RT Journal Article
SR Electronic
T1 In silico analysis of 16S ribosomal RNA gene sequencing-based methods for identification of medically important anaerobic bacteria
JF Journal of Clinical Pathology
JO J Clin Pathol
FD BMJ Publishing Group Ltd and Association of Clinical Pathologists
SP 576
OP 579
DO 10.1136/jcp.2006.038653
VO 60
IS 5
A1 Patrick C Y Woo
A1 Liliane M W Chung
A1 Jade L L Teng
A1 Herman Tse
A1 Sherby S Y Pang
A1 Veronica Y T Lau
A1 Vanessa W K Wong
A1 Kwok-ling Kam
A1 Susanna K P Lau
A1 Kwok-Yung Yuen
YR 2007
UL http://jcp.bmj.com/content/60/5/576.abstract
AB This study is the first study that provides useful guidelines to clinical microbiologists and technicians on the usefulness of full 16S rRNA sequencing, 5′-end 527-bp 16S rRNA sequencing and the existing MicroSeq full and 500 16S rDNA bacterial identification system (MicroSeq, Perkin-Elmer Applied Biosystems Division, Foster City, California, USA) databases for the identification of all existing medically important anaerobic bacteria. Full and 527-bp 16S rRNA sequencing are able to identify 52–63% of 130 Gram-positive anaerobic rods, 72–73% of 86 Gram-negative anaerobic rods and 78% of 23 anaerobic cocci. The existing MicroSeq databases are able to identify only 19–25% of 130 Gram-positive anaerobic rods, 38% of 86 Gram-negative anaerobic rods and 39% of 23 anaerobic cocci. These represent only 45–46% of those that should be confidently identified by full and 527-bp 16S rRNA sequencing. To improve the usefulness of MicroSeq, bacterial species that should be confidently identified by full and/or 527-bp 16S rRNA sequencing but not included in the existing MicroSeq databases should be included.