Abstract:
:In order to understand the relationships between understory bamboo and soil properties, we compared microbial community structures in the soil of a Betula ermanii boreal forest with Sasa kurilensis present and removed using high-throughput DNA sequencing. The presence of understory S. kurilensis strongly affected soil properties, including total carbon, total nitrogen, nitrate, and the C:N ratio as well as relative soil moisture. Marked differences were also noted in fungal and bacterial communities between plots. The relative abundance of the fungal phylum Ascomycota was 13.9% in the Sasa-intact plot and only 0.54% in the Sasa-removed plot. Among the Ascomycota fungi identified, the most prevalent were members of the family Pezizaceae. We found that the abundance of Pezizaceae, known to act as mycorrhizal fungi, was related to the amount of total carbon in the Sasa-intact plot. The relative abundance of Proteobacteria was significantly higher, whereas those of Planctomycetes and Actinobacteria were lower in the Sasa-intact plot than in the Sasa-removed plot. Furthermore, the results obtained suggest that some species of the phylum Planctomycetes are more likely to occur in the presence of S. kurilensis. Collectively, these results indicate that the presence of S. kurilensis affects microbial communities and soil properties in a B. ermanii boreal forest.
journal_name
Microbes Environjournal_title
Microbes and environmentsauthors
Kong B,Chen L,Kasahara Y,Sumida A,Ono K,Wild J,Nagatake A,Hatano R,Hara Tdoi
10.1264/jsme2.ME16154subject
Has Abstractpub_date
2017-06-24 00:00:00pages
103-111issue
2eissn
1342-6311issn
1347-4405journal_volume
32pub_type
杂志文章abstract::Diazotrophs had not previously been identified among bacterial species in the phylum Bacteroidetes until the rapid expansion of bacterial genome sequences, which revealed the presence of nitrogen fixation (nif) genes in this phylum. We herein determined the draft genome sequences of Bacteroides graminisolvens JCM 1509...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME14142
更新日期:2015-01-01 00:00:00
abstract::Arsenic (As) is a widely distributed toxic element in the environment and microorganisms have developed resistance mechanisms in order to tolerate it. The cellular response of the chemoorganotrophic arsenite (As[III])-oxidizing α-Proteobacteria, Sinorhizobium sp. strain A2, to arsenic was examined in the present study...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME15096
更新日期:2015-01-01 00:00:00
abstract::Branched nonylphenol (BNP), a degradation product of nonylphenol polyethoxylates, exerts estrogenic effects on various organisms. The genes underlying BNP degradation by Sphingobium amiense DSM 16289T were analyzed by complete genome sequencing and compared with those of the versatile BNP-degrading Sphingobium cloacae...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME18077
更新日期:2018-12-28 00:00:00
abstract::Effects of different land uses on densities of Escherichia coli, enterococci, and Clostridium perfringens in the water and soil of a tropical watershed were investigated. Densities of fecal indicator bacteria (FIBs) in the watershed exhibited a clear land-use dependency in the stream water. Significantly higher concen...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me11115
更新日期:2011-01-01 00:00:00
abstract::Elevated concentrations of atmospheric CO2 ([CO2]) enhance the production and emission of methane in paddy fields. In the present study, the effects of elevated [CO2], elevated temperature (ET), and no nitrogen fertilization (LN) on methanogenic archaeal and methane-oxidizing bacterial community structures in a free-a...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME16066
更新日期:2016-09-29 00:00:00
abstract::"Terre Calde di Medolla" (TCM) (literally, "Hot Lands of Medolla") refers to a farming area in Italy with anomalously high temperatures and diffuse emissions of biogenic CO2, which has been linked to CH4 oxidation processes from a depth of 0.7 m to the surface. We herein assessed the composition of the total bacterial...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME16087
更新日期:2016-12-23 00:00:00
abstract::Symbioses have played pivotal roles in biological, ecological, and evolutionary diversification. Symbiotic bacteria affect the biology of hosts in a number of ways. Esteya vermicola, an endoparasitic nematophagous fungus, has high infectivity in the pine wood nematode (PWN), which causes devastating ecological damage ...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME16167
更新日期:2017-09-27 00:00:00
