16S rRNA Gene-Based Identification of Bacteria and Archaea using the EzTaxon Server

2014 ◽  
pp. 61-74 ◽  
Author(s):  
Mincheol Kim ◽  
Jongsik Chun
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Rrna Gene ◽  
Identification Of Bacteria

Identification of bacteria associated with underground parts of Crocus sativus by 16S rRNA gene targeted metagenomic approach

2014 ◽  
Vol 30 (10) ◽  
pp. 2701-2709 ◽  
Author(s):  
Sheetal Ambardar ◽  
Naseer Sangwan ◽  
A. Manjula ◽  
J. Rajendhran ◽  
P. Gunasekaran ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Crocus Sativus ◽  
Rrna Gene ◽  
Identification Of Bacteria ◽  
Metagenomic Approach

Rapid identification of bacteria by real-time amplification and sequencing of the 16S rRNA gene

2006 ◽  
Vol 66 (1) ◽  
pp. 156-164 ◽  
Author(s):  
Inge Vliegen ◽  
Jan A. Jacobs ◽  
Erik Beuken ◽  
Cathrien A. Bruggeman ◽  
Cornelis Vink
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Real Time ◽  
Rapid Identification ◽  
Rrna Gene ◽  
Identification Of Bacteria ◽  
Time Amplification ◽  
The 16S Rrna Gene

scholarly journals Performance and Application of 16S rRNA Gene Cycle Sequencing for Routine Identification of Bacteria in the Clinical Microbiology Laboratory

2020 ◽  
Vol 33 (4) ◽  
Author(s):  
Deirdre L. Church ◽  
Lorenzo Cerutti ◽  
Antoine Gürtler ◽  
Thomas Griener ◽  
Adrian Zelazny ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Clinical Microbiology ◽  
Clinical Microbiology Laboratory ◽  
Rrna Gene ◽  
Microbiology Laboratory ◽  
Cycle Sequencing ◽  
16S Sequencing ◽  
Routine Identification ◽  
Identification Of Bacteria

SUMMARY This review provides a state-of-the-art description of the performance of Sanger cycle sequencing of the 16S rRNA gene for routine identification of bacteria in the clinical microbiology laboratory. A detailed description of the technology and current methodology is outlined with a major focus on proper data analyses and interpretation of sequences. The remainder of the article is focused on a comprehensive evaluation of the application of this method for identification of bacterial pathogens based on analyses of 16S multialignment sequences. In particular, the existing limitations of similarity within 16S for genus- and species-level differentiation of clinically relevant pathogens and the lack of sequence data currently available in public databases is highlighted. A multiyear experience is described of a large regional clinical microbiology service with direct 16S broad-range PCR followed by cycle sequencing for direct detection of pathogens in appropriate clinical samples. The ability of proteomics (matrix-assisted desorption ionization-time of flight) versus 16S sequencing for bacterial identification and genotyping is compared. Finally, the potential for whole-genome analysis by next-generation sequencing (NGS) to replace 16S sequencing for routine diagnostic use is presented for several applications, including the barriers that must be overcome to fully implement newer genomic methods in clinical microbiology. A future challenge for large clinical, reference, and research laboratories, as well as for industry, will be the translation of vast amounts of accrued NGS microbial data into convenient algorithm testing schemes for various applications (i.e., microbial identification, genotyping, and metagenomics and microbiome analyses) so that clinically relevant information can be reported to physicians in a format that is understood and actionable. These challenges will not be faced by clinical microbiologists alone but by every scientist involved in a domain where natural diversity of genes and gene sequences plays a critical role in disease, health, pathogenicity, epidemiology, and other aspects of life-forms. Overcoming these challenges will require global multidisciplinary efforts across fields that do not normally interact with the clinical arena to make vast amounts of sequencing data clinically interpretable and actionable at the bedside.

scholarly journals PEMANFAATAN GEN 16S rRNA SEBAGAI PERANGKAT IDENTIFIKASI BAKTERI UNTUK PENELITIAN-PENELITIAN DI INDONESIA

PHARMACON ◽  
2020 ◽  
Vol 9 (1) ◽  
pp. 16
Author(s):  
Claudia Valleria Akihary ◽  
Beivy Jonathan Kolondam
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Bacterial Species ◽  
Variable Region ◽  
Animal Husbandry ◽  
Agricultural Science ◽  
Research Tool ◽  
Rrna Gene ◽  
Accurate Identification ◽  
Identification Of Bacteria

ABSTRACTThe 16S rRNA gene has hyper variable region and different for one bacterial species to another. The gene is being used as research tool to help for accurate identification of bacteria in many fields in Indonesia. As a useful tool, the 16S rRNA gene sequence is important as to explore the potencies of a bacterial species. Sequencing of this gene is very useful for research in clinical study, fisheries, marine science, agricultural science, and animal husbandry in Indonesia.   Keywords: 16S rRNA gene, research tool, bacteria, Indonesia                                                                     ABSTRAKGen 16S rRNA memiliki region yang sangat bervariasi dan berbeda setiap spesies bakteri. Penggunaannya sebagai perangkat penelitian, gen 16S rRNA telah banyak membantu dalam proses identifikasi berbagai jenis bakteri secara akurat untuk berbagai penelitian di Indonesia. Gen 16S rRNA tidak hanya dapat mengidentifikasi tetapi dapat dijadikan arahan dalam mengetahui potensi suatu bakteri. Sekuensing gen 16S rRNA telah digunakan secara luas untuk penelitian di bidang klinis, perikanan, kelautan, pertanian dan peternakan di Indonesia.Kata Kunci: Gen 16S rRNA, perangkat penelitian, Bakteri, Indonesia.

Sign in / Sign up

Export Citation Format

Share Document