought response in rice. RTSV infection delayed the onset of leaf rolling by 1–2 days. During the delay in drought response, plants infected with RTSV showed higher stomatal conductance and less negative leaf water potential under drought than those of uninfected plants, indicating that RTSV-infected leaves were more hydrated. Other growth and physiological traits of plants under drought were not altered by infection with RTSV. An expression analysis of genes for drought response-related transcription factors showed that the expression of OsNAC6 and OsDREB2a was less activated by drought in RTSV-infected plants than in uninfected plants, further suggesting improved water status of the plants due to RTSV infection. RTSV accumulated more in plants under drought than in well-watered plants, indicating the increased susceptibility of rice plants to RTSV infection by drought. Collectively, these results indicated that infection with RTSV can transiently mitigate the influence of drought stress on rice plants by increasing leaf hydration, while drought increased the susceptibility of rice plants to RTSV.

scholarly journals Involvement of calmodulin and calmodulin-like proteins in plant responses to abiotic stresses

2015 ◽  
Vol 6 ◽  
Author(s):  
Houqing Zeng ◽  
Luqin Xu ◽  
Amarjeet Singh ◽  
Huizhong Wang ◽  
Liqun Du ◽  
...  
Keyword(s):  
Abiotic Stresses ◽  
Plant Responses

The role of C2H2 zinc finger proteins in plant responses to abiotic stresses

2018 ◽  
Vol 165 (4) ◽  
pp. 690-700 ◽  
Author(s):  
Ke Wang ◽  
Yanfei Ding ◽  
Chong Cai ◽  
Zhixiang Chen ◽  
Cheng Zhu
Keyword(s):  
Zinc Finger ◽  
Abiotic Stresses ◽  
Zinc Finger Proteins ◽  
Plant Responses ◽  
C2h2 Zinc Finger

scholarly journals Effects of sub-lethal single, simultaneous, and sequential abiotic stresses on phenotypic traits of Arabidopsis thaliana

2021 ◽  
Author(s):  
Alejandro Morales ◽  
Hugo J de Boer ◽  
Jacob C Douma ◽  
Saskia Elsen ◽  
Sophie Engels ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
High Temperature ◽  
Abiotic Stresses ◽  
Developmental Stages ◽  
Plant Traits ◽  
General Pattern ◽  
Phenotypic Traits ◽  
Plant Responses ◽  
Starting Point ◽  
Stress Combinations

Plant responses to abiotic stresses are complex and dynamic, and involve changes in different traits, either as the direct consequence of the stress, or as an active acclimatory response. Abiotic stresses frequently occur simultaneously or in succession, rather than in isolation. Despite this, most studies have focused on a single stress and single or few plant traits. To address this gap, our study comprehensively and categorically quantified the individual and combined effects of three major abiotic stresses associated with climate change (flooding, progressive drought and high temperature) on 12 phenotypic traits related to morphology, development, growth and fitness, at different developmental stages in four Arabidopsis thaliana accessions. Combined sub-lethal stresses were applied either simultaneously (high temperature and drought) or sequentially (flooding followed by drought). In total, we analyzed the phenotypic responses of 1782 individuals across these stresses and different developmental stages. Overall, abiotic stresses and their combinations resulted in distinct patterns of effects across the traits analyzed, with both quantitative and qualitative differences across accessions. Stress combinations had additive effects on some traits, whereas clear positive and negative interactions were observed for other traits: 9 out of 12 traits for high temperature and drought, 6 out of 12 traits for post-submergence and drought showed significant interactions. In many cases where the stresses interacted, the strength of interactions varied across accessions. Hence, our results indicated a general pattern of response in most phenotypic traits to the different stresses and stress combinations, but it also indicated a natural genetic variation in the strength of these responses. Overall, our study provides a rich characterization of trait responses of Arabidopsis plants to sub-lethal abiotic stresses at the phenotypic level and can serve as starting point for further in-depth physiological research and plant modelling efforts.

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