abstract::Changes in the bacterial community in soil-water suspensions during the enrichment period of 2,4-D and 2,4,5-T degraders were examined using denaturing gradient gel electrophoresis (DGGE) analysis of the 16S rRNA gene. The nucleotide sequences of almost all major bands at the degradation of 2,4-D and 2,4,5-T correspon...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.23.142
更新日期:2008-01-01 00:00:00
abstract::The role of microbes in the early development of ecosystems on new volcanic materials seems to be crucial to primary plant succession but is not well characterized. Here we analyzed the bacterial community colonizing 22-year-old volcanic deposits of the Miyake-jima Island (Japan) using culture-based and 16S rRNA gene ...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.23.66
更新日期:2008-01-01 00:00:00
abstract::Chitin amendment is an agricultural management strategy for controlling soil-borne plant disease. We previously reported an exponential decrease in chitin added to incubated upland soil. We herein investigated the transition of the bacterial community structure in chitin-degrading soil samples over time and the charac...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME19070
更新日期:2020-01-01 00:00:00
abstract::The nifV gene encodes homocitrate synthase, the enzyme that catalyzes the formation of homocitrate, which is essential for arranging the FeMo-cofactor in the catalytic center of nitrogenase. Some host plants, such as Lotus japonicus, supply homocitrate to their symbionts, in this case, Mesorhizobium loti, which lacks ...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME19078
更新日期:2019-12-27 00:00:00
abstract::Members of the Marseilleviridae family are large DNA viruses with icosahedral particle structures that infect Acanthamoeba cells. The first Marseillevirus to be discovered was isolated in 2009. Since then, several other members of the Marseilleviridae family have been reported, including Lausannevirus, Senegalvirus, C...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME16107
更新日期:2016-12-23 00:00:00
abstract::Four hundred and fifty nine isolates of fluorescent pseudomonads were obtained from the leaves and roots of potato plants. Of these, 20 leaf isolates and 28 root isolates induced violacein production in two N-acylhomoserine lactone (AHL)-reporter strains-Chromobacterium violaceum CV026 and VIR24. VIR24 is a new report...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me09155
更新日期:2009-01-01 00:00:00
abstract::Fucose-containing oligosaccharides on the cell surface of some pathogenic bacteria are thought to be important for host-microbe interactions and to play a major role in the pathogenicity of bacterial pathogens. Here, we screened marine bacteria for glycosyltransferases using two methods: a one-pot glycosyltransferase ...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me12058
更新日期:2012-01-01 00:00:00
abstract::The simultaneous extraction of plant organelle (mitochondria and plastid) genes during the DNA extraction step is a major limitation in investigating the community structures of bacteria associated with plants because organelle SSU rRNA genes are easily amplified by PCR using primer sets that are specific to bacteria....
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me14061
更新日期:2014-09-17 00:00:00
abstract::The aim of the study was to survey cultivable heterotrophic bacteria from sea ice samples collected from Peter the Great Bay of the Sea of Japan, and to test the isolates for antagonistic activity. A total of 195 strains were isolated and investigated by a phenotypic approach. The 16S rRNA gene sequence analysis of th...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.23.209
更新日期:2008-01-01 00:00:00
abstract::The present study aimed to reveal the eukaryotic diets of two economically important marine sediment-inhabiting worms, Sipunculus nudus (peanut worm) and Urechis unicinctus (spoon worm), using clone libraries and phylogenetic analyses of 18S rRNA genes. Fungal rDNA was also targeted and analyzed to reveal mycobiomes. ...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME18065
更新日期:2018-09-29 00:00:00
abstract::Various DNA extraction methods are often used interchangeably for the characterization of microbial communities despite indications that different techniques produce disparate results. The microbiomes of two ascidian species were herein characterized using two common DNA extraction kits, the DNeasy Blood and Tissue Ki...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME18031
更新日期:2018-12-28 00:00:00
abstract::Terrestrial hydrocarbon seeps are an important source of naturally emitted methane over geological time. The exact community compositions responsible for carbon cycling beneath these surface features remain obscure. As sulfate reduction represents an essential process for anoxic organic mineralization, this study coll...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME14086
