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Anaerobic respiration

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https://www.readbyqxmd.com/read/27926429/biologically-produced-methane-as-a-renewable-energy-source
#1
D E Holmes, J A Smith
Methanogens are a unique group of strictly anaerobic archaea that are more metabolically diverse than previously thought. Traditionally, it was thought that methanogens could only generate methane by coupling the oxidation of products formed by fermentative bacteria with the reduction of CO2. However, it has recently been observed that many methanogens can also use electrons extruded from metal-respiring bacteria, biocathodes, or insoluble electron shuttles as energy sources. Methanogens are found in both human-made and natural environments and are responsible for the production of ∼71% of the global atmospheric methane...
2016: Advances in Applied Microbiology
https://www.readbyqxmd.com/read/27924259/cation-limited-kinetic-model-for-microbial-extracellular-electron-transport-via-an-outer-membrane-cytochrome-c-complex
#2
REVIEW
Akihiro Okamoto, Yoshihide Tokunou, Junki Saito
Outer-membrane c-type cytochrome (OM c-Cyt) complexes in several genera of iron-reducing bacteria, such as Shewanella and Geobacter, are capable of transporting electrons from the cell interior to extracellular solids as a terminal step of anaerobic respiration. The kinetics of this electron transport has implications for controlling the rate of microbial electron transport during bioenergy or biochemical production, iron corrosion, and natural mineral cycling. Herein, we review the findings from in-vivo and in-vitro studies examining electron transport kinetics through single OM c-Cyt complexes in Shewanella oneidensis MR-1...
2016: Biophysics and Physicobiology
https://www.readbyqxmd.com/read/27916305/microbial-communities-involved-in-arsenic-mobilization-and-release-from-the-deep-sediments-into-groundwater-in-jianghan-plain-central-china
#3
Xiaoming Chen, Xian-Chun Zeng, Jianing Wang, Yamin Deng, Teng Ma, Guoji E, Yao Mu, Ye Yang, Hao Li, Yanxin Wang
It was shown that groundwater in Jianghan Plain was severely contaminated by arsenic; however, little is known about the mechanism by which the mineral arsenic was mobilized and released into groundwater from the high-arsenic sediments in this area. Here, we collected sediment samples from the depths of 5-230m in Jianghan Plain. Although all of the samples contain high contents of total arsenic, the soluble arsenic was only detectable in few of the shallow sediments, but was readily detectable in all of the deep sediments at the depths of 190-230m...
December 1, 2016: Science of the Total Environment
https://www.readbyqxmd.com/read/27901314/effects-of-hypoxia-and-hypercapnic-hypoxia-on-oxygen-transport-and-acid-base-status-in-the-atlantic-blue-crab-callinectes-sapidus-during-exercise
#4
Mark P Lehtonen, Louis E Burnett
The responses of estuarine invertebrates to hypoxic conditions are well established. However, many studies have investigated hypoxia as an isolated condition despite its frequent co-occurrence with hypercapnia (elevated CO2 ). Although many studies suggest deleterious effects, hypercapnia has been observed to improve blue crab walking performance in hypoxia. To investigate the physiological effects of combined hypercapnic hypoxia, we measured Po2 , pH, [l-lactate], Pco2 , and total O2 in pre- and postbranchial hemolymph sampled from blue crabs during walking exercise...
November 30, 2016: Journal of Experimental Zoology. Part A, Ecological Genetics and Physiology
https://www.readbyqxmd.com/read/27898801/reduction-of-methane-emission-during-slurry-storage-by-the-addition-of-effective-microorganisms-and-excessive-carbon-source-from-brewing-sugar
#5
Mohd Saufi B Bastami, Davey L Jones, David R Chadwick
Storing livestock manure is the primary stage of manure management where microbial processes and chemical reactions result in the release of methane (CH), nitrous oxide (NO), ammonia (NH), and carbon dioxide (CO). This study examined the reduction of CH emissions from slurry storage under two temperatures (cool [10°C] and warm [30°C]) when a glucose-rich substrate (brewing sugar) and activated effective microorganisms were applied at 10% (w/w) and 5% (v/w), respectively. Brewing sugar addition influenced microbial anaerobic respiration, resulting in a reduction of slurry pH to <5...
