Abstract:
:Due to the inadequate automation in the amplification and sequencing procedures, the use of 16S rRNA gene sequence-based methods in clinical microbiology laboratories is largely limited to identification of strains that are difficult to identify by phenotypic methods. In this study, using conventional full-sequence 16S rRNA gene sequencing as the "gold standard," we evaluated the usefulness of the MicroSeq 500 16S ribosomal DNA (rDNA)-based bacterial identification system, which involves amplification and sequencing of the first 527-bp fragment of the 16S rRNA genes of bacterial strains and analysis of the sequences using the database of the system, for identification of clinically significant bacterial isolates with ambiguous biochemical profiles. Among 37 clinically significant bacterial strains that showed ambiguous biochemical profiles, representing 37 nonduplicating aerobic gram-positive and gram-negative, anaerobic, and Mycobacterium species, the MicroSeq 500 16S rDNA-based bacterial identification system was successful in identifying 30 (81.1%) of them. Five (13.5%) isolates were misidentified at the genus level (Granulicatella adiacens was misidentified as Abiotrophia defectiva, Helcococcus kunzii was misidentified as Clostridium hastiforme, Olsenella uli was misidentified as Atopobium rimae, Leptotrichia buccalis was misidentified as Fusobacterium mortiferum, and Bergeyella zoohelcum was misidentified as Rimerella anatipestifer), and two (5.4%) were misidentified at the species level (Actinomyces odontolyticus was misidentified as Actinomyces meyeri and Arcobacter cryaerophilus was misidentified as Arcobacter butzleri). When the same 527-bp DNA sequences of these seven isolates were compared to the known 16S rRNA gene sequences in the GenBank, five yielded the correct identity, with good discrimination between the best and second best match sequences, meaning that the reason for misidentification in these five isolates was due to a lack of the 16S rRNA gene sequences of these bacteria in the database of the MicroSeq 500 16S rDNA-based bacterial identification system. In conclusion, the MicroSeq 500 16S rDNA-based bacterial identification system is useful for identification of most clinically important bacterial strains with ambiguous biochemical profiles, but the database of the MicroSeq 500 16S rDNA-based bacterial identification system has to be expanded in order to encompass the rarely encountered bacterial species and achieve better accuracy in bacterial identification.
journal_name
J Clin Microbioljournal_title
Journal of clinical microbiologyauthors
Woo PC,Ng KH,Lau SK,Yip KT,Fung AM,Leung KW,Tam DM,Que TL,Yuen KYdoi
10.1128/jcm.41.5.1996-2001.2003subject
Has Abstractpub_date
2003-05-01 00:00:00pages
1996-2001issue
5eissn
0095-1137issn
1098-660Xjournal_volume
41pub_type
杂志文章abstract::A monoclonal antibody (MAb) immunoglobulin G2a (2125) was produced against a 60-kDa Legionella heat shock protein (HSP), recognizing a unique epitope common to all species of the genus Legionella. The antibody reacted in the immunoblot with 59 Legionella species and serogroups that were tested and showed no cross-reac...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.29.2.346-354.1991
更新日期:1991-02-01 00:00:00
abstract::Broad-spectrum analysis for pathogens in patients with respiratory tract infections is becoming more relevant as the number of potential infectious agents is still increasing. Here we describe the new multiparameter RespiFinder assay, which is based on the multiplex ligation-dependent probe amplification (MLPA) techno...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02294-07
更新日期:2008-04-01 00:00:00
abstract::A total of 137 strains of Staphylococcus species were blindly tested by four rapid serological assays, and the results were compared with those of the tube coagulase assay. For the S. aureus isolates, the Sero-STAT Staph assay gave six false-negative results, four of which were for methicillin-resistant strains. The A...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.19.5.703-704.1984
更新日期:1984-05-01 00:00:00
abstract::We developed a highly specific, sensitive, and economical hemadsorption immunosorbent technique for the detection of dengue-specific immunoglobulin M (IgM) antibody. The technique is based on the reaction of human sera with anti-human IgM immobilized onto a solid phase followed by the detection of dengue-specific IgM ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.23.1.170-174.1986
更新日期:1986-01-01 00:00:00
abstract::A novel PCR detection assay that amplifies the Helicobacter pylori-specific vacuolating cytotoxin gene (vacA) and thus enables rapid diagnosis of infection is described. Additionally, a real-time probe hybridization melting point analysis assay to detect all three mutations in the 23S rRNA gene associated with clarith...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.39.4.1217-1220.2001
更新日期:2001-04-01 00:00:00
abstract::We have been characterizing monoclonal antibodies against Norovirus (Norwalk-like virus). In the course of our study, two monoclonal antibodies generated against Norovirus genogroup II capsid protein were found to react not only to genogroup II but also to genogroup I recombinant capsid proteins. In addition, we showe...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.41.6.2367-2371.2003