更新日期:2014-01-01 00:00:00
abstract::The relative isolation and unique physical properties of the Savusavu Hot Springs in Fiji may yield unique thermophiles. This study was conducted to determine the presence of aerobic thermophilic bacteria in these hot springs. A total of 104 thermophilic bacterial isolates were characterized and using Thermus and Baci...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me08105
更新日期:2008-01-01 00:00:00
abstract::Atrazine is a triazine herbicide that is widely used to control broadleaf weeds. Its widespread use over the last 50 years has led to the potential contamination of soils, groundwater, rivers, and lakes. Its main route of complete degradation is via biological means, which is carried out by soil microbiota using a 6-s...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME19143
更新日期:2020-01-01 00:00:00
abstract::Small cyanobacteria (<2 µm, pico-cyanobacteria) are abundant in waters deeper than the oxic-anoxic zone in the halocline of a saline meromictic lake, Lake Suigetsu, Fukui, Japan. We have isolated 101 strains that were grouped into six groups by means of the phycobiliprotein composition and sequence homology of the int...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me11329
更新日期:2012-01-01 00:00:00
abstract::A cellular approach combining Direct Viable Counting and Fluorescent In Situ Hybridization using a one-step multiple-probe technique and Solid Phase Cytometry (DVC-FISH-SPC) was developed to monitor total viable vibrios and cover the detection of a large diversity of vibrios. FISH combined three probes in the same ass...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME17028
更新日期:2017-09-27 00:00:00
abstract::Diarrhea is often associated with marked alterations in the intestinal microbiota, termed dysbiosis; however, limited information is currently available on the intestinal microbiota in captive golden snub-nosed monkeys (Rhinopithecus roxellana) with diarrhea. We herein characterized the fecal microbiota in diarrhea an...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME17163
更新日期:2018-09-29 00:00:00
abstract::Members of the Legionella genus find suitable conditions for their growth and survival in nuclear power plant cooling circuits. To limit the proliferation of Legionella pathogenic bacteria in nuclear power plant cooling circuits, and ensure that levels remain below regulatory thresholds, monochloramine treatment can b...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me12205
更新日期:2013-01-01 00:00:00
abstract::A Gram-positive marine bacterium, Exiguobacterium sp. SBH81, was isolated as a hydrophilic organic-solvent tolerant bacterium, and exhibited high tolerance to various types of toxic hydrophilic organic solvents, including acetonitrile, at relatively high concentrations (up to 6% [v/v]) under the growing conditions. In...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me11228
更新日期:2012-01-01 00:00:00
abstract::The present study describes the occurrence of a unique archaeal ammonia monooxygenase alpha subunit (amoA) gene in nitrifying acid-sulfate soil microcosms at pH 3.5. The soil was collected from an abandoned paddy field in Thailand. Microcosms were incubated in the dark at 30°C for 372 days with the following three tre...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.me09104
更新日期:2009-01-01 00:00:00
abstract::MicroRNAs (miRNAs) are a group of small non-coding RNAs that suppress the expression of target mRNAs. The seed sequence of miRNA plays a crucial role in recognizing the 3'-untranslated region of the target mRNA. Cells infected with a simian foamy virus (SFV) isolated from an African green monkey (Chlorocebus aethiops)...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME19130
更新日期:2020-01-01 00:00:00
abstract::Chemosynthetic microbial communities develop and form dense cell aggregates in slightly alkaline sulfidic hot springs in the temperature range of 70-86°C at Nakabusa, Japan. Nitrogenase activity has recently been detected in the microbial communities collected. To identify possible members capable of nitrogen fixation...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME18030
更新日期:2018-12-28 00:00:00
abstract::Oligosaline lakes in arid regions provide indispensable water resources for humans; however, information on the bacterial community composition (BCC) of this ecosystem is limited. In the present study, we explored seasonal and vertical variations in BCC in Lake Bosten, a unique oligosaline lake (1.2‰ salinity) in arid...
journal_title:Microbes and environments
pub_type: 杂志文章
doi:10.1264/jsme2.ME14177
更新日期:2015-01-01 00:00:00