Genome-Scale Transcriptomic Insights into Molecular Aspects of Abiotic Stress Responses in Chickpea

2014 ◽  
Vol 33 (3) ◽  
pp. 388-400 ◽  
Author(s):  
Rohini Garg ◽  
Annapurna Bhattacharjee ◽  
Mukesh Jain
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Molecular Aspects ◽  
Genome Scale

scholarly journals Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era

Plants ◽  
2020 ◽  
Vol 9 (5) ◽  
pp. 591
Author(s):  
Luca Ambrosino ◽  
Chiara Colantuono ◽  
Gianfranco Diretto ◽  
Alessia Fiore ◽  
Maria Luisa Chiusano
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Abiotic Stresses ◽  
Climate Changes ◽  
State Of The Art ◽  
Limiting Factors ◽  
Abiotic Stress Response ◽  
Data Production ◽  
Molecular Aspects ◽  
Plant Abiotic Stress

Abiotic stresses are among the principal limiting factors for productivity in agriculture. In the current era of continuous climate changes, the understanding of the molecular aspects involved in abiotic stress response in plants is a priority. The rise of -omics approaches provides key strategies to promote effective research in the field, facilitating the investigations from reference models to an increasing number of species, tolerant and sensitive genotypes. Integrated multilevel approaches, based on molecular investigations at genomics, transcriptomics, proteomics and metabolomics levels, are now feasible, expanding the opportunities to clarify key molecular aspects involved in responses to abiotic stresses. To this aim, bioinformatics has become fundamental for data production, mining and integration, and necessary for extracting valuable information and for comparative efforts, paving the way to the modeling of the involved processes. We provide here an overview of bioinformatics resources for research on plant abiotic stresses, describing collections from -omics efforts in the field, ranging from raw data to complete databases or platforms, highlighting opportunities and still open challenges in abiotic stress research based on -omics technologies.

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 Genome-Wide Identification and Expression Analysis of the Histone Deacetylase Gene Family in Wheat (Triticum aestivum L.)

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 19
Author(s):  
Peng Jin ◽  
Shiqi Gao ◽  
Long He ◽  
Miaoze Xu ◽  
Tianye Zhang ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Gene Family ◽  
Mosaic Virus ◽  
Stress Responses ◽  
Viral Infections ◽  
Phylogenetic Analyses ◽  
Plant Viruses ◽  
Gene Family Evolution ◽  
Yellow Mosaic Virus ◽  
Wheat Yellow Mosaic Virus

Histone acetylation is a dynamic modification process co-regulated by histone acetyltransferases (HATs) and histone deacetylases (HDACs). Although HDACs play vital roles in abiotic or biotic stress responses, their members in Triticumaestivum and their response to plant viruses remain unknown. Here, we identified and characterized 49 T. aestivumHDACs (TaHDACs) at the whole-genome level. Based on phylogenetic analyses, TaHDACs could be divided into 5 clades, and their protein spatial structure was integral and conserved. Chromosomal location and synteny analyses showed that TaHDACs were widely distributed on wheat chromosomes, and gene duplication has accelerated the TaHDAC gene family evolution. The cis-acting element analysis indicated that TaHDACs were involved in hormone response, light response, abiotic stress, growth, and development. Heatmaps analysis of RNA-sequencing data showed that TaHDAC genes were involved in biotic or abiotic stress response. Selected TaHDACs were differentially expressed in diverse tissues or under varying temperature conditions. All selected TaHDACs were significantly upregulated following infection with the barley stripe mosaic virus (BSMV), Chinese wheat mosaic virus (CWMV), and wheat yellow mosaic virus (WYMV), suggesting their involvement in response to viral infections. Furthermore, TaSRT1-silenced contributed to increasing wheat resistance against CWMV infection. In summary, these findings could help deepen the understanding of the structure and characteristics of the HDAC gene family in wheat and lay the foundation for exploring the function of TaHDACs in plants resistant to viral infections.

scholarly journals Genome-Wide Analysis of Poplar SQUAMOSA-Promoter-Binding Protein (SBP) Family under Salt Stress

