Abstract:
:The microbial communities established in soil samples from an unsaturated, petroleum-contaminated zone and from an adjacent uncontaminated site were characterized by physiological and molecular approaches. Possible electron acceptors such as sulfate and nitrate had been completely depleted in these soil samples. Slurries of these soil samples were incubated in bottles in the presence of hydrocarbon indicators (benzene, toluene, xylene and decane), and the degradation of these compounds was examined. Supplementation with electron acceptors stimulated hydrocarbon degradation, although the stimulatory effect was small in the contaminated soil. The initial degradation rates in the contaminated soil under fermentative/methanogenic conditions were comparable to those under aerobic conditions. The microbial populations in the original soil samples were analysed by cloning and sequencing of polymerase chain reaction (PCR)-amplified bacterial and archaeal 16S rRNA gene fragments, showing that the sequences retrieved from these soils were substantially different. For instance, Epsilonproteobacteria, Gammaproteobacteria, Crenarchaeota and Methanosarcinales could only be detected at significant levels in the contaminated soil. Denaturing gradient gel electrophoresis (DGGE) analyses of 16S rRNA gene fragments amplified by PCR from the incubated soil-slurry samples showed that supplementation of the electron acceptors resulted in a shift in the major populations, while the DGGE profiles after incubating the contaminated soil under the fermentative/methanogenic conditions were not substantially changed. These results suggest that petroleum contamination of the unsaturated zone resulted in the establishment of a fermentative/methanogenic community with substantial hydrocarbon-degrading potential.
journal_name
Environ Microbioljournal_title
Environmental microbiologyauthors
Kasai Y,Takahata Y,Hoaki T,Watanabe Kdoi
10.1111/j.1462-2920.2005.00754.xkeywords:
subject
Has Abstractpub_date
2005-06-01 00:00:00pages
806-18issue
6eissn
1462-2912issn
1462-2920pii
EMI754journal_volume
7pub_type
杂志文章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 haemolysin from enterohaemorrhagic Escherichia coli (EHEC-Hly) and the serine protease EspPα are putative virulence factors of EHEC. We investigated the interplay between these secreted factors and demonstrate that EspPα cleaves the 107 kDa large EHEC-Hly. Degradation was observed when purified EspPα was added to ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2011.02431.x
更新日期:2011-05-01 00:00:00
abstract::In January 1997, the tanker Nakhodka sank in the Japan Sea, and more than 5000 tons of heavy oil leaked. The released oil contaminated more than 500 km of the coastline, and some still remained even by June 1999. To investigate the long-term influence of the Nakhodka oil spill on marine bacterial populations, sea wate...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2001.00185.x
更新日期:2001-04-01 00:00:00
abstract::Manganese chemistry in soils is a function of complex, competing biotic and abiotic reactions. The role of soil-borne fungi in mediating these reactions is poorly understood. The objective of this article is to document direct observation of fungal Mn oxidation in soil under near in situ conditions, and to isolate, de...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2005.00842.x
更新日期:2005-09-01 00:00:00
abstract::A meromictic lake ecosystem (Mahoney Lake, BC, Canada) was investigated to elucidate the significance of chemocline bacteria in the total carbon cycle under natural conditions. In this lake, primary production by oxygenic phototrophs was insufficient to support the observed net secondary production of the calanoid cop...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.1999.00026.x
更新日期:1999-06-01 00:00:00
abstract::The genome of the soil bacterium Pseudomonas putida strain KT2440 has been erased of various determinants of resistance to antibiotics encoded in its extant chromosome. To this end, we employed a coherent genetic platform that allowed the precise deletion of multiple genomic segments in a large variety of Gram-negativ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2011.02538.x
更新日期:2011-10-01 00:00:00
abstract::Symbiotic association is universal in nature, and an array of symbionts play a crucial part in host life history. Aphids and their diverse symbionts have become a good model system to study insect-symbiont interactions. Previous symbiotic diversity surveys have mainly focused on a few aphid clades, and the relative im...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15391
