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Complete Genome Sequence of Serratia quinivorans Strain 124R, a Facultative Anaerobe Isolated on Organosolv Lignin as a Sole Carbon Source.

ABSTRACT: The complete genome sequence of the gammaproteobacterial isolate Serratia quinivorans 124R consists of 5 Mb over 2 scaffolds and a G+C content of 52.85%. Genes relating to aromatic metabolism reflect its isolation on organosolv lignin as a sole carbon source under anoxic conditions as well as the potential for lignin biorefinery applications.

SUBMITTER: Chaput G

PROVIDER: S-EPMC6498242 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

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Complete Genome Sequence of Serratia quinivorans Strain 124R, a Facultative Anaerobe Isolated on Organosolv Lignin as a Sole Carbon Source.

Chaput Gina G Ford Jacob J DeDiego Lani L Narayanan Achala A Tam Wing Yin WY Whalen Meghan M Huntemann Marcel M Clum Alicia A Spunde Alex A Pillay Manoj M Palaniappan Krishnaveni K Varghese Neha N Mikhailova Natalia N Chen I-Min IM Stamatis Dimitrios D Reddy T B K TBK O'Malley Ronan R Daum Chris C Shapiro Nicole N Ivanova Natalia N Kyrpides Nikos C NC Woyke Tanja T Glavina Del Rio Tijana T DeAngelis Kristen K

Microbiology resource announcements 20190502 18

The complete genome sequence of the gammaproteobacterial isolate <i>Serratia quinivorans</i> 124R consists of 5 Mb over 2 scaffolds and a G+C content of 52.85%. Genes relating to aromatic metabolism reflect its isolation on organosolv lignin as a sole carbon source under anoxic conditions as well as the potential for lignin biorefinery applications. ...[more]

PMID: 31048387

Similar Datasets

Lignin Refinery Using Organosolv Process for Nanoporous Carbon Synthesis.

Project description:Porous carbon has been widely used for many applications e.g., adsorbents, catalysts, catalyst supports, energy storage and gas storage due to its outstanding properties. In this paper, characteristics of porous carbon prepared by carbonization of lignin from various biomasses are presented. Various biomasses, i.e., mangosteen peel, corncob and coconut shell, were processed using ethanol as an organosolv solvent. The obtained lignin was characterized using a Fourier transform infrared (FTIR) spectrophotometer and a viscosimeter to investigate the success of extraction and lignin properties. The results showed that high temperature is favorable for the extraction of lignin using the organosolv process. The FTIR spectra show the success of lignin extraction using the organosolv process because of its similarity to the standard lignin spectra. The carbonization process of lignin was performed at 600 and 850 °C to produce carbon from lignin, as well as to investigate the effect of temperature. A higher pyrolysis temperature will produce a porous carbon with a high specific surface area, but it will lower the yield of the produced carbon. At 850 °C temperature, the highest surface area up to 974 m2/g was achieved.

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Aspergillus nidulans strains TNO2A3, ∆msbA and ∆MHD grown in complete media (YUU) and on avicel as sole carbon source

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Draft Genome Sequence of Cytophaga fermentans JCM 21142T, a Facultative Anaerobe Isolated from Marine Mud.

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Complete Genome of Ignavibacterium album, a Metabolically Versatile, Flagellated, Facultative Anaerobe from the Phylum Chlorobi.

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An elusive electron shuttle from a facultative anaerobe.

Project description:Some anaerobic bacteria use insoluble minerals as terminal electron acceptors and discovering the ways in which electrons move through the membrane barrier to the exterior acceptor forms an active field of research with implications for both bacterial physiology and bioenergy. A previous study suggested that Shewanella oneidensis MR-1 utilizes a small, polar, redox active molecule that serves as an electron shuttle between the bacteria and insoluble acceptors, but the shuttle itself has never been identified. Through isolation and synthesis, we identify it as ACNQ (2-amino-3-carboxy-1,4-naphthoquinone), a soluble analog of menaquinone. ACNQ is derived from DHNA (1,4-dihydroxy-2-naphthoic acid) in a non-enzymatic process that frustrated genetic approaches to identify the shuttle. Both ACNQ and DHNA restore reduction of AQDS under anaerobic growth in menaquinone-deficient mutants. Bioelectrochemistry analyses reveal that ACNQ (-0.32 VAg/AgCl) contributes to the extracellular electron transfer (EET) as an electron shuttle, without altering menaquinone generation or EET related cytochrome c expression.

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A novel Serratia sp. ZS6 isolate derived from petroleum sludge secretes biosurfactant and lipase in medium with olive oil as sole carbon source.