November 2016: Journal of Environmental Quality
https://www.readbyqxmd.com/read/27898054/refined-experimental-annotation-reveals-conserved-corrinoid-autotrophy-in-chloroform-respiring-dehalobacter-isolates
#6
Po-Hsiang Wang, Shuiquan Tang, Kayla Nemr, Robert Flick, Jun Yan, Radhakrishnan Mahadevan, Alexander F Yakunin, Frank E Löffler, Elizabeth A Edwards
Two novel chlorinated alkane-respiring Dehalobacter restrictus strains CF and DCA were isolated from the same enrichment culture, ACT-3, and characterized. The closed genomes of these highly similar sister strains were previously assembled from metagenomic sequence data and annotated. The isolation of the strains enabled experimental verification of predicted annotations, particularly focusing on irregularities or predicted gaps in central metabolic pathways and cofactor biosynthesis. Similar to D. restrictus strain PER-K23, strains CF and DCA require arginine, histidine and threonine for growth, although the corresponding biosynthesis pathways are predicted to be functional...
November 29, 2016: ISME Journal
https://www.readbyqxmd.com/read/27877167/polycyclic-aromatic-hydrocarbon-induced-changes-in-bacterial-community-structure-under-anoxic-nitrate-reducing-conditions
#7
Sophie-Marie Martirani-Von Abercron, Daniel Pacheco, Patricia Benito-Santano, Patricia Marín, Silvia Marqués
Although bacterial anaerobic degradation of mono-aromatic compounds has been characterized in depth, the degradation of polycyclic aromatic hydrocarbons (PAHs) such as naphthalene has only started to be understood in sulfate reducing bacteria, and little is known about the anaerobic degradation of PAHs in nitrate reducing bacteria. Starting from a series of environments which had suffered different degrees of hydrocarbon pollution, we used most probable number (MPN) enumeration to detect and quantify the presence of bacterial communities able to degrade several PAHs using nitrate as electron acceptor...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27869299/anaerobic-reduction-of-2-6-dinitrotoluene-by-shewanella-oneidensis-mr-1-roles-of-mtr-respiratory-pathway-and-nfnb
#8
Dong-Feng Liu, Di Min, Lei Cheng, Feng Zhang, Dao-Bo Li, Xiang Xiao, Guo-Ping Sheng, Han-Qing Yu
Dinitrotoluene (DNT) is a widely present pollutant in aquatic environments, and its biodegradation is an economically attractive way to effectively removal. In aquatic environments, the presence of electrochemically active bacteria (EAB) could contribute to the anaerobic bioreduction of DNT. However, the mechanism behind such a biodegradation process at gene level remains to be further elucidated. In this work, the anaerobic reduction of 2,6-dinitrotoluene (2,6-DNT) by Shewanella oneidensis MR-1, a typical EAB in aquatic environments, was investigated...
November 7, 2016: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/27865763/screening-biological-methods-for-laboratory-scale-stabilization-of-fine-fraction-from-landfill-mining
#9
Tiina J Mönkäre, Marja R T Palmroth, Jukka A Rintala
Increasing interest for the landfill mining and the amount of fine fraction (FF) in landfills (40-70% (w/w) of landfill content) mean that sustainable treatment and utilization methods for FF are needed. For this study FF (<20mm) was mined from a municipal solid waste (MSW) landfill operated from 1967 to 1989. FF, which resembles soil, was stabilized in laboratory scale reactors in two phases: first, anaerobically for 101days and second, for 72days using four different methods: anaerobic with the addition of moisture (water) or inoculum (sewage sludge) and aerobic with continuous water washing, with, or without, bulking material...
November 16, 2016: Waste Management
https://www.readbyqxmd.com/read/27856620/genomic-characterization-of-dehalococcoides-mccartyi-strain-11a5-reveals-a-circular-extrachromosomal-genetic-element-and-a-new-tetrachloroethene-reductive-dehalogenase-gene
#10
Siyan Zhao, Chang Ding, Jianzhong He
Dehalococcoides mccartyi exhibits versatile capabilities to respire halogenated compounds under anaerobic conditions. In this study, we report the assembly and annotation of the complete genome of a chloroethene dechlorinating D. mccartyi strain 11a5. Bearing a 1,461,973 base-pair chromosome, strain 11a5 distinguishes itself from other D. mccartyi strains by possessing a 5,940 base-pair circular extrachromosomal genetic element which contains a reductive dehalogenase homolog. The whole genome of strain 11a5 harbors 31 putative reductive dehalogenase genes...
November 16, 2016: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/27842489/a-novel-phase-variant-of-the-cholera-pathogen-shows-stress-adaptive-cryptic-transcriptomic-signatures
#11
Bliss Lambert, Maheshi Dassanayake, Dong-Ha Oh, Shana B Garrett, Sang-Yeol Lee, Gregg S Pettis
BACKGROUND: In a process known as phase variation, the marine bacterium and cholera pathogen Vibrio cholerae alternately expresses smooth or rugose colonial phenotypes, the latter being associated with advanced biofilm architecture and greater resistance to ecological stress. To define phase variation at the transcriptomic level in pandemic V. cholerae O1 El Tor strain N16961, we compared the RNA-seq-derived transcriptomes among the smooth parent N16961, its rugose derivative (N16961R) and a smooth form obtained directly from the rugose at high frequencies consistent with phase variation (N16961SD)...
