Abstract:
:A combination of gene loss and acquisition through horizontal gene transfer (HGT) is thought to drive Streptococcus thermophilus adaptation to its niche, i.e. milk. In this study, we describe an in silico analysis combining a stochastic data mining method, analysis of homologous gene distribution and the identification of features frequently associated with horizontally transferred genes to assess the proportion of the S. thermophilus genome that could originate from HGT. Our mining approach pointed out that about 17.7% of S. thermophilus genes (362 CDSs of 1,915) showed a composition bias; these genes were called 'atypical'. For 22% of them, their functional annotation strongly support their acquisition through HGT and consisted mainly in genes encoding mobile genetic recombinases, exopolysaccharide (EPS) biosynthesis enzymes or resistance mechanisms to bacteriophages. The distribution of the atypical genes in the Firmicutes phylum as well as in S. thermophilus species was sporadic and supported the HGT prediction for more than a half (52%, 189). Among them, 46 were found specific to S. thermophilus. Finally, by combining our method, gene annotation and sequence specific features, new genome islands were suggested in the S. thermophilus genome.
journal_name
Arch Microbioljournal_title
Archives of microbiologyauthors
Eng C,Thibessard A,Danielsen M,Rasmussen TB,Mari JF,Leblond Pdoi
10.1007/s00203-010-0671-8subject
Has Abstractpub_date
2011-04-01 00:00:00pages
287-97issue
4eissn
0302-8933issn
1432-072Xjournal_volume
193pub_type
杂志文章abstract::The anaerobic bacterium Desulfobacterium cetonicum oxidized m-cresol completely with sulfate as electron acceptor. During growth, 3-hydroxybenzylsuccinate (identified by gas chromatography/mass spectroscopy and by comparison of high-performance liquid chromatography retention time and UV spectrum with a chemically syn...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s002030050782
更新日期:1999-11-01 00:00:00
abstract::Differences in the rumen bacterial community have been previously reported for Soay sheep housed under different day length conditions. This study extends this previous investigation to other organs of the digestive tract, as well as the analysis of ciliated protozoa and anaerobic fungi. The detectable concentrations ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-019-01652-w
更新日期:2019-09-01 00:00:00
abstract::Bioleaching is a promising process for 350 million tons Jinchuan low-grade pentlandite. But, Jinchuan pentlandite has lots of magnesium and high concentration of Mg2+ is harmful to bioleaching microorganisms. Thus, finding a way to improve the adaption of microorganisms to Mg2+ is a key for bioleaching. In the study, ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-018-1503-5
更新日期:2018-09-01 00:00:00
abstract::Bacillus subtilis strain 168 encodes two flavocytochromes P450, Cyp102A2 and Cyp102A3. The cyp102A3 gene is preceded by, and organized in an operon with, a gene for a transcriptional regulator, encoded by fatR. The paralogous gene, cyp102A2, is most likely transcribed as a mono-cistronic message. We show that fatR enc...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s002030100350
更新日期:2001-12-01 00:00:00
abstract::YfkE, a protein from Bacillus subtilis, exhibits homology to the Ca(2+):Cation Antiporter (CaCA) Family. In a fluorescence-based assay of everted membrane vesicles prepared from Na(+)(Ca(2+))/H(+) antiporter-defective mutant Escherichia coli KNabc, YfkE exhibited robust Ca(2+)/H(+) antiport activity, with a K (m) for ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-009-0494-7
更新日期:2009-08-01 00:00:00
abstract::Aerobic anoxygenic phototrophs (AAPs) are prokaryotic microorganisms capable of harvesting light using bacteriochlorophyll-based reaction centres. Marine AAP communities are generally dominated by species belonging to the Roseobacter clade. For this reason, we used marine Roseobacter-related strain COL2P as a model or...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-009-0529-0
更新日期:2010-01-01 00:00:00
abstract::Although Campylobacter survives within amoeba in-vitro, it is unknown if intra-amoeba Campylobacter jejuni can colonize broilers. Five groups of 28 day-of-hatch chicks were placed into separate isolators. Groups (1) and (2) were challenged with page's amoeba saline (PAS), and disinfected planktonic C. jejuni NCTC 1116...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0303-0
更新日期:2008-02-01 00:00:00
abstract::Cadmium is a widespread pollutant that has been associated with oxidative stress, but the mechanism behind this effect in prokaryotes is still unclear. In this work, we exposed two glutathione deficient mutants (DeltagshA and DeltagshB) and one respiration deficient mutant (DeltaubiE) to a sublethal concentration of c...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0316-8