更新日期:2021-01-07 00:00:00
abstract::The influence of microbial degradation on the 13C/12C isotope composition of aromatic hydrocarbons is presented using toluene as a model compound. Four different toluene-degrading bacterial strains grown in batch culture with oxygen, nitrate, ferric iron or sulphate as electron acceptors were studied as representative...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.1999.00050.x
更新日期:1999-10-01 00:00:00
abstract::The Cape Floral Kingdom is an area of unique plant biodiversity in South Africa with exceptional concentrations of rare and endemic species and experiencing drastic habitat loss. Here we present the first molecular study of the microbial diversity associated with the rhizosphere soil of endemic plants of the Proteacea...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2005.00929.x
更新日期:2005-11-01 00:00:00
abstract::Arthrobacter chlorophenolicus A6 is a Gram-positive, 4-chlorophenol-degrading soil bacterium that was recently shown to be an effective colonizer of plant leaf surfaces. The genetic basis for this phyllosphere competency is unknown. In this paper, we describe the genome-wide expression profile of A.chlorophenolicus on...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12375
更新日期:2014-07-01 00:00:00
abstract::Filamentous cyanobacteria are the main founders and primary producers in biological desert soil crusts (BSCs) and are likely equipped to cope with one of the harshest environmental conditions on earth including daily hydration/dehydration cycles, high irradiance and extreme temperatures. Here, we resolved and report o...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13486
更新日期:2017-02-01 00:00:00
abstract::Biological membranes have evolved different mechanisms to modify their composition in response to chemical stimuli in a process called 'homeoviscous adaptation'. Among these mechanisms, modifications in the ratio of saturated/unsaturated fatty acids and in cis/trans fatty acid isomers, cyclopropanation and changes in ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2006.01236.x
更新日期:2007-05-01 00:00:00
abstract::The presence of two insertion sequences, IS406 and IS407, was tested by polymerase chain reaction (PCR) amplification in 25 strains representing 15 Burkholderia species and the close relative Ralstonia pickettii. A total of 50% of the 25 strains contained at least one of the two insertion sequences (ISs) and a statist...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2001.00251.x
更新日期:2001-12-01 00:00:00
abstract::Vibrios belonging to the Harveyi clade are pathogenic marine bacteria affecting both vertebrates and invertebrates, thereby causing a severe threat to the aquaculture industry. In this study, the expression of haemolysin, metalloprotease, serine protease, the quorum sensing master regulator LuxR and the virulence regu...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2010.02354.x
更新日期:2011-02-01 00:00:00
abstract::The interactions of Vibrio aestuarianus 01/032 with haemolymph of the bivalves Mytilus galloprovincialis and Crassostrea gigas were investigated to understand if haemolymph components (haemocytes and soluble factors) could be involved in the higher resistance to microbial infection shown by mussels in comparison with ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12750
更新日期:2015-11-01 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::Butyrate-producing bacteria play an important role in the human colon, supplying energy to the gut epithelium and regulating host cell responses. In order to explore the diversity and culturability of this functional group, we designed degenerate primers to amplify butyryl-CoA:acetate CoA-transferase sequences from fa...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2009.02066.x
更新日期:2010-02-01 00:00:00
abstract::Although bacterioplankton and phytoplankton are generally perceived as closely linked in marine systems, specific interactions between discrete bacterioplankton and phytoplankton populations are largely unknown. However, measurements of bacterioplankton distributions during phytoplankton blooms may indicate specific m...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2006.01029.x
更新日期:2006-08-01 00:00:00
abstract::Stable isotope labelling of amino acids in cell culture (SILAC) is a quantitative proteomic method that can illuminate new pathways used by cells to adapt to different lifestyles and niches. Archaea, while thriving in extreme environments and accounting for ∼20%-40% of the Earth's biomass, have not been analyzed with ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14014
