Application of PCR-denaturing-gradient gel electrophoresis (DGGE) method to examine microbial community structure in asparagus fields with growth inhibition due to continuous cropping.

abstract：:N-Acylhomoserine lactones (AHLs) are used as quorum-sensing signaling molecules by many Gram-negative bacteria. Here, 413 bacterial strains were obtained from the roots of potato plants and screened for AHL-degrading bacteria using Chromobacterium violaceum reporter strains. Sixty one isolates degraded N-hexanoyl-L-ho...

journal_title：Microbes and environments

authors： Rashid R,Morohoshi T,Someya N,Ikeda T

更新日期：2011-01-01 00:00:00

abstract：:We examined the colonization rate and communities of arbuscular mycorrhizal fungi (AMF) in the roots of Pyrus pyrifolia var. culta (Japanese pear) in orchards to investigate the effect of phosphorus (P) fertilization on AMF. Soil cores containing the roots of Japanese pear were collected from 13 orchards in Tottori Pr...

journal_title：Microbes and environments

authors： Yoshimura Y,Ido A,Iwase K,Matsumoto T,Yamato M

更新日期：2013-01-01 00:00:00

abstract：:Termites depend nutritionally on their gut microbes, and protistan, bacterial, and archaeal gut communities have been extensively studied. However, limited information is available on viruses in the termite gut. We herein report the complete genome sequence (99,517 bp) of a phage obtained during a genome analysis of "...

journal_title：Microbes and environments

authors： Pramono AK,Kuwahara H,Itoh T,Toyoda A,Yamada A,Hongoh Y

更新日期：2017-06-24 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

authors： Nakaya A,Onodera Y,Nakagawa T,Satoh K,Takahashi R,Sasaki S,Tokuyama T

更新日期：2009-01-01 00:00:00

abstract：:To clarify altitudinal changes in the bacterial community on Gulkana Glacier in Alaska, we analyzed bacterial 16S rRNA gene by low-cycle PCR amplification, denaturing gradient gel electrophoresis (DGGE), and culturing in a snowmelt medium at 4°C. Low-cycle PCR-based cloning revealed the presence of 100 bacterial OTUs;...

journal_title：Microbes and environments

authors： Segawa T,Takeuchi N,Ushida K,Kanda H,Kohshima S

更新日期：2010-01-01 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

authors： Zhu H,Zeng D,Wang Q,Wang N,Zeng B,Niu L,Ni X

更新日期：2018-09-29 00:00:00

abstract：:A wide variety of haloorganic compounds undergo reductive dehalogenation by certain anaerobic microorganisms. Metabolic reductive dehalogenation is coupled with energy-conserving respiratory electron transport in which a halogenated compound is used as the terminal electron acceptor, the biological process called deha...

journal_title：Microbes and environments

authors： Hiraishi A

更新日期：2008-01-01 00:00:00

abstract：:A newly-developed molecular method, hierarchical oligonucleotide primer extension (HOPE), was used to analyze various groups within the species Cylindrospermopsis raciborskii. PCR-amplified internally transcribed spacer sequences of 16S-23S from C. raciborskii in reservoir samples of Taiwan and Kinmen were examined. O...

journal_title：Microbes and environments

authors： Wu JH,Hsu MH,Hung CH,Tseng IC,Lin TF

更新日期：2010-01-01 00:00:00

abstract：:In the present study, 77 strains of endophytic actinomycetes isolated from cabbage were screened in order to assess their biocontrol potential against Alternaria brassicicola on cabbage seedlings. In the first and second screening trials, cabbage seedlings pretreated with mycelial suspensions of each isolate were spra...

journal_title：Microbes and environments

authors： Hassan N,Nakasuji S,Elsharkawy MM,Naznin HA,Kubota M,Ketta H,Shimizu M

更新日期：2017-06-24 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

authors： Girard L,Peuchet S,Servais P,Henry A,Charni-Ben-Tabassi N,Baudart J

更新日期：2017-09-27 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

authors： Tang X,Xie G,Shao K,Dai J,Chen Y,Xu Q,Gao G

更新日期：2015-01-01 00:00:00

abstract：:The effects of a nitrogen-fixing tree, black locust (Robinia pseudoacacia), on the distribution of bacterial species were examined in a Japanese black pine (Pinus thunbergii) and black locust-dominated area. DNA was extracted from the soil at depths of 0-5 and 5-10 cm, collected at the border between a Japanese black ...

journal_title：Microbes and environments

authors： Taniguchi T,Kataoka R,Tamai S,Yamanaka N,Futai K

更新日期：2009-01-01 00:00:00

abstract：:The mining industry generates huge amounts of wastewater, containing toxic heavy metals. Treatment to remove heavy metals is necessary and recent work has been focused on finding more environmentally friendly materials for removing heavy metals from wastewater. Biosorption can be an effective process for heavy metal r...

journal_title：Microbes and environments

authors： Mohamad OA,Hao X,Xie P,Hatab S,Lin Y,Wei G

更新日期：2012-01-01 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

authors： Fernandes AFT,Wang P,Staley C,Aparecida Silva Moretto J,Miguel Altarugio L,Chagas Campanharo S,Guedes Stehling E,Jay Sadowsky M