更新日期:2003-06-01 00:00:00
abstract::An increased human parvovirus B19 infection rate has been observed in immunocompromised hosts. In this study, we sought to determine the prevalence of parvovirus B19 infection in adult cancer patients receiving multiple courses of systemic chemotherapy. From March 1999 through April 2000, 59 men and 68 women, with a m...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.40.11.3909-3912.2002
更新日期:2002-11-01 00:00:00
abstract::Lipopolysaccharide (LPS) of a reference strain of Yersinia enterocolitica serovar O15, Ye614, was examined for its chemical structure and antigenicity. The O15 LPS was partially hydrolyzed with diluted acetic acid and fractionated on a Sephadex G-50 column. Only one peak was detected at fractions where the R-core olig...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.24.2.272-274.1986
更新日期:1986-08-01 00:00:00
abstract::Cases of invasive mycosis due to Blastobotrys serpentis and B. proliferans identified by sequencing in a preterm patient and a rhabdomyosarcoma patient, respectively, are reported. Both species revealed elevated fluconazole and echinocandin MICs by the CLSI broth microdilution method. Additionally, B. serpentis exhibi...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01977-14
更新日期:2014-11-01 00:00:00
abstract::The type strains of six Campylobacter species or subspecies were examined in eight tests used for the identification of such organisms. False-positive results were obtained in certain tests (growth on 1% bile, brilliant green, selenite, trimethylamine-N-oxide, 2,3,5-triphenyl tetrazolium chloride, and minimal media) w...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.29.5.923-926.1991
更新日期:1991-05-01 00:00:00
abstract::Antiserum specific for Salmonella O3 antigen was raised by immunization of rabbits with an artificial glycoconjugate consisting of the synthetic trisaccharide beta-D- Manp (1----4)-alpha-L- Rhap (1----3)-alpha-D-Galp covalently linked to bovine serum albumin (beta- MRG -BSA). Enzyme immunoassays showed that only lipop...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.19.5.699-702.1984
更新日期:1984-05-01 00:00:00
abstract::VP1 sequences were determined for poliovirus type 1 isolates obtained over a 189-day period from a poliomyelitis patient with common variable immunodeficiency syndrome (a defect in antibody formation). The isolate from the first sample, taken 11 days after onset of paralysis, contained two poliovirus populations, diff...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.36.10.2893-2899.1998
更新日期:1998-10-01 00:00:00
abstract::The use of counterimmunoelectrophoresis (CIE) for detection of serum antibodies to staphylococcal teichoic acids was evaluated against teichoic acids prepared by sonic treatment or lysostaphin extraction of Staphylococcus aureus (Lafferty strain). Of 54 patient sera from suspected cases of staphylococcal endocarditis,...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:
更新日期:1978-11-01 00:00:00
abstract::Automation of the clinical microbiology laboratory has become more prominent as laboratories face higher specimen volumes and understaffing and are becoming more consolidated. One recent advancement is the use of digital image analysis to rapidly distinguish between chromogenic growth for screening bacterial cultures....
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01683-19
更新日期:2020-03-25 00:00:00
abstract::The food-borne pathogen Listeria monocytogenes is genetically heterogeneous. Although some clonal groups have been implicated in multiple outbreaks, there is currently no consensus on how "epidemic clones" should be defined. The objectives of this work were to compare the patterns of sequence diversity on two sets of ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01874-13
更新日期:2013-11-01 00:00:00
abstract::The ability of fluorescence resonance energy transfer, molecular-beacon, and TaqMan probes to detect single nucleotide polymorphism (SNP) in the presence of a wild-type allele was evaluated using drug resistance-conferring SNPs in mixed Mycobacterium tuberculosis DNA. It was found that both the absolute quantity and t...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00225-06
更新日期:2006-10-01 00:00:00
abstract::Blastocystis hominis is now gaining acceptance as an agent of human intestinal disease. A case-control study of the cause of gastroenteritis in children less than 6 years old was conducted. A total of 500 stool specimens were examined by wet mount preparation, formalin-ether concentration, Sheather's sugar flotation t...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.31.10.2706-2708.1993
更新日期:1993-10-01 00:00:00
abstract::Over a decade ago the first cryptococcal lateral flow assay (LFA) became available. This affordable point-of-care test has undeniably led to tremendous improvements in early detection of cryptococcosis (1,2). However, from several studies it must be concluded that the reliability of recently introduced LFA's falls sho...