Forests ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 413
Author(s):  
Qing Guo ◽  
Li Li ◽  
Kai Zhao ◽  
Wenjing Yao ◽  
Zihan Cheng ◽  
...  
Keyword(s):  
Salt Stress ◽  
Abiotic Stress ◽  
Stress Responses ◽  
Growth And Development ◽  
Binding Protein ◽  
Gene Segment ◽  
Gene Expression Pattern ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Squamosa Promoter Binding Protein

SQUAMOSA promoter binding protein (SBP) is a kind of plant-specific transcription factor, which plays a crucial role in stress responses and plant growth and development by activating and inhibiting the transcription of multiple target genes. In this study, a total of 30 SBP genes were identified from Populus trichocarpa genome and randomly distributed on 16 chromosomes in poplar. According to phylogenetic analysis, the PtSBPs can be divided into six categories, and 14 out of the genes belong to VI. Furthermore, the SBP genes in VI were proved to have a targeting relationship with miR156. The homeopathic element analysis showed that the promoters of poplar SBP genes mainly contain the elements involved in growth and development, abiotic stress and hormone response. In addition, there existed 10 gene segment duplication events in the SBP gene duplication analysis. Furthermore, there were four poplar and Arabidopsis orthologous gene pairs among the poplar SBP members. What is more, poplar SBP gene family has diverse gene expression pattern under salt stress. As many as nine SBP members were responding to high salt stress and six members possibly participated in growth development and abiotic stress. Yeast two-hybrid experiments indicated that PtSBPs can form heterodimers to interact in the transcriptional regulatory networks. The genome-wide analysis of poplar SBP family will contribute to function characterization of SBP genes in woody plants.

Genome-wide investigation of GRAM-domain containing genes in rice reveals their role in plant-rhizobacteria interactions and abiotic stress responses

2020 ◽  
Vol 156 ◽  
pp. 1243-1257 ◽  
Author(s):  
Shalini Tiwari ◽  
Shweta Shweta ◽  
Manoj Prasad ◽  
Charu Lata
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Genome Wide

scholarly journals The Role and Regulation of ABI5 (ABA-Insensitive 5) in Plant Development, Abiotic Stress Responses and Phytohormone Crosstalk

2016 ◽  
Vol 7 ◽  
Author(s):  
Anna Skubacz ◽  
Agata Daszkowska-Golec ◽  
Iwona Szarejko
Keyword(s):  
Abiotic Stress ◽  
Plant Development ◽  
Stress Responses ◽  
Aba Insensitive

scholarly journals Involvement of Histone Modifications in Plant Abiotic Stress Responses

2013 ◽  
Vol 55 (10) ◽  
pp. 892-901 ◽  
Author(s):  
Lianyu Yuan ◽  
Xuncheng Liu ◽  
Ming Luo ◽  
Songguang Yang ◽  
Keqiang Wu
Keyword(s):  
Abiotic Stress ◽  
Histone Modifications ◽  
Stress Responses ◽  
Plant Abiotic Stress

Reactive Oxygen, Nitrogen, Carbonyl and Sulfur Species and Their Roles in Plant Abiotic Stress Responses and Tolerance

2021 ◽  
Author(s):  
Xianrong Zhou ◽  
Shrushti Joshi ◽  
Suraj Patil ◽  
Tushar Khare ◽  
Vinay Kumar
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Reactive Oxygen ◽  
Sulfur Species ◽  
Plant Abiotic Stress

scholarly journals Isolation of a novel leucine-rich repeat receptor-like kinase (OsLRR2) gene from rice and analysis of its relation to abiotic stress responses

2016 ◽  
Vol 31 (1) ◽  
pp. 51-57 ◽  
Author(s):  
Yongrong Liao ◽  
Changqiong Hu ◽  
Xuewei Zhang ◽  
Xufeng Cao ◽  
Zhengjun Xu ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Stress Responses ◽  
Leucine Rich Repeat ◽  
Receptor Like Kinase

scholarly journals Abiotic stress responses promote Potato virus A infection in Nicotiana benthamiana

2012 ◽  
Vol 13 (7) ◽  
pp. 775-784 ◽  
Author(s):  
TAINA SUNTIO ◽  
KRISTIINA MÄKINEN
Keyword(s):  
Abiotic Stress ◽  
Potato Virus ◽  
Stress Responses ◽  
Nicotiana Benthamiana ◽  
Potato Virus A
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