更新日期:2008-03-01 00:00:00
abstract::The Gram-positive bacterium Clavibacter michiganensis subsp. sepedonicus is the causal agent of bacterial wilt and ring rot of potato. So far, only two proteins have been shown to be essential for virulence, namely a plasmid-encoded cellulase CelA and a hypersensitive response-inducing protein. We have examined the re...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0301-2
更新日期:2008-02-01 00:00:00
abstract::The essential oil (EO) from the roots of Plectranthus barbatus Andr. (Syn. Coleus forskohlii Briq.) was evaluated for quorum sensing (QS) inhibitory activity. P. barbatus EO was screened for inhibition of QS regulated violacein production in Chromobacterium violaceum (ATCC 12472) wild-type strain. At inhibitory (6.25%...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-020-02171-9
更新日期:2021-01-20 00:00:00
abstract::Previous work has shown that the mechanosensitive (MS) channel of large conductance (MscL) is essential for preventing lysis of Bacillus subtilis log phase cells upon a rapid, severe osmotic downshock. Growing cells of B. subtilis strains lacking MscL and one or more putative MS channel proteins of small conductance (...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0292-z
更新日期:2008-01-01 00:00:00
abstract::Chemical mutagenesis of the nucleotide-producing strain Corynebacterium ammoniagenes ATCC 6872 with N-methyl-N-nitro-N-nitrosoguanidine followed by an enrichment protocol yielded 46 temperature-sensitive (ts) clones. A rapid assay for the allosterically regulated Mn-ribonucleotide reductase (RRase) was developed with ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s002030050450
更新日期:1997-05-01 00:00:00
abstract::Cadmium is a non-essential toxic heavy metal for organisms, including plants and cyanobacteria. Cadmium resistance transporters involved in resistance of cells against various toxicants such as drugs and effluxes cytotoxic compounds from cells. However, cadmium resistance-associated protein (CadD) has never been repor...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-017-1462-2
更新日期:2018-04-01 00:00:00
abstract::It was assumed for a long time that the ability to catalyze atmospheric nitrogen (diazotrophy) has a narrow distribution among actinobacteria being limited to the genus Frankia. Recently, the number of nitrogen fixation (nifH) genes identified in other non-Frankia actinobacteria has dramatically increased and has open...
journal_title:Archives of microbiology
pub_type: 杂志文章,评审
doi:10.1007/s00203-011-0733-6
更新日期:2012-01-01 00:00:00
abstract::Polyhydroxyalkanoates (PHAs) are biological polyesters, of which, Short-Chain-Length-Medium-Chain-Length (SCL-MCL) PHA copolymers are important because of their wide range of applications. The present study focused on molecular characterization of Pseudomonas sp. LDC-5 that is identified as SCL-MCL producer. Phase con...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0265-2
更新日期:2007-11-01 00:00:00
abstract::We investigated the structural and immunochemical characteristics of cell wall mannan obtained from Candida sojae JCM 1644, which is a new yeast species isolated from defatted soybean flakes. The results of a slide-agglutination test and of an enzyme-linked immunosorbent assay using anti-factor sera to the pathogenic ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-007-0339-1
更新日期:2008-05-01 00:00:00
abstract::Representative strains of Gardnerella vaginalis were degraded using both an alkaline and an acid methanolysis and the fatty acid methyl esters released examined by thin-layer and gas chromatography. The profiles obtained were both qualitatively and quantitatively similar and were comprised of straight chain saturated ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/BF00425410
更新日期:1984-05-01 00:00:00
abstract::The fine structure of the Gram-negative filamentous gliding bacterium, Herpetosiphon is described. The outer membrane of the cell envelope could not be resolved as a separate structure, probably because it is fused with the underlying dense (peptidoglycan) layer. There was an additional wall layer outside this membran...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/BF00428379
更新日期:1975-03-10 00:00:00
abstract::Nitrogen (N) is among the most important macro-nutrients significantly affecting plant growth and yield production. Accordingly, N must be supplied adequately so that optimum amounts of yield are resulted. There are different ways of supplying N to the plant including the use of chemical and biological fertilization. ...
