Plant Genes for Abiotic Stress

Ciarmiello, Loredana F.; Woodrow, Pasqualina; Fuggi, Amodio; Pontecorvo, Giovanni; Carillo, Petronia

doi:10.5772/22465

Cited by 14 publications

(3 citation statements)

References 136 publications

(100 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…MEKK1 (MAP kinase kinase 1) activates MKK2 (Mitogen activated protein kinase kinase2) by phosphorylation and then MKK2 phosphorylates MPK4/6 under cold stress [32]. HOS1 (High Expression of Osmotically Responsive 1), an ubiquitin E3 ligase, reduces expression of ICE1 (Inducer of CBP Expression 1) target genes by ubiquitinating ICE1 [33], which is a basic helix-loop-helix transcription factor could regulate the expression of MYB15 and CBFs in low temperature signaling pathway [33].…”

Section: Resultsmentioning

confidence: 99%

HTRgene: a computational method to perform the integrated analysis of multiple heterogeneous time-series data: case analysis of cold and heat stress response signaling genes in Arabidopsis

et al. 2019

View full text Add to dashboard Cite

BackgroundIntegrated analysis that uses multiple sample gene expression data measured under the same stress can detect stress response genes more accurately than analysis of individual sample data. However, the integrated analysis is challenging since experimental conditions (strength of stress and the number of time points) are heterogeneous across multiple samples.ResultsHTRgene is a computational method to perform the integrated analysis of multiple heterogeneous time-series data measured under the same stress condition. The goal of HTRgene is to identify “response order preserving DEGs” that are defined as genes not only which are differentially expressed but also whose response order is preserved across multiple samples. The utility of HTRgene was demonstrated using 28 and 24 time-series sample gene expression data measured under cold and heat stress in Arabidopsis. HTRgene analysis successfully reproduced known biological mechanisms of cold and heat stress in Arabidopsis. Also, HTRgene showed higher accuracy in detecting the documented stress response genes than existing tools.ConclusionsHTRgene, a method to find the ordering of response time of genes that are commonly observed among multiple time-series samples, successfully integrated multiple heterogeneous time-series gene expression datasets. It can be applied to many research problems related to the integration of time series data analysis.

show abstract

Section: Resultsmentioning

confidence: 99%

HTRgene: a computational method to perform the integrated analysis of multiple heterogeneous time-series data: case analysis of cold and heat stress response signaling genes in Arabidopsis

et al. 2019

View full text Add to dashboard Cite

show abstract

“…In Arabidopsis 14 stress‐inducible miRNAs were detected, 10 of which were differentially regulated by 4°C treatments. Combining expression pattern analysis with identification of cis ‐elements in their promoters, miR165, miR319, miR156, miR168, miR171 and miR396 were classified as the cold‐responsive miRNAs in A. thaliana (Ciarmiello et al, 2011; Kurikesu et al, 2018). Indeed, miR319 was shown to be induced by cold but not by salinity, dehydration or ABA (Sunkar & Zhu, 2004).…”

Section: Molecular Mechanisms Underlying Cold Stress and Developmenta...mentioning

confidence: 99%

Is winter coming? Impact of the changing climate on plant responses to cold temperature

Larran

Pajoro

Qüesta

2023

Plant Cell & Environment

View full text Add to dashboard Cite

Climate change is causing alterations in annual temperature regimes worldwide. Important aspects of this include the reduction of winter chilling temperatures as well as the occurrence of unpredicted frosts, both significantly affecting plant growth and yields. Recent studies advanced the knowledge of the mechanisms underlying cold responses and tolerance in the model plant Arabidopsis thaliana. However, how these cold‐responsive pathways will readjust to ongoing seasonal temperature variation caused by global warming remains an open question. In this review, we highlight the plant developmental programmes that depend on cold temperature. We focus on the molecular mechanisms that plants have evolved to adjust their development and stress responses upon exposure to cold. Covering both genetic and epigenetic aspects, we present the latest insights into how alternative splicing, noncoding RNAs and the formation of biomolecular condensates play key roles in the regulation of cold responses. We conclude by commenting on attractive targets to accelerate the breeding of increased cold tolerance, bringing up biotechnological tools that might assist in overcoming current limitations. Our aim is to guide the reflection on the current agricultural challenges imposed by a changing climate and to provide useful information for improving plant resilience to unpredictable cold regimes.

show abstract

“…Besides functional genes, regulatory genes are also critical for drought tolerance. These encodes various regulatory proteins such as transcriptional factors (TFs), protein kinases and protein phosphatases -involved in regulating signal transduction and gene expression in response to stress [57,58]. Several TFs that regulate a large spectrum of downstream stress-responsive genes and provide adaptive response under drought stress have been identified and reviewed, including myeloblastosis (MYB), abscisic acid responsive elements binding factor (ABF), ABRE binding (AREB), dehydration responsive element binding (DREB), C-repeat binding factor (CBF), [NAM, ATAF1/2, and CUC2 containing proteins] (NAC) and WRKYs [59][60][61][62][63].…”

Section: Plants Drought Stress Responses and Resistance Mechanismsmentioning

confidence: 99%

Adapting Cereal Grain Crops to Drought Stress: 2020 and Beyond

Zenda¹,

Liu²,

Duan³

2021

Abiotic Stress in Plants

View full text Add to dashboard Cite

Among other environmental instabilities, drought stress is the primary limitation to cereal crops growth, development and productivity. In the context of continuing global climate change, breeding of drought resistant crop cultivars is the most economical, effective and sustainable strategy for adapting the crop production system and ensuring food security for the growing human population. Additionally, there is need for improving management practices. Whereas conventional breeding has sustained crop productivity gains in the past century, modern technological advancements have revolutionized our identification of important drought tolerance genes and underlying mechanisms, and accelerated new cultivar development. Large-scale high throughput sequencing, phenotyping, 'omics' and systems biology, as well as marker assisted and quantitative trait loci mapping based breeding approaches have offered significant insights into crop drought stress tolerance and provided some new tools for crop improvement. Despite this significant progress in elucidating the mechanisms underlying drought tolerance, considerable challenges remain and our understanding of the crop drought tolerance mechanisms is still abstract. In this chapter, therefore, we highlight current progress in the identification of drought tolerance genes and underlying mechanisms, as well as their practical applications. We then offer a holistic approach for cereal crops adaptation to future climate change exacerbated drought stress.

show abstract

Plant Genes for Abiotic Stress

Cited by 14 publications

References 136 publications

HTRgene: a computational method to perform the integrated analysis of multiple heterogeneous time-series data: case analysis of cold and heat stress response signaling genes in Arabidopsis

HTRgene: a computational method to perform the integrated analysis of multiple heterogeneous time-series data: case analysis of cold and heat stress response signaling genes in Arabidopsis

Is winter coming? Impact of the changing climate on plant responses to cold temperature

Adapting Cereal Grain Crops to Drought Stress: 2020 and Beyond

Contact Info

Product

Resources

About