نتایج جستجو برای: 16s

تعداد نتایج: 23658  

2017
Dieter M. Tourlousse Satowa Yoshiike Akiko Ohashi Satoko Matsukura Naohiro Noda Yuji Sekiguchi

High-throughput sequencing of 16S rRNA gene amplicons (16S-seq) has become a widely deployed method for profiling complex microbial communities but technical pitfalls related to data reliability and quantification remain to be fully addressed. In this work, we have developed and implemented a set of synthetic 16S rRNA genes to serve as universal spike-in standards for 16S-seq experiments. The s...

Journal: :Proceedings of the National Academy of Sciences of the United States of America 1978
J Brosius M L Palmer P J Kennedy H F Noller

The complete nucleotide sequence of the 16S RNA gene from the rrnB cistron of Escherichia coli has been determined by using three rapid DNA sequencing methods. Nearly all of the structure has been confirmed by two to six independent sequence determinations on both DNA strands. The length of the 16S rRNA chain inferred from the DNA sequence is 1541 nucleotides, in close agreement with previous e...

Journal: :FEMS microbiology ecology 2007
Anita L Davelos Baines Kun Xiao Linda L Kinkel

Correspondence between two distinct genetic traits, 16S rRNA gene sequences and repetitive element-sequence-based BOX-PCR DNA fingerprints, and antibiotic inhibition and resistance phenotypes was explored for a spatially explicit sample of Streptomyces from a prairie soil. There was no correspondence between 16S rRNA gene sequence groups and antibiotic phenotypes. However, 16S rRNA gene sequenc...

2015
Claudia Vilo Qunfeng Dong

The RDP Classifier is a widely used bioinformatic program that performs taxonomic classification of 16S rRNA gene sequences. However, the accuracy of the program is not clear when it is applied to common PCR products of the 16S rRNA variable regions, which are heavily used in microbiome projects. In this study, fulllength 16S rRNA gene alignments from the SILVA database were used to simulate th...

Journal: :The new microbiologica 2008
Marco Arosio Francesca Nozza Marco Rizzi Maurizio Ruggeri Pietro Casella Gianluca Beretta Annibale Raglio Antonio Goglio

Gene amplification using 16S rDNA primers has been proposed as a strategy for the diagnosis of bacterial meningitis. The aim of this study was to evaluate the performance of the MicroSeq 500 16S ribosomal DNA test (Applied Biosystems) from patients with suspected bacterial meningitis and CSF negative-culture in comparison to traditional methods. Twelve purulent culture-negative CSF samples were...

Journal: :Journal of clinical microbiology 2000
J J Walls P Caturegli J S Bakken K M Asanovich J S Dumler

The agent of human granulocytic ehrlichiosis (HGE), Ehrlichia phagocytophila, and Ehrlichia equi probably comprise variants of a single Ehrlichia species now called the Ehrlichia phagocytophila genogroup. These variants share a unique 153-kDa protein antigen with ankyrin repeat motifs encoded by the epank1 gene. The epank1 gene was investigated as an improved target for PCR diagnosis of HGE com...

Journal: :Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2011
Neethu Shah Haixu Tang Thomas G. Doak Yuzhen Ye

16S rRNA gene sequencing has been widely used for probing the species structure of a variety of environmental bacterial communities. Alternatively, 16S rRNA gene fragments can be retrieved from shotgun metagenomic sequences (metagenomes) and used for species profiling. Both approaches have their limitations-16S rRNA sequencing may be biased because of unequal amplification of species' 16S rRNA ...

2015
Nikhil Chaudhary Ashok K. Sharma Piyush Agarwal Ankit Gupta Vineet K. Sharma

The diversity of microbial species in a metagenomic study is commonly assessed using 16S rRNA gene sequencing. With the rapid developments in genome sequencing technologies, the focus has shifted towards the sequencing of hypervariable regions of 16S rRNA gene instead of full length gene sequencing. Therefore, 16S Classifier is developed using a machine learning method, Random Forest, for faste...

Journal: :International journal of systematic and evolutionary microbiology 2007
Jongsik Chun Jae-Hak Lee Yoonyoung Jung Myungjin Kim Seil Kim Byung Kwon Kim Young-Woon Lim

16S rRNA gene sequences have been widely used for the identification of prokaryotes. However, the flood of sequences of non-type strains and the lack of a peer-reviewed database for 16S rRNA gene sequences of type strains have made routine identification of isolates difficult and labour-intensive. In the present study, we generated a database containing 16S rRNA gene sequences of all prokaryoti...

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