Project description:Biosurfactants emulsify lipids, facilitating their exposure to microorganisms in water. Secretion of biosurfactant together with lipase can enhance oil assimilation by microorganisms. In this study, we show the analysis of the biosurfactant and lipase producing microbe originating from oil-sludge. The enrichment of the biosurfactant-producing ZS6 strain from the mixed culture of sludge-derived microbes in medium with olive oil as sole carbon source was monitored using the modified T-RFLP (or mT-RFLP) methodology. Phylogenetic tree analysis based on 16S rDNA sequences suggested that ZS6 belonged to a member of Serratia sp. Serratia sp. ZS6 secreted both a serrawettin-type biosurfactant and lipase in medium with olive oil as sole carbon source. By using an in-gel lipase assay followed by LC-MS/MS analysis, we identified the amino acid sequences of the ZS6 lipase, which belonged to the lipase subfamily III of the family I. Its lipolytic activity was found to be enhanced by salinity, calcium, and methanol. Together, we show that the novel isolate Serratia sp. ZS6 secretes both biosurfactant and lipase which makes it useful for applications such as in food industry wastewater treatment and biodiesel production.

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Aspergillus nidulans ∆pkaA strain grown on avicel as sole carbon source

Project description:Transcriptome of A. nidulans ∆pkaA strain when grown on complete media (CM) and transferred to minimal media plus avicel as a sole carbon source for 8 and 24 hours

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Isolating High Antimicrobial Ability Lignin From Bamboo Kraft Lignin by Organosolv Fractionation.

Project description:Lignin from different biomasses possess biological antioxidation and antimicrobial activities, which depend on the number of functional groups and the molecular weight of lignin. In this work, organosolv fractionation was carried out to prepare the lignin fraction with a suitable structure to tailor excellent biological activities. Gel permeation chromatography (GPC) analysis showed that decreased molecular weight lignin fractions were obtained by sequentially organosolv fractionation with anhydrous acetone, 50% acetone and 37.5% hexanes. Nuclear magnetic resonance (NMR) results indicated that the lignin fractions with lower molecular weight had fewer substructures and a higher phenolic hydroxyl content, which was positively correlated with their antioxidation ability. Both of the original lignin and fractionated lignins possessed the ability to inhibit the growth of Gram-negative bacteria (Escherichia coli and Salmonella) and Gram-positive bacteria (Streptococcus and Staphylococcus aureus) by destroying the cell wall of bacteria in vitro, in which the lignin fraction with the lowest molecular weight and highest phenolic hydroxyl content (L3) showed the best performance. Besides, the L3 lignin showed the ability to ameliorate Escherichia coli-induced diarrhea damages of mice to improve the formation of intestinal contents in vivo. These results imply that a lignin fraction with a tailored structure from bamboo lignin can be used as a novel antimicrobial agent in the biomedical field.

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Transcriptomic analysis of Alishewanella species utilizing pectin as a sole carbon source

Project description:Comparative transcriptomic analysis of three Alishewanella species utilizing pectin as a sole carbon source

2013-03-29 | GSE45511 | GEO

CO-dependent hydrogen production by the facultative anaerobe Parageobacillus thermoglucosidasius.

Project description:BACKGROUND:The overreliance on dwindling fossil fuel reserves and the negative climatic effects of using such fuels are driving the development of new clean energy sources. One such alternative source is hydrogen (H2), which can be generated from renewable sources. Parageobacillus thermoglucosidasius is a facultative anaerobic thermophilic bacterium which is frequently isolated from high temperature environments including hot springs and compost. RESULTS:Comparative genomics performed in the present study showed that P. thermoglucosidasius encodes two evolutionary distinct H2-uptake [Ni-Fe]-hydrogenases and one H2-evolving hydrogenases. In addition, genes encoding an anaerobic CO dehydrogenase (CODH) are co-localized with genes encoding a putative H2-evolving hydrogenase. The co-localized of CODH and uptake hydrogenase form an enzyme complex that might potentially be involved in catalyzing the water-gas shift reaction (CO + H2O ? CO2 + H2) in P. thermoglucosidasius. Cultivation of P. thermoglucosidasius DSM 2542T with an initial gas atmosphere of 50% CO and 50% air showed it to be capable of growth at elevated CO concentrations (50%). Furthermore, GC analyses showed that it was capable of producing hydrogen at an equimolar conversion with a final yield of 1.08 H2/CO. CONCLUSIONS:This study highlights the potential of the facultative anaerobic P. thermoglucosidasius DSM 2542T for developing new strategies for the biohydrogen production.

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