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Revealing the Metab...
Revealing the Metabolic Alterations during Biofilm Development of Burkholderia cenocepacia Based on Genome-Scale Metabolic Modeling
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- Altay, Özlem (author)
- KTH,Science for Life Laboratory, SciLifeLab,Department of Clinical Microbiology, Sami Ulus Training and Research Hospital, University of Health Sciences, Ankara, 06080, Turkey
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- Zhang, Cheng (author)
- Zhengzhou University,Zhengzhou Univ, Sch Pharmaceut Sci, Zhengzhou 450001, Peoples R China.
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- Turkez, Hasan (author)
- Atatürk Üniversitesi,Atatürk University,Ataturk Univ, Fac Med, Dept Med Biol, TR-25240 Erzurum, Turkey.
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- Nielsen, Jens B, 1962 (author)
- Chalmers tekniska högskola,Chalmers University of Technology,Chalmers Univ Technol, Dept Biol & Biol Engn, S-41296 Gothenburg, Sweden.
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- Uhlén, Mathias (author)
- KTH,Science for Life Laboratory, SciLifeLab
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- Mardinoglu, Adil, 1982 (author)
- KTH,Science for Life Laboratory, SciLifeLab,King’s College London, London, SE1 9RT, United Kingdom
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(creator_code:org_t)
- 2021-04-05
- 2021
- English.
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In: Metabolites. - : MDPI AG. - 2218-1989 .- 2218-1989. ; 11:4
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Abstract
Subject headings
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- Burkholderia cenocepacia is among the important pathogens isolated from cystic fibrosis (CF) patients. It has attracted considerable attention because of its capacity to evade host immune defenses during chronic infection. Advances in systems biology methodologies have led to the emergence of methods that integrate experimental transcriptomics data and genome-scale metabolic models (GEMs). Here, we integrated transcriptomics data of bacterial cells grown on exponential and biofilm conditions into a manually curated GEM of B. cenocepacia. We observed substantial differences in pathway response to different growth conditions and alternative pathway susceptibility to extracellular nutrient availability. For instance, we found that blockage of the reactions was vital through the lipid biosynthesis pathways in the exponential phase and the absence of microenvironmental lysine and tryptophan are essential for survival. During biofilm development, bacteria mostly had conserved lipid metabolism but altered pathway activities associated with several amino acids and pentose phosphate pathways. Furthermore, conversion of serine to pyruvate and 2,5-dioxopentanoate synthesis are also identified as potential targets for metabolic remodeling during biofilm development. Altogether, our integrative systems biology analysis revealed the interactions between the bacteria and its microenvironment and enabled the discovery of antimicrobial targets for biofilm-related diseases.
Subject headings
- NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinsk bioteknologi -- Medicinsk bioteknologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Medical Biotechnology -- Medical Biotechnology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Mikrobiologi inom det medicinska området (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Microbiology in the medical area (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Keyword
- omics integration
- Burkholderia cenocepacia
- genome-scale metabolic models
- synthetic lethality
- transcriptomics
- biofilm
Publication and Content Type
- art (subject category)
- ref (subject category)
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