journal_title:Archives of microbiology
pub_type: 杂志文章,评审
doi:10.1007/s00203-010-0657-6
更新日期:2011-02-01 00:00:00
abstract::Acinetobacter species remain alive in hospitals on various surfaces, both dry and moist, forming an important source of hospital infections. These bacteria are naturally resistant to many antibiotic classes. Although the role of the quorum sensing system in regulating the virulence factors of Acinetobacter species has...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-017-1408-8
更新日期:2017-12-01 00:00:00
abstract::P1B-type ATPases are involved in heavy metal transport across the plasma membrane. Some Mycobacterium tuberculosis P-type ATPases are induced during infection, suggesting that this type of transporter could play a critical role in mycobacterial survival. To date, the ion specificity of M. tuberculosis heavy metal-tran...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-017-1465-z
更新日期:2018-04-01 00:00:00
abstract::The biological effects of UV radiation of different wavelengths (UVA, UVB and UVC) were assessed in nine bacterial isolates displaying different UV sensitivities. Biological effects (survival and activity) and molecular markers of oxidative stress [DNA strand breakage (DSB), generation of reactive oxygen species (ROS)...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-012-0847-5
更新日期:2013-01-01 00:00:00
abstract::A novel Gram-stain positive, aerobic, non-motile Actinobacterium, designated strain SB3404T, was isolated from saltern soil collected from Boncuk Saltern, Sungurlu-Çorum, Turkey, and subjected to a polyphasic taxonomic approach. The organism has shown to have phylogenetic, chemotaxonomic, cultural and morphological pr...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-020-02036-1
更新日期:2021-01-01 00:00:00
abstract::The catabolic products of arginine metabolism were observed in Aphanocapsa 6308, a unicellular cyanobacterium, by thin layer chromatography of growth media, by limiting growth conditions, and by enzymatic analysis. Of the organic, nitrogenous compounds examined, only arginine supported growth in CO2-free media. The ex...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/BF00406066
更新日期:1978-07-01 00:00:00
abstract::In Lactobacillus casei BL23, phosphofructokinase activity was higher in cells utilizing sugars transported by the phosphoenolpyruvate:sugar phosphotransferase system (PTS). The phosphofructokinase gene (pfk) was cloned from L. casei and shown to be clustered with the gene encoding pyruvate kinase (pyk). pfk and pyk ge...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-005-0003-6
更新日期:2005-09-01 00:00:00
abstract::Mycothiol is the predominant thiol in most actinomycetes, including Mycobacterium tuberculosis, and appears to play a role analogous to glutathione, which is not found in these bacteria. The enzymes involved in mycothiol biosynthesis are of interest as potential targets for new drugs directed against tuberculosis. In ...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s00203-002-0462-y
更新日期:2002-11-01 00:00:00
abstract::Electron microscopic studies emphasized that the protein-E-specific transmembrane tunnel structure, which permeabilizes Escherichia coli, is not randomly distributed over the cell envelope but is restricted to areas of potential division sites. These sites were located predominantly in the middle of the cell, but appr...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/s002030050641
更新日期:1998-10-01 00:00:00
abstract::AMP-degrading pathways in Azotobacter vinelandii cells were investigated. AMP nucleosidase (EC 3.2.2.4) was rapidly synthesized and reached a maximum at 24 h, while the activity of 5'-nucleotidase (EC 3.1.3.5) specific for AMP, which was negligible during the logarithmic phase of the growth, first appeared in 24 h-cul...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/BF00406162
更新日期:1980-12-01 00:00:00
abstract::Methanotrophs are ubiquitous in the environment and play an important role in mitigating global warming due to methane. They are also potentially interesting for industrial applications such as production of bulk chemicals or bioremediation. The first step in the oxidation of methane is the conversion to methanol by m...
journal_title:Archives of microbiology
pub_type: 杂志文章,评审
doi:10.1007/s002030000158
更新日期:2000-05-01 00:00:00
abstract::Curcumin is a yellow-orange compound derived from the root of Curcuma longa (Zingiberaceae family), that has been used as a medicine, spice and coloring agent. Curcumin has proved nontoxic in a number of cell culture and whole animal studies. Curcumin has, however, been reported to have bactericidal effects at very hi...
journal_title:Archives of microbiology
pub_type: 杂志文章
doi:10.1007/BF00414437
更新日期:1989-01-01 00:00:00