November 14, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27818882/microbial-activities-in-soil-cultivated-with-corn-and-amended-with-sewage-sludge
#12
Rosana Faria Vieira, Ricardo Antônio Almeida Pazianotto
BACKGROUND: One of the main concerns related to the increasing use of sewage sludge in the soil is the possible presence of excess nutrients, which could cause environmental problems and detrimental effects on the soil microorganisms, considered essential to soil nutrient cycling. Thus, the objective of this work was to evaluate the microbial biomass and activity and some chemical characteristics of one specific tropical soil, classified as Dark Red Distroferric Latosol, of a loamy/clayey texture, in a long-term field experiment using anaerobically digested household sludge amendment...
2016: SpringerPlus
https://www.readbyqxmd.com/read/27812097/investigation-of-factors-affecting-aerobic-and-respiratory-growth-in-the-oxygen-tolerant-strain-lactobacillus-casei-n87
#13
Rocco G Ianniello, Teresa Zotta, Attilio Matera, Francesco Genovese, Eugenio Parente, Annamaria Ricciardi
Aerobic and respiratory cultivations provide benefits for some lactic acid bacteria (LAB). Growth, metabolites, enzymatic activities (lactate dehydrogenase; pyruvate and NADH oxidases, NADH peroxidase; catalase), antioxidant capability and stress tolerance of Lactobacillus casei N87 were evaluated in anaerobic, aerobic and respiratory (aerobiosis with heme and menaquinone supplementation) batch cultivations with different dissolved oxygen (DO) concentrations. The expression of pox (pyruvate oxidase) and cydABCD operon (cytochrome bd oxidase complex) was quantified by quantitative Real Time polymerase chain reaction...
2016: PloS One
https://www.readbyqxmd.com/read/27811105/complete-genome-sequence-of-alkaliphilus-metalliredigens-strain-qymf-an-alkaliphilic-and-metal-reducing-bacterium-isolated-from-borax-contaminated-leachate-ponds
#14
C Hwang, A Copeland, S Lucas, A Lapidus, K Barry, J C Detter, T Glavina Del Rio, N Hammon, S Israni, E Dalin, H Tice, S Pitluck, O Chertkov, T Brettin, D Bruce, C Han, J Schmutz, F Larimer, M L Land, L Hauser, N Kyrpides, N Mikhailova, Q Ye, J Zhou, P Richardson, M W Fields
Alkaliphilus metalliredigens strain QYMF is an anaerobic, alkaliphilic, and metal-reducing bacterium associated with phylum Firmicutes QYMF was isolated from alkaline borax leachate ponds. The genome sequence will help elucidate the role of metal-reducing microorganisms under alkaline environments, a capability that is not commonly observed in metal respiring-microorganisms.
November 3, 2016: Genome Announcements
https://www.readbyqxmd.com/read/27800562/strategies-for-manipulation-of-oxygen-utilization-by-the-electron-transfer-chain-in-microbes-for-metabolic-engineering-purposes
#15
George N Bennett, Ka-Yiu San
Microaerobic growth is of importance in ecological niches, pathogenic infections and industrial production of chemicals. The use of low levels of oxygen enables the cell to gain energy and grow more robustly in the presence of a carbon source that can be oxidized and provide electrons to the respiratory chain in the membrane. A considerable amount of information is available on the genes and proteins involved in respiratory growth and the regulation of genes involved in aerobic and anaerobic metabolism. The dependence of regulation on sensing systems that respond to reduced quinones (e...
October 31, 2016: Journal of Industrial Microbiology & Biotechnology
https://www.readbyqxmd.com/read/27796471/deletion-of-degq-gene-enhances-outer-membrane-vesicle-production-of-shewanella-oneidensis-cells
#16
Yoshihiro Ojima, Thivagaran Mohanadas, Kosei Kitamura, Shota Nunogami, Reiki Yajima, Masahito Taya
Shewanella oneidensis is a Gram-negative facultative anaerobe that can use a wide variety of terminal electron acceptors for anaerobic respiration. In this study, S. oneidensis degQ gene, encoding a putative periplasmic serine protease, was cloned and expressed. The activity of purified DegQ was inhibited by diisopropyl fluorophosphate, a typical serine protease-specific inhibitor, indicating that DegQ is a serine protease. In-frame deletion and subsequent complementation of the degQ were carried out to examine the effect of envelope stress on the production of outer membrane vesicles (OMVs)...