更新日期:2018-01-01 00:00:00
abstract::Xeromyces bisporus can grow on sugary substrates down to 0.61, an extremely low water activity. Its genome size is approximately 22 Mb. Gene clusters encoding for secondary metabolites were conspicuously absent; secondary metabolites were not detected experimentally. Thus, in its 'dry' but nutrient-rich environment, X...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12596
更新日期:2015-02-01 00:00:00
abstract::Chemolithoautotrophic nitrite oxidizers of the genus Nitrospira are a monophyletic but diverse group of organisms, are widely distributed in many natural habitats, and play a key role in nitrogen elimination during biological wastewater treatment. Phylogenetic analyses of cloned 16S rRNA genes and fluorescence in situ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2006.01033.x
更新日期:2006-08-01 00:00:00
abstract::Sulfate reduction accounts for about a half of the remineralization of organic carbon in anoxic marine shelf regions. Moreover, it was already a major microbial process in the very early ocean at least 2.4 billion years before the present. Here we demonstrate for the first time the capability of sulfate-reducing bacte...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2006.01014.x
更新日期:2006-07-01 00:00:00
abstract::In an attempt to link the microbial community composition and function in mine tailings to the generation of acid mine drainage, we simultaneously explored the geochemistry and microbiology of six tailings collected from a lead/zinc mine, i.e. primary tailings (T1), slightly acidic tailings (T2), extremely acidic tail...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12114
更新日期:2013-09-01 00:00:00
abstract::Here it is reported the first detection of DV-chl a together with the usual chl a in the marine dinoflagellate Alexandrium ostenfeldii from the Baltic Sea. Growth response and photosynthetic parameters were examined at two irradiances (80 and 240 μmol photons m(-2) s(-1)) and temperatures (15 °C and 19 °C) in a diviny...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13042
更新日期:2016-02-01 00:00:00
abstract::Polymicrobial bronchopulmonary infections in cystic fibrosis (CF) cause progressive lung damage and death. Although the arrival of Pseudomonas aeruginosa often heralds a more rapid rate of pulmonary decline, there is significant inter-individual variation in the rate of decline, the causes of which remain poorly under...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2010.02173.x
更新日期:2010-05-01 00:00:00
abstract::The biology of biofilm in deep-sea environments is barely being explored. Here, biofilms were developed at the brine pool (characterized by limited carbon sources) and the normal bottom water adjacent to Thuwal cold seeps. Comparative metagenomics based on 50 Gb datasets identified polysaccharide degradation, nitrate ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12978
更新日期:2015-10-01 00:00:00
abstract::Interaction between microbes affects the growth, metabolism and differentiation of members of the microbial community. While direct and indirect competition, like antagonism and nutrient consumption have a negative effect on the interacting members of the population, microbes have also evolved in nature not only to fi...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12564
更新日期:2015-06-01 00:00:00
abstract::Reactive oxygen species (ROS) play an important role during host-pathogen interactions and are often an indication of induced host defence responses. In this study, we demonstrate for the first time that Puccinia triticina (Pt) generates ROS, including superoxide, H2 O2 and hydroxyl radicals, during wheat infection. T...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15063
更新日期:2020-07-01 00:00:00
abstract::Serpentinization is the hydration and oxidation of ultramafic rock, which occurs as oceanic lithosphere is emplaced onto continental margins (ophiolites), and along the seafloor as faulting exposes this mantle-derived material to circulating hydrothermal fluids. This process leads to distinctive fluid chemistries as m...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15006
更新日期:2020-06-01 00:00:00
abstract::The aromatic hydrocarbon naphthalene, which occurs in coal and oil, can be degraded by aerobic or anaerobic microorganisms. A wide-spread electron acceptor for the latter is sulfate. Evidence for in situ naphthalene degradation stems in particular from the detection of 2-naphthoate and [5,6,7,8]-tetrahydro-2-naphthoat...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.15195
更新日期:2020-09-01 00:00:00