journal_title:Journal of clinical microbiology
pub_type: 信件
doi:10.1128/JCM.02837-20
更新日期:2021-01-20 00:00:00
abstract::A total of 50 strains of Staphylococcus aureus, including 41 methicillin-resistant S. aureus (MRSA) strains, were characterized by one-dimensional sodium dodecyl sulfate-polyacrylamide gel electrophoresis of whole-cell proteins. The protein patterns contained 40-50 discrete bands and were highly reproducible. Partial ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.27.11.2574-2581.1989
更新日期:1989-11-01 00:00:00
abstract::We evaluated two commercial F1 antigen capture-based immunochromatographic dipsticks, Yersinia Pestis (F1) Smart II and Plague BioThreat Alert test strips, in detecting plague bacilli by using whole-blood samples from mice experimentally infected with Yersinia pestis CO92. To assess the specificities of these dipstick...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00064-11
更新日期:2011-05-01 00:00:00
abstract::The development and evaluation of a new selective medium (colistin-oxolinic acid-blood agar) for streptococci is described. Streptococci of medical and veterinary importance grew well on the medium. Gram-negative organisms, staphylococci. Bacillus spp., and coryneforms are all inhibited. It was concluded that the medi...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.19.1.4-7.1984
更新日期:1984-01-01 00:00:00
abstract::The aim of this study was to find a reliable method for the detection and identification of fungi in fungus balls of the maxillary sinus and to evaluate the spectrum of fungi in these samples. One hundred twelve samples were obtained from patients with histologically proven fungal infections; 81 samples were paraffin-...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.41.2.581-585.2003
更新日期:2003-02-01 00:00:00
abstract::In Europe, hemorrhagic fever with renal syndrome results mainly from infection with Puumala virus (PUUV) or Dobrava virus. For 31 patients from a hantavirus disease outbreak in Lower Bavaria, a district in southeast Germany, serodiagnosis was undertaken by enzyme-linked immunosorbent assay, immunofluorescence assay, a...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02573-06
更新日期:2007-09-01 00:00:00
abstract::The recently described genus Pandoraea contains five named species (Pandoraea apista, Pandoraea pulmonicola, Pandoraea pnomenusa, Pandoraea sputorum, and Pandoraea norimbergensis) and four unnamed genomospecies. Pandoraea spp. have mainly been recovered from the respiratory tracts of cystic fibrosis (CF) patients. Acc...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.39.12.4452-4455.2001
更新日期:2001-12-01 00:00:00
abstract::A novel panfungal PCR assay which detects the small-subunit rRNA gene sequence of the two major fungal organism groups was used to test whole-blood specimens obtained from a series of blood or bone marrow transplant recipients. The 580-bp PCR product was identified after amplification by panfungal primers and hybridiz...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.36.5.1169-1175.1998
更新日期:1998-05-01 00:00:00
abstract::We report a case of Veillonella parvula lumbar discitis and secondary bacteremia confirmed by molecular characterization of the 16S rRNA genes. Identification of the organism was essential for an appropriate choice of antimicrobial therapy following the failure of empirical flucloxacillin. Veillonella spp. are normal ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章,评审
doi:10.1128/JCM.01633-06
更新日期:2007-02-01 00:00:00
abstract::Infections with human immunodeficiency virus types 1 and 2 (HIV-1 and HIV-2, respectively) are zoonotic infections. In Africa, the potential exists for additional cross-species transmissions from at least 33 different species of simian immunodeficiency virus (SIV)-infected nonhuman primates (NHPs) through hunting and ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.42.11.5161-5169.2004
更新日期:2004-11-01 00:00:00
abstract::Recently, we reported that the patterns of antibodies to Helicobacter pylori protein antigens in serum may be useful for screening patients at high risk for ulcers (P. Aucher et al., J. Clin. Microbiol. 36:931-936, 1998). Here we report the identification, by a combination of electrophoretic, immunochemical, and prote...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.40.2.547-552.2002
更新日期:2002-02-01 00:00:00
abstract::Our point-prevalence survey followed an outbreak of methicillin-resistant Staphylococcus aureus (MRSA) in a long-term care facility and identified five MRSA strains, of which two possessed an outbreak genotype not encountered previously and three had another profile. All of them possessed SCCmec type V. Six methicilli...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.43.12.6161-6163.2005
更新日期:2005-12-01 00:00:00
abstract::In the treatment of serious bacterial infections, the rapid institution of appropriate antimicrobial chemotherapy may be lifesaving. Choosing the correct antibiotic or combination of antibiotics is becoming very important, as multidrug resistance is found in many pathogens. Using a collection of 75 well-characterized ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02380-08
更新日期:2009-05-01 00:00:00