更新日期：2020-01-01 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

authors： Ikenaga M,Sakai M

更新日期：2014-09-17 00:00:00

abstract：:Trichophyton ajelloi is a geophilic dermatophyte that specializes in the decomposition of native keratin. It exists in soil with a permanent influx of keratin matter. In the present study, two PCR-based methods were used for the identification and intra-species differentiation of T. ajelloi strains isolated from 3 typ...

journal_title：Microbes and environments

authors： Ciesielska A,Bohacz J,Korniłłowicz-Kowalska T,Stączek P

更新日期：2014-01-01 00:00:00

abstract：:Ultra-small microorganisms are ubiquitous in Earth's environments. Ultramicrobacteria, which are defined as having a cell volume of <0.1 μm3, are often numerically dominant in aqueous environments. Cultivated representatives among these bacteria, such as members of the marine SAR11 clade (e.g., "Candidatus Pelagibacte...

journal_title：Microbes and environments

authors： Nakai R

更新日期：2020-01-01 00:00:00

abstract：:We investigated the effects of the water status (flooded or non-flooded) and presence of the nosZ gene in bradyrhizobia on the bradyrhizobial community structure in a factorial experiment that examined three temperature levels (20°C, 25°C, and 30°C) and two soil types (andosol and gray lowland soil) using microcosm in...

journal_title：Microbes and environments

authors： Saeki Y,Nakamura M,Mason MLT,Yano T,Shiro S,Sameshima-Saito R,Itakura M,Minamisawa K,Yamamoto A

更新日期：2017-06-24 00:00:00

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

authors： Inoue J,Oshima K,Suda W,Sakamoto M,Iino T,Noda S,Hongoh Y,Hattori M,Ohkuma M

更新日期：2015-01-01 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

authors： Romanenko LA,Tanaka N,Uchino M,Kalinovskaya NI,Mikhailov VV

更新日期：2008-01-01 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

authors： Kajiwara H,Toda M,Mine T,Nakada H,Yamamoto T

更新日期：2012-01-01 00:00:00

abstract：:Due to their obligate symbiotic nature and lack of long-term storage methods, the strain collection of arbuscular mycorrhizal (AM) fungi requires periodic proliferation using a pot culture with host plants. Therefore, a method to evaluate the purity of proliferated AM fungal cultures is critical for the quality contro...

journal_title：Microbes and environments

authors： Ohtomo R,Oka N,Morimoto S

更新日期：2019-12-27 00:00:00

abstract：:The rhizobial type III secretion system secretes effector proteins into host plant cells, which may either promote or inhibit symbiosis with legumes. We herein demonstrated that the type III secretion system of Bradyrhizobium sp. SUTN9-2 obstructed symbiosis with Lotus japonicus Miyakojima, L. japonicus Gifu, and Lotu...

journal_title：Microbes and environments

authors： Hashimoto S,Goto K,Pyromyou P,Songwattana P,Greetatorn T,Tittabutr P,Boonkerd N,Teaumroong N,Uchiumi T

更新日期：2020-01-01 00:00:00

abstract：:Giant viruses of 'Megaviridae' have the ability to widely disperse around the globe. We herein examined 'Megaviridae' communities in four distinct aquatic environments (coastal and offshore seawater, brackish water, and hot spring freshwater), which are distantly located from each other (between 74 and 1,765 km), usin...

journal_title：Microbes and environments

authors： Li Y,Endo H,Gotoh Y,Watai H,Ogawa N,Blanc-Mathieu R,Yoshida T,Ogata H

更新日期：2019-09-25 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

authors： Lu H,Fujimura R,Sato Y,Nanba K,Kamijo T,Ohta H

更新日期：2008-01-01 00:00:00

abstract：:Nitrogen (N) cycles have been directly linked to the functional stability of ecosystems because N is an essential element for life. Furthermore, the supply of N to organisms regulates primary productivity in many natural ecosystems. Microbial communities have been shown to significantly contribute to N cycles because ...

journal_title：Microbes and environments

authors： Isobe K,Ohte N

更新日期：2014-01-01 00:00:00

abstract：:Antibiotics in animal husbandry are used to maintain welfare, but lead to the generation of resistant strains. We analyzed commensal multidrug-resistant Escherichia coli from pigs at the beginning and end of the production cycle in a farm with a farrow-to-finish system in order to investigate whether clonal spread or ...

journal_title：Microbes and environments

authors： Mazurek J,Bok E,Baldy-Chudzik K

更新日期：2018-09-29 00:00:00

abstract：:The aim of the present study was to investigate the prokaryotic community structure of the anaerobic ciliate, Metopus sp. using rRNA sequencing, fluorescence in situ hybridization (FISH), and transmission electron microscopy (TEM). Metopus sp. was physically separated from anaerobic granular sludge in a domestic waste...

journal_title：Microbes and environments

authors： Hirakata Y,Oshiki M,Kuroda K,Hatamoto M,Kubota K,Yamaguchi T,Harada H,Araki N

更新日期：2015-01-01 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

authors： Kongpol A,Kato J,Tajima T,Vangnai AS

更新日期：2012-01-01 00:00:00

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...

journal_title：Microbes and environments

authors： Kong B,Chen L,Kasahara Y,Sumida A,Ono K,Wild J,Nagatake A,Hatano R,Hara T

更新日期：2017-06-24 00:00:00