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mCRA gene

Sanae Sakai, Yoshihiro Takaki, Masayuki Miyazaki, Miyuki Ogawara, Katsunori Yanagawa, Junichi Miyazaki, Ken Takai
A novel hydrogenotrophic methanogen, strain HHBT , was isolated from a deep-sea hydrothermal vent chimney sample collected from Beebe Vent Field at the Mid-Cayman Spreading Center, Caribbean Sea. The cells were non-motile regular to irregular cocci possessing several flagella. The novel isolate grew at 60-80 °C, pH 5.0-7.4 and with 1-4 % of NaCl (w/v). The isolate utilized H2/CO2 as the only substrates for growth and methane production. The results of phylogenetic analyses of both 16S rRNA and mcrA gene sequences and comparative genome analysis indicated that HHBT represented a member of the order Methanococcales, and was closely related to the members of the genera Methanothermococcus and Methanotorris...
March 7, 2019: International Journal of Systematic and Evolutionary Microbiology
Pan-Long Lv, Ling-Dong Shi, Zhen Wang, Bruce Rittmann, He-Ping Zhao
A specially designed CH4 -based membrane biofilm batch reactor (MBBR) was applied to investigate anaerobic methane oxidation coupled to perchlorate reduction (AnMO-PR). The 0.21 mM ClO4 - added in the first stage of operation was completely reduced in 28 days, 0.40 mM ClO4 - was reduced within 23 days in stage 2, and 0.56 mM of ClO4 - was reduced within 30 days in stage 3. Although some chlorate (ClO3 - ) accumulated, the recovery of Cl- was over 92%. Illumina sequencing of the 16S rRNA gene documented that the bacterial community was mainly composed by perchlorate-reducing bacteria (PRB), methanotrophic bacteria, and archaea...
February 23, 2019: Science of the Total Environment
Antti J Rissanen, Sari Peura, Promise A Mpamah, Sami Taipale, Marja Tiirola, Christina Biasi, Anita Mäki, Hannu Nykänen
Although sediments of small boreal humic lakes are important carbon stores and greenhouse gas sources, the composition and structuring mechanisms of their microbial communities have remained understudied. We analyzed the vertical profiles of microbial biomass indicators (PLFAs, DNA and RNA) and the bacterial and archaeal community composition (sequencing of 16S rRNA gene amplicons and qPCR of mcrA) in sediment cores collected from a typical small boreal lake. While microbial biomass decreased with sediment depth, viable microbes (RNA and PLFA) were present all through the profiles...
February 26, 2019: FEMS Microbiology Letters
Fabian Bonk, Denny Popp, Sören Weinrich, Heike Sträuber, Daniela Becker, Sabine Kleinsteuber, Hauke Harms, Florian Centler
For biogas-producing continuous stirred tank reactors, an increase in dilution rate increases the methane production rate as long as substrate input can be converted fully. However, higher dilution rates necessitate higher specific microbial growth rates, which are assumed to have a strong impact on the apparent microbial biomass yield due to cellular maintenance. To test this, we operated two reactors at 37°C in parallel at dilution rates of 0.18 and 0.07 days-1 (hydraulic retention times of 5.5 and 14 days, doubling times of 3...
2019: Frontiers in Microbiology
E Sogodogo, M Drancourt, Ghiles Grine
Methanogens are strictly anaerobic archaea metabolising by-products of bacterial fermentation into methane by using three known metabolic pathways, i.e. the reduction of carbon dioxide, the fermentation of acetate or the dismutation of methanol or methylamines. Methanogens described in human microbiota include only Euryarchaeota, i.e. Methanobrevibacter smithii, Methanobrevibacter oralis, Methanobrevibacter arbophilus, Methanobrevibacter massiliensis, Methanomassiliicoccus luminyensis, Methanosphaera stadtmanae and Ca...
February 22, 2019: European Journal of Clinical Microbiology & Infectious Diseases
Shao-Song Wu, Marcela Hernández, Yong-Cui Deng, Cheng Han, Xin Hong, Jie Xu, Wen-Hui Zhong, Huan Deng
Previous studies showed that exoelectrogenic bacteria in paddy soil could suppress methanogens and methanogenesis after they were enriched by application of Fe3+ or running microbial fuel cells (MFCs). However, it is unknown the relationship between exoelectrogenic bacteria and methanogens without the enrichment process. Our study was conducted in three rice paddy fields in China and over three seasons. We explored novel MFC based sensors to in situ detect voltage signals that were generated from paddy soil within ten minutes...
