Abstract:
:The Deepwater Horizon oil spill resulted in a massive influx of hydrocarbons into the Gulf of Mexico (the Gulf). To better understand the fate of the oil, we enriched and isolated indigenous hydrocarbon-degrading bacteria from deep, uncontaminated waters from the Gulf with oil (Macondo MC252) and dispersant used during the spill (COREXIT 9500). During 20 days of incubation at 5°C, CO(2) evolution, hydrocarbon concentrations and the microbial community composition were determined. Approximately 60% to 25% of the dissolved oil with or without COREXIT, respectively, was degraded, in addition to some hydrocarbons in the COREXIT. FeCl(2) addition initially increased respiration rates, but not the total amount of hydrocarbons degraded. 16S rRNA gene sequencing revealed a succession in the microbial community over time, with an increase in abundance of Colwellia and Oceanospirillales during the incubations. Flocs formed during incubations with oil and/or COREXIT in the absence of FeCl(2) . Synchrotron radiation-based Fourier transform infrared (SR-FTIR) spectromicroscopy revealed that the flocs were comprised of oil, carbohydrates and biomass. Colwellia were the dominant bacteria in the flocs. Colwellia sp. strain RC25 was isolated from one of the enrichments and confirmed to rapidly degrade high amounts (approximately 75%) of the MC252 oil at 5°C. Together these data highlight several features that provide Colwellia with the capacity to degrade oil in cold, deep marine habitats, including aggregation together with oil droplets into flocs and hydrocarbon degradation ability.
journal_name
Environ Microbioljournal_title
Environmental microbiologyauthors
Baelum J,Borglin S,Chakraborty R,Fortney JL,Lamendella R,Mason OU,Auer M,Zemla M,Bill M,Conrad ME,Malfatti SA,Tringe SG,Holman HY,Hazen TC,Jansson JKdoi
10.1111/j.1462-2920.2012.02780.xsubject
Has Abstractpub_date
2012-09-01 00:00:00pages
2405-16issue
9eissn
1462-2912issn
1462-2920journal_volume
14pub_type
杂志文章abstract::Raphidiopsis raciborskii is an invasive bloom-forming cyanobacteria with the flexibility to utilize atmospheric and fixed nitrogen. Since nitrogen-fixation has a high requirement for iron as an ezyme cofactor, we hypothesize that iron availability would determine the success of the species under nitrogen-fixing condit...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15328
更新日期:2021-01-01 00:00:00
abstract::The catalase family of Beauveria bassiana (fungal entomopathogen) consists of catA (spore-specific), catB (secreted), catP (peroxisomal), catC (cytoplasmic) and catD (secreted peroxidase/catalase), which were distinguished in phylogeny and structure and functionally characterized by constructing single-gene disrupted ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2012.02848.x
更新日期:2013-02-01 00:00:00
abstract::Traditionally, organisms responsible for major biogeochemical cycling processes have been determined by physiological characterization of environmental isolates in laboratory culture. Molecular techniques have, however, confirmed the widespread occurrence of abundant bacterial and archaeal groups with no cultivated re...
journal_title:Environmental microbiology
pub_type: 杂志文章,评审
doi:10.1111/j.1462-2920.2008.01775.x
更新日期:2008-11-01 00:00:00
abstract::In warm regions, agricultural fields are occupied by complex Aspergillus flavus communities composed of isolates in many vegetative compatibility groups (VCGs) with varying abilities to produce highly toxic, carcinogenic aflatoxins. Aflatoxin contamination is reduced with biocontrol products that enable atoxigenic iso...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15122
更新日期:2020-08-01 00:00:00
abstract::We reconstructed the complete 2.4 Mb-long genome of a previously uncultivated epsilonproteobacterium, Candidatus Sulfuricurvum sp. RIFRC-1, via assembly of short-read shotgun metagenomic data using a complexity reduction approach. Genome-based comparisons indicate the bacterium is a novel species within the Sulfuricur...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12453
更新日期:2014-11-01 00:00:00
abstract::Variability in the lipopolysaccharide (LPS) of the two most prevalent Salmonella serotypes causing food-borne salmonellosis was assessed using gas chromatography analysis of neutral sugars from 43 Salmonella enterica serovar Enteritidis (S. Enteritidis) and 20 Salmonella enterica serovar Typhimurium (S. Typhimurium) i...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2001.00200.x
