Biocomputional construction of a gene network under acid stress in Synechocystis sp. PCC 6803 |
| |
| Affiliation: | 3. Botanical Institute, Christian-Albrechts-University, 24118 Kiel, Germany;4. Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287;5. School of Life Sciences, Arizona State University, Tempe, Arizona 85287;1. Institut Pasteur, Unité Plasticité du Génome Bactérien, Département Génomes et Génétique, 25 rue du docteur Roux, 75015 Paris, France;2. CNRS, UMR3525, Paris, France;1. School of Environmental Science and Engineering, Shandong University, Jinan, China;2. College of Biological and Brewing Engineering, Taishan University, Taian, China;3. Shandong Provincial Engineering Centre on Environmental Science and Technology, Shandong Province, Jinan, China;1. Soil Microbiology Department, Soils, Water and Environment Research Institute, Agricultural Research Center, Giza, P.O. 175, El‒Orman, Egypt;2. Bioproducts Research Chair, Zoology Department, College of Science, King Saud University, Riyadh, Saudi Arabia;3. Botany and Microbiology Department, Faculty of Science, Beni-Suef University, Beni-Suef, Egypt;4. Microbiology and Botany Department, Faculty of Science, Suez Canal University, Ismailia, P.O. Box 41522, Egypt;5. Research Institute of Medicinal and Aromatic Plants (RIMAP), Beni-Suef University, Beni, Suef City, Egypt;1. Key Laboratory of Microorganism Application and Risk Control (MARC) of Shenzhen, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, China;2. State Key Laboratory on Marine Pollution, Department of Biology and Chemistry, City University of Hong Kong, 83 Tat Chee Avenue, Kowloon, Hong Kong;3. Division of Environmental Science and Engineering, National University of Singapore, 10 Kent Ridge Crescent, Singapore 119260, Singapore;4. College of Architecture and Environment, Shenzhen Polytechnic, Shenzhen 518055, China |
| |
| Abstract: | Acid stress is one of the most serious threats that cyanobacteria have to face, and it has an impact at all levels from genome to phenotype. However, very little is known about the detailed response mechanism to acid stress in this species. We present here a general analysis of the gene regulatory network of Synechocystis sp. PCC 6803 in response to acid stress using comparative genome analysis and biocomputational prediction. In this study, we collected 85 genes and used them as an initial template to predict new genes through co-regulation, protein–protein interactions and the phylogenetic profile, and 179 new genes were obtained to form a complete template. In addition, we found that 11 enriched pathways such as glycolysis are closely related to the acid stress response. Finally, we constructed a regulatory network for the intricate relationship of these genes and summarize the key steps in response to acid stress. This is the first time a bioinformatic approach has been taken systematically to gene interactions in cyanobacteria and the elaboration of their cell metabolism and regulatory pathways under acid stress, which is more efficient than a traditional experimental study. The results also provide theoretical support for similar research into environmental stresses in cyanobacteria and possible industrial applications. |
| |
| Keywords: | Acid stress Regulatory network Operon Protein–protein interaction Pathway |
| 本文献已被 ScienceDirect 等数据库收录！ |
|
