Volume 12, Number 2—February 2006
Dispatch
Sequencing and Staphylococci Identification
Table 1
Primer | Application | Primer sequence (5´→3´) | Annealing temperature (°C) | Reference |
---|---|---|---|---|
Staph rpoB 1418f* | Amplification and sequencing | CAA TTC ATG GAC CAA GC | 52 | Modified from 7 |
Staph rpoB 3554r | Amplification | CCG TCC CAA GTC ATG AAA C | 52 | 7 |
Staph rpoB 1975r* | Sequencing | GCI ACI TGI TCC ATA CCT GT | 52 | Modified from 7 |
Staph rpoB 1876r*† | Sequencing | GAG TCA TCI TTY TCT AAG AAT GG | 52 | This study |
*Primers are numbered from the 3´ end of the primer on the forward strand of Staphylococcus aureus (GenBank accession no. X64172).
†Primer was used for sequencing when primer Staph rpoB 1975r did not work.
References
- von Eiff C, Peters G, Heilmann C. Pathogenesis of infections due to coagulase-negative staphylococci. Lancet Infect Dis. 2002;2:677–85. DOIPubMedGoogle Scholar
- Seifert H, Wisplinghoff H, Schnabel P, von Eiff C. Small colony variants of Staphylococcus aureus and pacemaker-related infection. Emerg Infect Dis. 2003;9:1316–8.PubMedGoogle Scholar
- Becker K, Harmsen D, Mellmann A, Meier C, Schumann P, Peters G, Development and evaluation of a quality-controlled ribosomal sequence database for 16S ribosomal DNA-based identification of Staphylococcus species. J Clin Microbiol. 2004;42:4988–95. DOIPubMedGoogle Scholar
- Kwok AY, Su SC, Reynolds RP, Bay SJ, Av-Gay Y, Dovichi NJ, Species identification and phylogenetic relationships based on partial HSP60 gene sequences within the genus Staphylococcus. Int J Syst Bacteriol. 1999;49:1181–92. DOIPubMedGoogle Scholar
- Poyart C, Quesne G, Boumaila C, Trieu-Cuot P. Rapid and accurate species-level identification of coagulase-negative staphylococci by using the sodA gene as a target. J Clin Microbiol. 2001;39:4296–301. DOIPubMedGoogle Scholar
- Drancourt M, Raoult D. rpoB gene sequence-based identification of Staphylococcus species. J Clin Microbiol. 2002;40:1333–8. DOIPubMedGoogle Scholar
- Euzeby JP. List of bacterial names with standing in nomenclature: a folder available on the internet. Int J Syst Bacteriol. 1997;47:590–2. DOIPubMedGoogle Scholar
- Trülzsch K, Rinder H, Trcek J, Bader L, Wilhelm U, Heesemann J. 'Staphylococcus pettenkoferi' a novel staphylococcal species isolated from clinical specimens. Diagn Microbiol Infect Dis. 2002;43:175–82. DOIPubMedGoogle Scholar
- Harmsen D, Karch H. 16S rDNA for diagnosing pathogens: a living tree. ASM News. 2004;70:19–24.
- Clarridge JE. Impact of 16S rRNA gene sequence analysis for identification of bacteria on clinical microbiology and infectious diseases. Clin Microbiol Rev. 2004;17:840–62. DOIPubMedGoogle Scholar
- Drancourt M, Roux V, Fournier P, Raoult D. rpoB gene sequence-based identification of aerobic gram-positive cocci of the genera Streptococcus, Enterococcus, Gemella, Abiotrophia, and Granulicatella. J Clin Microbiol. 2004;42:497–504. DOIPubMedGoogle Scholar
- Mollet C, Drancourt M, Raoult D. rpoB sequence analysis as a novel basis for bacterial identification. Mol Microbiol. 1997;26:1005–11. DOIPubMedGoogle Scholar
- Khamis A, Raoult D, La Scola B. Comparison between rpoB and 16S rRNA gene sequencing for molecular identification of 168 clinical isolates of Corynebacterium. J Clin Microbiol. 2005;43:1934–6. DOIPubMedGoogle Scholar
- Blackwood KS, Turenne CY, Harmsen D, Kabani AM. Reassessment of sequence-based targets for identification of Bacillus species. J Clin Microbiol. 2004;42:1626–30. DOIPubMedGoogle Scholar
- Cook VJ, Turenne CY, Wolfe J, Pauls R, Kabani A. Conventional methods versus 16S ribosomal DNA sequencing for identification of nontuberculous mycobacteria: cost analysis. J Clin Microbiol. 2003;41:1010–5. DOIPubMedGoogle Scholar
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