دورية أكاديمية
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Large-scale genetic characterization of the model sulfate-reducing bacterium, Desulfovibrio vulgaris Hildenborough.

التفاصيل البيبلوغرافية
العنوان: Large-scale genetic characterization of the model sulfate-reducing bacterium, Desulfovibrio vulgaris Hildenborough.
المؤلفون: Trotter VV; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Shatsky M; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Price MN; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Juba TR; Department of Biochemistry, University of Missouri, Columbia, MO, United States., Zane GM; Department of Biochemistry, University of Missouri, Columbia, MO, United States., De León KB; Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, United States., Majumder EL; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, United States., Gui Q; Department of Biochemistry, University of Missouri, Columbia, MO, United States., Ali R; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Wetmore KM; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Kuehl JV; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Arkin AP; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.; Department of Bioengineering, University of California, Berkeley, Berkeley, CA, United States., Wall JD; Department of Biochemistry, University of Missouri, Columbia, MO, United States., Deutschbauer AM; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.; Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, United States., Chandonia JM; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States., Butland GP; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States.
المصدر: Frontiers in microbiology [Front Microbiol] 2023 Mar 31; Vol. 14, pp. 1095191. Date of Electronic Publication: 2023 Mar 31 (Print Publication: 2023).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Frontiers Research Foundation Country of Publication: Switzerland NLM ID: 101548977 Publication Model: eCollection Cited Medium: Print ISSN: 1664-302X (Print) Linking ISSN: 1664302X NLM ISO Abbreviation: Front Microbiol Subsets: PubMed not MEDLINE
أسماء مطبوعة: Original Publication: Lausanne : Frontiers Research Foundation
مستخلص: Sulfate-reducing bacteria (SRB) are obligate anaerobes that can couple their growth to the reduction of sulfate. Despite the importance of SRB to global nutrient cycles and their damage to the petroleum industry, our molecular understanding of their physiology remains limited. To systematically provide new insights into SRB biology, we generated a randomly barcoded transposon mutant library in the model SRB Desulfovibrio vulgaris Hildenborough (DvH) and used this genome-wide resource to assay the importance of its genes under a range of metabolic and stress conditions. In addition to defining the essential gene set of DvH, we identified a conditional phenotype for 1,137 non-essential genes. Through examination of these conditional phenotypes, we were able to make a number of novel insights into our molecular understanding of DvH, including how this bacterium synthesizes vitamins. For example, we identified DVU0867 as an atypical L-aspartate decarboxylase required for the synthesis of pantothenic acid, provided the first experimental evidence that biotin synthesis in DvH occurs via a specialized acyl carrier protein and without methyl esters, and demonstrated that the uncharacterized dehydrogenase DVU0826:DVU0827 is necessary for the synthesis of pyridoxal phosphate. In addition, we used the mutant fitness data to identify genes involved in the assimilation of diverse nitrogen sources and gained insights into the mechanism of inhibition of chlorate and molybdate. Our large-scale fitness dataset and RB-TnSeq mutant library are community-wide resources that can be used to generate further testable hypotheses into the gene functions of this environmentally and industrially important group of bacteria.
Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
(Copyright © 2023 Trotter, Shatsky, Price, Juba, Zane, De León, Majumder, Gui, Ali, Wetmore, Kuehl, Arkin, Wall, Deutschbauer, Chandonia and Butland.)
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فهرسة مساهمة: Keywords: RB-TnSeq; chlorate toxicity; high-thoughput genetics; molybdenum; nitrogen fixation; nitrogen utilization; tungsten; vitamin synthesis
سلسلة جزيئية: figshare 10.6084/m9.figshare.13172087.v1
تواريخ الأحداث: Date Created: 20230417 Latest Revision: 20230919
رمز التحديث: 20240829
مُعرف محوري في PubMed: PMC10102598
DOI: 10.3389/fmicb.2023.1095191
PMID: 37065130
قاعدة البيانات: MEDLINE
الوصف
تدمد:1664-302X
DOI:10.3389/fmicb.2023.1095191