January 30, 2019: FEMS Microbiology Ecology
Marcela Hernández, Melanie Klose, Peter Claus, David Bastviken, Humberto Marotta, Viviane Figueiredo, Alex Enrich-Prast, Ralf Conrad
The floodplain of the Amazon River is a large source for the greenhouse gas methane, but the soil microbial communities and processes involved are little known. We studied the structure and function of the methanogenic microbial communities in soils across different inundation regimes in the Cunia Reserve, encompassing non-flooded forest soil (dry forest), occasionally flooded Igapo soils (dry Igapo), long time flooded Igapo soils (wet Igapo), and sediments from Igarape streams (Igarape). We also investigated a Transect (4 sites) from the water shoreline into the dry forest...
January 24, 2019: Environmental Microbiology
Tianwei Wang, Zhaoxia Li, Xueping Chen, Xi-En Long
Background: Paddies are an important anthropogenic source of methane emissions to the atmosphere, and they are impacted by heavy metal pollution. Nickel (Ni) and cobalt (Co) pollution might either enhance or mitigate CH4 emission from paddy soils due to the total amounts of metals, bioavailability and functional microbial activity and composition. Methods: An incubation experiment was conducted, and different Ni and Co concentrations were added to test the effects of trace metals on methane production in paddy soil...
2019: PeerJ
Michael A Carson, Suzanna Bräuer, Nathan Basiliko
Methanogens are among the oldest forms of life on Earth and are detectable in a wide range of environments, but our knowledge of their overall diversity and functioning is limited. Peatlands in particular host a broad range of methanogens that contribute large amounts of methane to the atmosphere, but are largely underrepresented in pure cultures. Here we anaerobically enriched peat with common growth substrates, supplements, and antibiotics to identifying novel methanogen sequences and potential growth conditions...
January 14, 2019: FEMS Microbiology Ecology
Cristina P Fernández-Baca, Amir-Eldin H Omar, Jesse T Pollard, Ruth E Richardson
Septic systems inherently rely on microbial communities in the septic tank and leach field to attenuate pollution from household sewage. Operating conditions of septic leach field systems, especially the degree of water saturation, are likely to impact microbial biogeochemical cycling, including carbon (C), nitrogen (N), and phosphorus (P), as well as greenhouse gas (GHG) emissions to the atmosphere. To study the impact of flooding on microbial methane (CH4 ) and nutrient cycling, two leach field soil columns were constructed...
December 27, 2018: Water Research
Xin Zhang, Jie Gu, Xiaojuan Wang, Kaiyu Zhang, Yanan Yin, Ranran Zhang, Sheqi Zhang
This study evaluated how tylosin (TYL), ciprofloxacin (CIP), and sulfadimidine (SM2 ) affected biogas and CH4 production during anaerobic digestion (AD) via their effects on the key genes related to methane production and the methanogenic community. The results showed that TYL, CIP, and SM2 reduced the production of methane during AD by 7.5%, 21.9%, and 16.0%, respectively. After AD for five days, CIP strongly inhibited the mcrA gene, where its abundance was 49% less than that in the control. TYL and SM2 decreased the abundances of Spirochaeta and Fibrobacteres during AD...
December 18, 2018: Chemosphere
Fabian Bonk, Denny Popp, Sören Weinrich, Heike Sträuber, Sabine Kleinsteuber, Hauke Harms, Florian Centler
Ammonia inhibition is an important reason for reactor failures and economic losses in anaerobic digestion. Its impact on acetic acid degradation is well-studied, while its effect on propionic and butyric acid degradation has received little attention and is consequently not considered in the Anaerobic Digestion Model No. 1 (ADM1). To compare ammonia inhibition of the degradation of these three volatile fatty acids (VFAs), we fed a mixture of them as sole carbon source to three continuous stirred tank reactors (CSTRs) and increased ammonium bicarbonate concentrations in the influent from 52 to 277 mM...
2018: Frontiers in Microbiology
Xiao Li, Cuiping Zeng, Yaobin Lu, Guangli Liu, Haiping Luo, Renduo Zhang
The aim of this study was to investigate the development of cathodic biofilm and its effect on methane production in a single-chamber microbial electrolysis cell (MEC). The MEC with 1 g/L acetate was successfully operated within 31 cycles (∼2400 h). The maximum methane production rate and average current capture efficiency in the MEC reached 93 L/m3 ·d and 82%, respectively. Distinct stratification of Methanobacteriaceae within cathodic biofilm was observed after 9 cycles of operation. The relative abundance of Methanobacteriaceae in the microbial community increased from 45...
December 3, 2018: Bioresource Technology
Jemaneh Habtewold, Robert Gordon, Vera Sokolov, Andrew VanderZaag, Claudia Wagner-Riddle, Kari Dunfield
Liquid dairy manure treated with sulfuric acid was stored in duplicate pilot-scale storage tanks for 120 days with continuous monitoring of CH4 emissions and concurrent examination of changes in the structure of bacterial and methanogenic communities. Methane emissions were monitored at the site using laser-based Trace Gas Analyzer whereas quantitative real-time polymerase chain reaction and massively parallel sequencing were employed to study bacterial and methanogenic communities using 16S rRNA and methyl-coenzyme M Reductase A ( mcrA ) genes/transcripts, respectively...