更新日期:2001-05-01 00:00:00
abstract::Reactive oxygen species (ROS) induce the synthesis of a myriad of secondary metabolites, including aflatoxins. It raises significant concern as it is a potent environmental contaminant. In Aspergillus flavus., antioxidant enzymes link ROS stress response with coordinated gene regulation of aflatoxin biosynthesis. In t...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15011
更新日期:2020-07-01 00:00:00
abstract::Cyanobacteria are regarded as the main N(2)-fixing organisms in marine waters. However, recent clone libraries from various oceans show a wide distribution of the dinitrogenase reductase gene (nifH) originating from heterotrophic bacterioplankton. We isolated heterotrophic N(2)-fixing bacteria from Baltic Sea bacterio...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2006.01124.x
更新日期:2007-01-01 00:00:00
abstract::We present two genomes of widespread freshwater picocyanobacteria isolated by extinction dilution from a Spanish oligotrophic reservoir. Based on microscopy and genomic properties, both picocyanobacteria were tentatively designated Synechococcus lacustris Tous, formerly described as a metagenome assembled genome (MAG)...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14377
更新日期:2018-10-01 00:00:00
abstract::T4-like myoviruses are ubiquitous, and their genes are among the most abundant documented in ocean systems. Here we compare 26 T4-like genomes, including 10 from non-cyanobacterial myoviruses, and 16 from marine cyanobacterial myoviruses (cyanophages) isolated on diverse Prochlorococcus or Synechococcus hosts. A core ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2010.02280.x
更新日期:2010-11-01 00:00:00
abstract::It is well recognized that a dynamic biofilm develops upon plant biomass in the herbivore gastrointestinal tract, but this component of the microbiome has not previously been specifically sampled, or directly compared with the biodiversity present in the planktonic fraction of digesta. In this study, the digesta colle...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2005.00721.x
更新日期:2005-04-01 00:00:00
abstract::Methyl-coenzyme M reductase (MCR) has been originally identified to catalyse the final step of the methanogenesis pathway. About 20 years ago anaerobic methane-oxidizing archaea (ANME) were discovered that use MCR enzymes to activate methane. ANME thrive at the thermodynamic limit of life, are slow-growing, and in mos...
journal_title:Environmental microbiology
pub_type: 杂志文章,评审
doi:10.1111/1462-2920.15057
更新日期:2020-05-04 00:00:00
abstract::Mercury (Hg) is a highly toxic and widely distributed heavy metal, which some Bacteria and Archaea detoxify by the reduction of ionic Hg (Hg[II]) to the elemental volatile form, Hg(0). This activity is specified by the mer operon. The mer operon of the deeply branching thermophile Thermus thermophilus HB27 encodes for...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14953
更新日期:2020-04-01 00:00:00
abstract::Lignocellulose degradation is central to the carbon cycle and renewable biotechnologies. The xyloglucan (XyG), β(1→3)/β(1→4) mixed-linkage glucan (MLG) and β(1→3) glucan components of lignocellulose represent significant carbohydrate energy sources for saprophytic microorganisms. The bacterium Cellvibrio japonicus has...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13959
更新日期:2017-12-01 00:00:00
abstract::High-throughput sequencing (HTS) surveys, among the most common approaches currently used in environmental microbiology, require reliable reference databases to be correctly interpreted. The EukRef Initiative (eukref.org) is a community effort to manually screen available small subunit (SSU) rRNA gene sequences and pr...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14264
更新日期:2018-06-01 00:00:00
abstract::The fate of polychlorinated biphenyls (PCBs) in soil is driven by a combination of interacting biological processes. Several investigations have brought evidence that the rhizosphere provides a remarkable ecological niche to enhance the PCB degradation process by rhizobacteria. The bacterial oxidative enzymes involved...