October 31, 2016: Archives of Microbiology
https://www.readbyqxmd.com/read/27773696/circadian-clock-interaction-with-hif1%C3%AE-mediates-oxygenic-metabolism-and-anaerobic-glycolysis-in-skeletal-muscle
#17
Clara Bien Peek, Daniel C Levine, Jonathan Cedernaes, Akihiko Taguchi, Yumiko Kobayashi, Stacy J Tsai, Nicolle A Bonar, Maureen R McNulty, Kathryn Moynihan Ramsey, Joseph Bass
Circadian clocks are encoded by a transcription-translation feedback loop that aligns energetic processes with the solar cycle. We show that genetic disruption of the clock activator BMAL1 in skeletal myotubes and fibroblasts increased levels of the hypoxia-inducible factor 1α (HIF1α) under hypoxic conditions. Bmal1(-/-) myotubes displayed reduced anaerobic glycolysis, mitochondrial respiration with glycolytic fuel, and transcription of HIF1α targets Phd3, Vegfa, Mct4, Pk-m, and Ldha, whereas abrogation of the clock repressors CRY1/2 stabilized HIF1α in response to hypoxia...
October 19, 2016: Cell Metabolism
https://www.readbyqxmd.com/read/27771372/pseudomonas-aeruginosa-develops-ciprofloxacin-resistance-from-low-to-high-level-with-distinctive-proteome-changes
#18
Jianhe Peng, Jing Cao, Fui Mee Ng, Jeffrey Hill
: Pseudomonas aeruginosa infection is difficult to treat because of its drug resistance, but how it develops drug resistance remains largely unknown. In this study we investigated Ciprofloxacin resistance development in P. aeruginosa. Different Ciprofloxacin concentrations selected different low level resistant mutants, and high level resistant mutants emerged from low level resistant mutants if stressed further by Ciprofloxacin. A deep quantitative proteomic study of the Ciprofloxacin resistant mutants uncovered the cellular pathways that supported such resistances...
October 19, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/27741250/directed-evolution-reveals-unexpected-epistatic-interactions-that-alter-metabolic-regulation-and-enable-anaerobic-xylose-use-by-saccharomyces-cerevisiae
#19
Trey K Sato, Mary Tremaine, Lucas S Parreiras, Alexander S Hebert, Kevin S Myers, Alan J Higbee, Maria Sardi, Sean J McIlwain, Irene M Ong, Rebecca J Breuer, Ragothaman Avanasi Narasimhan, Mick A McGee, Quinn Dickinson, Alex La Reau, Dan Xie, Mingyuan Tian, Jennifer L Reed, Yaoping Zhang, Joshua J Coon, Chris Todd Hittinger, Audrey P Gasch, Robert Landick
The inability of native Saccharomyces cerevisiae to convert xylose from plant biomass into biofuels remains a major challenge for the production of renewable bioenergy. Despite extensive knowledge of the regulatory networks controlling carbon metabolism in yeast, little is known about how to reprogram S. cerevisiae to ferment xylose at rates comparable to glucose. Here we combined genome sequencing, proteomic profiling, and metabolomic analyses to identify and characterize the responsible mutations in a series of evolved strains capable of metabolizing xylose aerobically or anaerobically...
October 2016: PLoS Genetics
https://www.readbyqxmd.com/read/27721915/high-quality-draft-genome-sequence-of-sedimenticola-selenatireducens-strain-ak4oh1-t-a-gammaproteobacterium-isolated-from-estuarine-sediment
#20
Tiffany S Louie, Donato Giovannelli, Nathan Yee, Priya Narasingarao, Valentin Starovoytov, Markus Göker, Hans-Peter Klenk, Elke Lang, Nikos C Kyrpides, Tanja Woyke, Elisabetta Bini, Max M Häggblom
Sedimenticola selenatireducens strain AK4OH1(T) (= DSM 17993(T) = ATCC BAA-1233(T)) is a microaerophilic bacterium isolated from sediment from the Arthur Kill intertidal strait between New Jersey and Staten Island, NY. S. selenatireducens is Gram-negative and belongs to the Gammaproteobacteria. Strain AK4OH1(T) was the first representative of its genus to be isolated for its unique coupling of the oxidation of aromatic acids to the respiration of selenate. It is a versatile heterotroph and can use a variety of carbon compounds, but can also grow lithoautotrophically under hypoxic and anaerobic conditions...
2016: Standards in Genomic Sciences
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