2018: Frontiers in Microbiology
Milka Popova, Jessie Guyader, Mathieu Silberberg, Ahmad Reza Seradj, Cristina Saro, Aurélien Bernard, Christine Gérard, Cécile Martin, Diego P Morgavi
Dietary supplementation with linseed, saponins and nitrate is a promising methane mitigation strategy in ruminant production. Here we aimed to assess the effects of these additives on the rumen microbiota in order to understand underlying microbial mechanisms of methane abatement. Two 2 × 2 factorial design studies were conducted simultaneously, which also allowed us to make a broad-based assessment of microbial responses. Eight non-lactating cows were fed diets supplemented with linseed or saponin in order to decrease hydrogen production and nitrate to deviate hydrogen consumption; also, combinations of linseed plus nitrate or saponin plus nitrate were used to explore the interaction between dietary treatments...
November 30, 2018: Applied and Environmental Microbiology
Avishek Dutta, Srimanti Dutta Gupta, Abhishek Gupta, Jayeeta Sarkar, Sukanta Roy, Abhijit Mukherjee, Pinaki Sar
Scientific deep drilling at Koyna, western India provides a unique opportunity to explore microbial life within deep biosphere hosted by ~65 Myr old Deccan basalt and Archaean granitic basement. Characteristic low organic carbon content, mafic/felsic nature but distinct trend in sulfate and nitrate concentrations demarcates the basaltic and granitic zones as distinct ecological habitats. Quantitative PCR indicates a depth independent distribution of microorganisms predominated by bacteria. Abundance of dsrB and mcrA genes are relatively higher (at least one order of magnitude) in basalt compared to granite...
November 29, 2018: Scientific Reports
Ya-Qi Wang, Ren Bai, Hong J Di, Liu-Ying Mo, Bing Han, Li-Mei Zhang, Ji-Zheng He
Straw returns to the soil is an effective way to improve soil organic carbon and reduce air pollution by straw burning, but this may increase CH4 and N2 O emissions risks in paddy soils. Biochar has been used as a soil amendment to improve soil fertility and mitigate CH4 and N2 O emissions. However, little is known about their interactive effect on CH4 and N2 O emissions and the underlying microbial mechanisms. In this study, a 2-year pot experiment was conducted on two paddy soil types (an acidic Utisol, TY, and an alkaline Inceptisol, BH) to evaluate the influence of straw and biochar applications on CH4 and N2 O emissions, and on related microbial functional genes...
2018: Frontiers in Microbiology
Mengfei Peng, Zajeba Tabashsum, Puja Patel, Cassandra Bernhardt, Debabrata Biswas
Probiotics, particularly lactic acid bacteria, are biologic agents which limit the growth, virulence, and survival/colonization of various enteric bacterial pathogens and serve as potential alternatives to antibiotics. Mechanisms that contribute to this antimicrobial effect include producing bioactive metabolites/acids, increasing nutrient and receptor-mediated competition, and modulating gut microbiome ecology. However, these functions of common probiotic strains are limited due to the finite quantity of metabolites they produce and their total number in the gut ecosystem...
2018: Frontiers in Microbiology
Xiaofei Li, Dengzhou Gao, Lijun Hou, Min Liu
Elevated salinity is expected to drive changes in biogeochemical cycling and microbial communities in estuarine and intertidal wetlands. However, limited information regarding the role of salinity in shaping biogeochemical controls and mediating greenhouse gas emissions is currently available. In this study, we used incubation experiment across salinity gradients of the estuarine and intertidal sediments to reveal the underlying interconnections of CH4 and N2 O emissions, biogeochemical controls and salinity gradients...
October 22, 2018: Science of the Total Environment
Ajoy Roy, Pinaki Sar, Jayeeta Sarkar, Avishek Dutta, Poulomi Sarkar, Abhishek Gupta, Balaram Mohapatra, Siddhartha Pal, Sufia K Kazy
BACKGROUND: Sustainable management of voluminous and hazardous oily sludge produced by petroleum refineries remains a challenging problem worldwide. Characterization of microbial communities of petroleum contaminated sites has been considered as the essential prerequisite for implementation of suitable bioremediation strategies. Three petroleum refinery sludge samples from North Eastern India were analyzed using next-generation sequencing technology to explore the diversity and functional potential of inhabitant microorganisms and scope for their on-site bioremediation...
October 22, 2018: BMC Microbiology
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