دورية أكاديمية
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Unraveling Fe(II)-Oxidizing Mechanisms in a Facultative Fe(II) Oxidizer, Sideroxydans lithotrophicus Strain ES-1, via Culturing, Transcriptomics, and Reverse Transcription-Quantitative PCR.

التفاصيل البيبلوغرافية
العنوان: Unraveling Fe(II)-Oxidizing Mechanisms in a Facultative Fe(II) Oxidizer, Sideroxydans lithotrophicus Strain ES-1, via Culturing, Transcriptomics, and Reverse Transcription-Quantitative PCR.
المؤلفون: Zhou N; School of Marine Science and Policy, University of Delawaregrid.33489.35, Newark, Delaware, USA., Keffer JL; Department of Earth Sciences, University of Delawaregrid.33489.35, Newark, Delaware, USA., Polson SW; Department of Computer and Information Sciences, University of Delawaregrid.33489.35, Newark, Delaware, USA.; Center for Bioinformatics and Computational Biology, University of Delawaregrid.33489.35, Newark, Delaware, USA., Chan CS; School of Marine Science and Policy, University of Delawaregrid.33489.35, Newark, Delaware, USA.; Department of Earth Sciences, University of Delawaregrid.33489.35, Newark, Delaware, USA.
المصدر: Applied and environmental microbiology [Appl Environ Microbiol] 2022 Jan 25; Vol. 88 (2), pp. e0159521. Date of Electronic Publication: 2021 Nov 17.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
اللغة: English
بيانات الدورية: Publisher: American Society for Microbiology Country of Publication: United States NLM ID: 7605801 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1098-5336 (Electronic) Linking ISSN: 00992240 NLM ISO Abbreviation: Appl Environ Microbiol Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Washington, American Society for Microbiology.
مواضيع طبية MeSH: Reverse Transcription* , Transcriptome*, Ferrous Compounds/metabolism ; Gallionellaceae ; Oxidation-Reduction ; Polymerase Chain Reaction
مستخلص: Sideroxydans lithotrophicus ES-1 grows autotrophically either by Fe(II) oxidation or by thiosulfate oxidation, in contrast to most other isolates of neutrophilic Fe(II)-oxidizing bacteria (FeOB). This provides a unique opportunity to explore the physiology of a facultative FeOB and constrain the genes specific to Fe(II) oxidation. We compared the growth of S. lithotrophicus ES-1 on Fe(II), thiosulfate, and both substrates together. While initial growth rates were similar, thiosulfate-grown cultures had higher yield with or without Fe(II) present, which may give ES-1 an advantage over obligate FeOB. To investigate the Fe(II) and S oxidation pathways, we conducted transcriptomics experiments, validated with reverse transcription-quantitative PCR (RT-qPCR). We explored the long-term gene expression response at different growth phases (over days to a week) and expression changes during a short-term switch from thiosulfate to Fe(II) (90 min). The dsr and sox sulfur oxidation genes were upregulated in thiosulfate cultures. The Fe(II) oxidase gene cyc2 was among the top expressed genes during both Fe(II) and thiosulfate oxidation, and addition of Fe(II) to thiosulfate-grown cells caused an increase in cyc2 expression. These results support the role of Cyc2 as the Fe(II) oxidase and suggest that ES-1 maintains readiness to oxidize Fe(II), even in the absence of Fe(II). We used gene expression profiles to further constrain the ES-1 Fe(II) oxidation pathway. Notably, among the most highly upregulated genes during Fe(II) oxidation were genes for alternative complex III, reverse electron transport, and carbon fixation. This implies a direct connection between Fe(II) oxidation and carbon fixation, suggesting that CO 2 is an important electron sink for Fe(II) oxidation. IMPORTANCE Neutrophilic FeOB are increasingly observed in various environments, but knowledge of their ecophysiology and Fe(II) oxidation mechanisms is still relatively limited. Sideroxydans isolates are widely observed in aquifers, wetlands, and sediments, and genome analysis suggests metabolic flexibility contributes to their success. The type strain ES-1 is unusual among neutrophilic FeOB isolates, as it can grow on either Fe(II) or a non-Fe(II) substrate, thiosulfate. Almost all our knowledge of neutrophilic Fe(II) oxidation pathways comes from genome analyses, with some work on metatranscriptomes. This study used culture-based experiments to test the genes specific to Fe(II) oxidation in a facultative FeOB and refine our model of the Fe(II) oxidation pathway. We gained insight into how facultative FeOB like ES-1 connect Fe, S, and C biogeochemical cycling in the environment and suggest a multigene indicator would improve understanding of Fe(II) oxidation activity in environments with facultative FeOB.
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معلومات مُعتمدة: P20 GM103446 United States GM NIGMS NIH HHS
فهرسة مساهمة: Keywords: Sideroxydans lithotrophicus; cyc2; iron oxidation; sulfur oxidation; transcriptomics
المشرفين على المادة: 0 (Ferrous Compounds)
SCR Organism: Sideroxydans lithotrophicus
تواريخ الأحداث: Date Created: 20211117 Date Completed: 20220324 Latest Revision: 20231103
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC8788666
DOI: 10.1128/AEM.01595-21
PMID: 34788064
قاعدة البيانات: MEDLINE
الوصف
تدمد:1098-5336
DOI:10.1128/AEM.01595-21