16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

doi:10.1128/JCM.01228-07

Review

. 2007 Sep;45(9):2761-4.

doi: 10.1128/JCM.01228-07. Epub 2007 Jul 11.

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

J Michael Janda¹, Sharon L Abbott

Affiliations

Affiliation

¹ Microbial Diseases Laboratory, Division of Communicable Disease Control, California Department of Public Health, Richmond, California 94804, USA. JohnMichael.Janda@cdph.ca.gov

PMID: 17626177
PMCID: PMC2045242
DOI: 10.1128/JCM.01228-07

Review

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

J Michael Janda et al. J Clin Microbiol. 2007 Sep.

. 2007 Sep;45(9):2761-4.

doi: 10.1128/JCM.01228-07. Epub 2007 Jul 11.

Authors

J Michael Janda¹, Sharon L Abbott

Affiliation

¹ Microbial Diseases Laboratory, Division of Communicable Disease Control, California Department of Public Health, Richmond, California 94804, USA. JohnMichael.Janda@cdph.ca.gov

PMID: 17626177
PMCID: PMC2045242
DOI: 10.1128/JCM.01228-07

No abstract available

PubMed Disclaimer

Cited by

The chaperonin-60 universal target is a barcode for bacteria that enables de novo assembly of metagenomic sequence data.
Links MG, Dumonceaux TJ, Hemmingsen SM, Hill JE. Links MG, et al. PLoS One. 2012;7(11):e49755. doi: 10.1371/journal.pone.0049755. Epub 2012 Nov 26. PLoS One. 2012. PMID: 23189159 Free PMC article.
Full Genome Sequence Analysis of Two Isolates Reveals a Novel Xanthomonas Species Close to the Sugarcane Pathogen Xanthomonas albilineans.
Pieretti I, Cociancich S, Bolot S, Carrère S, Morisset A, Rott P, Royer M. Pieretti I, et al. Genes (Basel). 2015 Jul 23;6(3):714-33. doi: 10.3390/genes6030714. Genes (Basel). 2015. PMID: 26213974 Free PMC article.
A unique DNA repair and recombination gene (recN) sequence for identification and intraspecific molecular typing of bacterial wilt pathogen Ralstonia solanacearum and its comparative analysis with ribosomal DNA sequences.
Kumar A, Prameela TP, Suseelabhai R. Kumar A, et al. J Biosci. 2013 Jun;38(2):267-78. doi: 10.1007/s12038-013-9312-0. J Biosci. 2013. PMID: 23660661
Microbial spectrum, antibiotic susceptibility profile, and biofilm formation of diabetic foot infections (2014-18): a retrospective multicenter analysis.
Al-Joufi FA, Aljarallah KM, Hagras SA, Al Hosiny IM, Salem-Bekhit MM, Youssof AME, Shakeel F. Al-Joufi FA, et al. 3 Biotech. 2020 Jul;10(7):325. doi: 10.1007/s13205-020-02318-x. Epub 2020 Jun 30. 3 Biotech. 2020. PMID: 32656058 Free PMC article.
The Association Between Intestinal Bacteria and Allergic Diseases-Cause or Consequence?
Han P, Gu JQ, Li LS, Wang XY, Wang HT, Wang Y, Chang C, Sun JL. Han P, et al. Front Cell Infect Microbiol. 2021 Apr 15;11:650893. doi: 10.3389/fcimb.2021.650893. eCollection 2021. Front Cell Infect Microbiol. 2021. PMID: 33937097 Free PMC article. Review.

See all "Cited by" articles

References

1. Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed
1. Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed
1. Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed
1. Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed
1. Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

Publication types

Actions

MeSH terms

Actions
Actions
Actions
Actions
Actions
Actions
Actions
Actions
Actions
Actions
Actions
Actions

Substances

Actions
Actions
Actions

LinkOut - more resources

Full Text Sources
Other Literature Sources
- The Lens - Patent Citations Database
Medical
- MedlinePlus Health Information

[1] Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed

[2] Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed

[3] Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed

[4] Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed

[5] Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed

[6] Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed

[7] Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed

[8] Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed

[9] Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

[10] Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

Save citation to file

Email citation

Add to Collections

Add to My Bibliography

Your saved search

Create a file for external citation management software

Your RSS Feed

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

Affiliation

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

Authors

Affiliation

Similar articles

Cited by

References

Publication types

MeSH terms

Substances

LinkOut - more resources

Full Text Sources

Other Literature Sources

Medical