journal_title:Environmental microbiology
pub_type: 杂志文章,评审
doi:10.1111/1462-2920.12007
更新日期:2013-03-01 00:00:00
abstract::Microorganisms regulate the composition of their membranes in response to environmental cues. Many Archaea maintain the fluidity and permeability of their membranes by adjusting the number of cyclic moieties within the cores of their glycerol dibiphytanyl glycerol tetraether (GDGT) lipids. Cyclized GDGTs increase memb...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14851
更新日期:2020-01-01 00:00:00
abstract::Current knowledge about rhizobial diversity patterns in non-nodule habitats is scarce, limiting our understanding of basic aspects of rhizobial ecology like competitiveness for nodule occupancy and host effects on community structure. We used a combination of cultivation-dependent and independent approaches to analyse...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13061
更新日期:2016-09-01 00:00:00
abstract::Stable carbon isotope fractionation during dichloromethane (DCM) degradation by methylotrophic bacteria was investigated under aerobic and nitrate-reducing conditions. The strains studied comprise several Hyphomicrobium strains, Methylobacterium, Methylopila, Methylophilus and Methylorhabdus spp. that are considered t...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2005.00878.x
更新日期:2006-01-01 00:00:00
abstract::The hair-like cell appendages denoted as type IV pili are crucial for biofilm formation in diverse eubacteria. The protein complex responsible for type IV pilus assembly is homologous with the type II protein secretion complex. In the cyanobacterium Synechococcus elongatus PCC 7942, the gene Synpcc7942_2071 encodes an...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13814
更新日期:2017-07-01 00:00:00
abstract::Thermotoga maritima is a marine hyperthermophilic microorganism that degrades a wide range of simple and complex carbohydrates including pectin and produces fermentative hydrogen at high yield. Galacturonate and glucuronate, two abundant hexuronic acids in pectin and xylan, respectively, are catabolized via committed ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2012.02856.x
更新日期:2012-11-01 00:00:00
abstract::Saccharomyces cerevisiae protein kinase Sch9 is one of the downstream effectors of the target of rapamycin (TOR) complex 1 and plays multiple roles in stress resistance, longevity and nutrient sensing. However, the functions of Sch9 orthologs in filamentous fungi, particularly in pathogenic species, have not been char...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12522
更新日期:2015-08-01 00:00:00
abstract::Mucormycosis is an emergent, fatal fungal infection of humans and warm-blooded animals caused by species of the order Mucorales. Immune cells of the innate immune system serve as the first line of defence against inhaled spores. Alveolar macrophages were challenged with the mucoralean fungus Lichtheimia corymbifera an...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15140
更新日期:2020-09-01 00:00:00
abstract::Serratia sp. ATCC 39006 produces intracellular gas vesicles to enable upward flotation in water columns. It also uses flagellar rotation to swim through liquid and swarm across semi-solid surfaces. Flotation and motility can be co-regulated with production of a β-lactam antibiotic (carbapenem carboxylate) and a linear...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15048
更新日期:2020-07-01 00:00:00
abstract::Soluble manganese in the intermediate +III oxidation state (Mn3+ ) is a newly identified oxidant in anoxic environments, whereas acetate is a naturally abundant substrate that fuels microbial activity. Microbial populations coupling anaerobic acetate oxidation to Mn3+ reduction, however, have yet to be identified. We ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13829
更新日期:2017-09-01 00:00:00
abstract::This study compared bacterial biofilm and planktonic cell susceptibility to metal toxicity by evaluating the minimum inhibitory concentration (MIC), the planktonic minimum bactericidal concentration (MBC), and minimum biofilm eradication concentration (MBEC) using the MBEC device. In total, 17 metal cations and oxyani...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2004.00656.x
更新日期:2004-12-01 00:00:00
abstract::The effect of environmental conditions, especially ammonium concentration, on community composition and nitrification activity of nitrifying bacterial biofilms in a pilot wastewater treatment plant was examined. A decreasing ammonium gradient was created when four aerated tanks with suspended carrier material were ser...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2007.01336.x
更新日期:2007-09-01 00:00:00
abstract::The distribution of nitrifying bacteria of the genera Nitrosomonas, Nitrosospira, Nitrobacter and Nitrospira was investigated in a membrane-bound biofilm system with opposed supply of oxygen and ammonium. Gradients of oxygen, pH, nitrite and nitrate were determined by means of microsensors while the nitrifying populat...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2000.00150.x
更新日期:2000-12-01 00:00:00
abstract::Microbes have obligate requirements for trace metals in metalloenzymes that catalyse important biogeochemical reactions. In anoxic methane- and sulphide-rich environments, microbes may have unique adaptations for metal acquisition and utilization because of decreased bioavailability as a result of metal sulphide preci...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12314
更新日期:2014-06-01 00:00:00
abstract::The role of archetypal ribonucleases (RNases) in the physiology and stress endurance of the soil bacterium and metabolic engineering platform Pseudomonas putida KT2440 has been inspected. To this end, variants of this strain lacking each of the most important RNases were constructed. Each mutant lacked either one exor...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15291
更新日期:2021-01-01 00:00:00