16S rRNA gene sequencing analysis
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis
... One hundred ninety single colonies were picked from a collection of upper respiratory tract culture isolates (URTCul) and restreaked until pure on appropriate solid agar plates as described in [36]. Once pure, isolates ...
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Comparative analysis of salivary microbiome in oral squamous cell carcinoma patients and healthy individuals using 16S rRNA sequencing
... (SSU rRNA) gene sequences of most currently recognized species and taxonomic groups of ...with sequencing of cloned libraries of PCR-amplified SSU rDNA, to profile the microbial communities in an ...
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Identification of Clinical Isolates of Indole Positive and Indole Negative Klebsiella spp
... rpoB gene, which encodes the bacterial RNA polymer- ase  -subunit, has been used as a signature for bacterial iden- tification and as a locus for phylogenetic analysis ...the 16S rRNA genes ...
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Robust, high-productivity phototrophic carbon capture at high pH and alkalinity using natural microbial communities
... (Licor Biosciences, Lincoln, NE, USA). All photobioreac- tors were maintained at a temperature of 25 ± 2 °C. Bio- film oxygen production was measured in real-time with an Agilent Mass Spectrometer MS5977A for 1 h each ...
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Molecular characterization of Mycobacterium avium complex isolates giving discordant results in AccuProbe tests by PCR restriction enzyme analysis, 16S rRNA gene sequencing, and DT1 DT6 PCR
... A detailed analysis of all DT1-positive isolates (14 discrep- ant strains plus 5 M. intracellulare strains) was performed by PRA, a method which was recently reported to be useful in identifying several ...
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Species Specific Identification of Campylobacters by Partial 16S rRNA Gene Sequencing
... the 16S rDNA. To improve the analysis, we investigated whether particular regions of 16S rDNA yield sufficient information to discrimi- nate among the ...taxa. 16S rDNA alignment studies ...
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Identification of Two Novel Mycobacterium avium Allelic Variants in Pig and Human Isolates from Brazil by PCR Restriction Enzyme Analysis
... 1). Sequencing of the 16S rRNA gene hy- pervariable fragment A (21) was performed for one isolate from each group and confirmed the identification of ...
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Species Specific Identification of Leptospiraceae by 16S rRNA Gene Sequencing
... the 16S rRNA gene from type strains of Leptospira species, ...near-full-length 16S rRNA gene sequences re- solved in the present study allow for identification of all Lep- ...
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Molecular Typing of Nocardia Species
... including 16S rRNA gene sequencing, restriction fragment length polymorphism (RFLP) or PCR restriction endonuclease analysis has been the focus of recent investigations to distinguish ...
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Catheter Related Microbacterium Bacteremia Identified by 16S rRNA Gene Sequencing
... Although 16S rRNA gene analysis confirmed that our two isolates were Mi- crobacterium species, the 16S rRNA genes in different Mi- crobacterium species are highly ...sequence ...
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Sequence Diversity of Neisseria meningitidis 16S rRNA Genes and Use of 16S rRNA Gene Sequencing as a Molecular Subtyping Tool
... of 16S rRNA genes and genetic relationship among meningococcal strains of different ...diverse 16S types among strains of serogroups B and C than among serogroups A and Y, which supports previous ...
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Characterization of a Mycobacterium intracellulare Variant Strain by Molecular Techniques
... the 16S rRNA gene was performed by PCR amplification of a 1,500-bp fragment, followed by manual sequencing of both chains at the hypervariable region ...restriction analysis of the ...
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Evidence of Multiple Treponema Phylotypes Involved in Bovine Digital Dermatitis as Shown by 16S rRNA Gene Analysis and Fluorescence In Situ Hybridization
... by 16S rRNA gene sequencing of bacteria from DD lesions or by fluorescence in situ hybridization (FISH) analysis using phylotype-specific 16S rRNA-directed oligonucleotide ...
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Direct Identification of Mycobacteria in Primary Liquid Detection Media by Partial Sequencing of the 65 Kilodalton Heat Shock Protein Gene
... hsp65 gene sequencing for the identification of mycobac- teria to isolates in primary liquid detection media as an economical, feasible, and more rapid means of ...or 16S rRNA gene ...
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Impact of DNA Sequencing and Analysis Methods on 16S rRNA Gene Bacterial Community Analysis of Dairy Products
... similar 16S rRNA gene se- quences, variation in their relative abundances could be caused by the accumulation of substitution errors, a common error that occurs with the Illumina MiSeq instrument ...
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Controlling for Contaminants in Low-Biomass 16S rRNA Gene Sequencing Experiments
... Another consideration for selecting a contaminant removal method is the format of the results, which may limit downstream analysis. The filtering approaches and Decon- tam classify individual ASVs (or operational ...
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Identification of “Haematobacter,” a New Genus of Aerobic Gram Negative Rods Isolated from Clinical Specimens, and Reclassification of Rhodobacter massiliensis as “Haematobacter massiliensis comb nov ”
... Polyphasic analysis of these strains, including morphological, biochemical, CFA composition, DNA- DNA hybridization, 16S rRNA gene sequencing, and percent guanine-plus-cytosine (G ⴙ C) ...
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Genomic analysis of a novel strain of Bacillus nealsonii, isolated from Surti buffalo rumen
... genome sequencing and functional an- notation of Bacillus nealsonii strain AAU1, an amylo- lytic anaerobic spore forming isolate from ruminal contents of ...Sequence analysis revealed a GC content of ...
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Quantification of variation and the impact of biomass in targeted 16S rRNA gene sequencing studies
... absolute 16S rRNA gene copy number and mean relative abundance affected the vari- ance in microbiome ...microbiome sequencing data [30, ...
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Novel Brucella Strain (BO1) Associated with a Prosthetic Breast Implant Infection
... formed 16S rRNA gene sequencing to confirm identification as a Brucella ...The 16S rRNA gene was amplified by PCR from BO1 genomic DNA, and both forward and reverse ...
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