Literature DB >> 22403421

Evaluation of the GenBank, EzTaxon, and BIBI services for molecular identification of clinical blood culture isolates that were unidentifiable or misidentified by conventional methods.

Kyung Sun Park1, Chang-Seok Ki, Cheol-In Kang, Yae-Jean Kim, Doo Ryeon Chung, Kyong Ran Peck, Jae-Hoon Song, Nam Yong Lee.   

Abstract

We compared the 16S rRNA gene sequencing results analyzed with the GenBank, EzTaxon, and BIBI databases for blood culture specimens for which identifications were incomplete, conflicting, or unidentifiable using conventional methods. Analyses performed using GenBank combined with EzTaxon (kappa = 0.79) were more discriminative than those using other databases alone or in combination with a second database.

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Year:  2012        PMID： 22403421      PMCID： PMC3347139          DOI： 10.1128/JCM.00081-12

Source DB:  PubMed          Journal:  J Clin Microbiol        ISSN： 0095-1137            Impact factor:   5.948


  10 in total

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Authors:  C Y Turenne; L Tschetter; J Wolfe; A Kabani
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2.  BIBI, a bioinformatics bacterial identification tool.

Authors:  G Devulder; G Perrière; F Baty; J P Flandrois
Journal:  J Clin Microbiol       Date:  2003-04       Impact factor: 5.948

3.  Usefulness of the MicroSeq 500 16S ribosomal DNA-based bacterial identification system for identification of clinically significant bacterial isolates with ambiguous biochemical profiles.

Authors:  Patrick C Y Woo; Kenneth H L Ng; Susanna K P Lau; Kam-tong Yip; Ami M Y Fung; Kit-wah Leung; Dorothy M W Tam; Tak-lun Que; Kwok-yung Yuen
Journal:  J Clin Microbiol       Date:  2003-05       Impact factor: 5.948

Review 4.  Impact of 16S rRNA gene sequence analysis for identification of bacteria on clinical microbiology and infectious diseases.

Authors:  Jill E Clarridge
Journal:  Clin Microbiol Rev       Date:  2004-10       Impact factor: 26.132

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Authors:  T Z DeSantis; P Hugenholtz; N Larsen; M Rojas; E L Brodie; K Keller; T Huber; D Dalevi; P Hu; G L Andersen
Journal:  Appl Environ Microbiol       Date:  2006-07       Impact factor: 4.792

6.  EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences.

Authors:  Jongsik Chun; Jae-Hak Lee; Yoonyoung Jung; Myungjin Kim; Seil Kim; Byung Kwon Kim; Young-Woon Lim
Journal:  Int J Syst Evol Microbiol       Date:  2007-10       Impact factor: 2.747

7.  Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa.

Authors:  R A Clayton; G Sutton; P S Hinkle; C Bult; C Fields
Journal:  Int J Syst Bacteriol       Date:  1995-07

8.  Evaluation of partial 16S ribosomal DNA sequencing for identification of nocardia species by using the MicroSeq 500 system with an expanded database.

Authors:  Joann L Cloud; Patricia S Conville; Ann Croft; Dag Harmsen; Frank G Witebsky; Karen C Carroll
Journal:  J Clin Microbiol       Date:  2004-02       Impact factor: 5.948

9.  Evaluation of RIDOM, MicroSeq, and Genbank services in the molecular identification of Nocardia species.

Authors:  Alexander Mellmann; Joann L Cloud; Sebastian Andrees; Kym Blackwood; Karen C Carroll; Amin Kabani; Andreas Roth; Dag Harmsen
Journal:  Int J Med Microbiol       Date:  2003-11       Impact factor: 3.473

10.  The Ribosomal Database Project: improved alignments and new tools for rRNA analysis.

Authors:  J R Cole; Q Wang; E Cardenas; J Fish; B Chai; R J Farris; A S Kulam-Syed-Mohideen; D M McGarrell; T Marsh; G M Garrity; J M Tiedje
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  10 in total
  10 in total

1.  Two Serious Cases of Infection with Clostridium celatum after 40 Years in Hiding?

Authors:  Charlotte Nielsen Agergaard; Silje Vermedal Hoegh; Hanne Marie Holt; Ulrik Stenz Justesen
Journal:  J Clin Microbiol       Date:  2015-11-11       Impact factor: 5.948

2.  Clinical Significance and Characterization of Streptococcus tigurinus Isolates in an Adult Population.

Authors:  Lori Bourassa; J E Clarridge
Journal:  J Clin Microbiol       Date:  2015-09-09       Impact factor: 5.948

3.  Antimicrobial and antinematicidal metabolites from Streptomyces cuspidosporus strain SA4 against selected pathogenic bacteria, fungi and nematode.

Authors:  Essam Nageh Sholkamy; P Muthukrishnan; Neveen Abdel-Raouf; X Nandhini; Ibraheem B M Ibraheem; Ashraf A Mostafa
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4.  Molecular analysis and clinical significance of Lactobacillus spp. recovered from clinical specimens presumptively associated with disease.

Authors:  Raquel M Martinez; Kristina G Hulten; Uyen Bui; Jill E Clarridge
Journal:  J Clin Microbiol       Date:  2013-10-16       Impact factor: 5.948

5.  Identification and clinical significance of Helcococcus species, with description of Helcococcus seattlensis sp. nov. from a patient with urosepsis.

Authors:  Siu-Kei Chow; Jill E Clarridge
Journal:  J Clin Microbiol       Date:  2013-12-26       Impact factor: 5.948

6.  Utility of a Direct 16S rDNA PCR and Sequencing for Etiological Diagnosis of Infective Endocarditis.

Authors:  Min Sun Kim; Jeonghyun Chang; Mi Na Kim; Sang Ho Choi; Sung Ho Jung; Jae Won Lee; Heungsup Sung
Journal:  Ann Lab Med       Date:  2017-11       Impact factor: 3.464

7.  Laboratory Identification of Leptotrichia Species Isolated From Bacteremia Patients at a Single Institution.

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Journal:  Ann Lab Med       Date:  2017-05       Impact factor: 3.464

8.  Prevalence, antibiotic susceptibility and virulence factors of Enterococcus species in racing pigeons (Columba livia f. domestica).

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9.  leBIBIQBPP: a set of databases and a webtool for automatic phylogenetic analysis of prokaryotic sequences.

Authors:  Jean-Pierre Flandrois; Guy Perrière; Manolo Gouy
Journal:  BMC Bioinformatics       Date:  2015-08-12       Impact factor: 3.169

10.  Dynamic and Assembly of Epiphyte and Endophyte Lactic Acid Bacteria During the Life Cycle of Origanum vulgare L.

Authors:  Erica Pontonio; Raffaella Di Cagno; Waed Tarraf; Pasquale Filannino; Giuseppe De Mastro; Marco Gobbetti
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  10 in total

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