Genome-Wide Pathway Analysis of Microarray Data Identifies Risk Pathways Related to Salt Stress in Arabidopsis Thaliana

Interdisciplinary Sciences, Computational Life Sciences
Mingming ZhangImshik Lee

Abstract

Salt stress is a common abiotic stress in agricultural production, which is affected by multiple genes and environmental factors. Although transcriptome analyses have detected some salt-related genes in Arabidopsis thaliana, these genes are often major genes and can not adequately explain the molecular mechanism of salt tolerance. Some genes related to salt stress, but does not reach significant threshold in gene expression analysis (called modest effect genes), are often ignored. Therefore, we took full account of the role of modest effect genes and performed a pathway-based analysis of three gene microarray datasets to identify the pathways related to salt stress. We also compared these results with the pathways identified by major genes. Finally, three pathways were identified as salt-related pathways, some of which were previously reported to be related to salt stress in plants, while others are novel. These findings will help us to study the molecular mechanism of salt stress, but also provide a new perspective for the study of salt tolerance in Arabidopsis thaliana.

References

Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
Mar 6, 2008·Functional & Integrative Genomics·Kanako KawauraYasunari Ogihara
Jul 9, 2009·European Journal of Human Genetics : EJHG·Gang PengMomiao Xiong
Apr 7, 2012·Trends in Genetics : TIG·Vijay K RamananAndrew J Saykin
Jul 5, 2012·Bioinformatics·Liming LaiSteven X Ge
Apr 18, 2013·International Journal of Molecular Sciences·Yan DengStephen H Howell
May 2, 2013·Nucleic Acids Research·Xin YiZhen Su
May 15, 2013·International Journal of Molecular Sciences·Yujia LiuYucheng Wang
May 8, 2014·Journal of Experimental Botany·Annapurna Devi AlluSalma Balazadeh
May 22, 2016·Multiple Sclerosis : Clinical and Laboratory Research·Guiyou LiuJunwei Hao
Dec 8, 2016·Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology·Jiajia LiuFeihu Liu

❮ Previous
Next ❯

Citations

Dec 29, 2020·Phytomedicine : International Journal of Phytotherapy and Phytopharmacology·Yan-Ling QiaoXiao-Chi Ma

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.