Abstract:
:A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of Salmonella spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21 Salmonella serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537 Salmonella isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of Salmonella spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of Salmonella isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of Salmonella infections.
journal_name
J Clin Microbioljournal_title
Journal of clinical microbiologyauthors
Li H,Li P,Xie J,Yi S,Yang C,Wang J,Sun J,Liu N,Wang X,Wu Z,Wang L,Hao R,Wang Y,Jia L,Li K,Qiu S,Song Hdoi
10.1128/JCM.00696-14subject
Has Abstractpub_date
2014-08-01 00:00:00pages
2955-62issue
8eissn
0095-1137issn
1098-660Xpii
JCM.00696-14journal_volume
52pub_type
杂志文章abstract::Members of the genus Abiotrophia, formerly known as nutritionally variant streptococci, are important pathogens causing septicemia and endocarditis. Cultivation and biochemical differentiation of Abiotrophia spp. are often difficult. Based on 16S rRNA sequences, two PCR assays for detection and identification of Abiot...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.36.10.2844-2846.1998
更新日期:1998-10-01 00:00:00
abstract::Better detection of minority human immunodeficiency virus type 1 (HIV-1) populations containing gene mutations may improve the usefulness of antiretroviral resistance testing for clinical management. Molecular cloning of HIV-1 PCR products which might improve minority detection can be slow and difficult, and commercia...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.37.9.2943-2951.1999
更新日期:1999-09-01 00:00:00
abstract::Adhesin-encoding operons (pap, sfa/foc, and afa) have been shown to be prevalent in Escherichia coli strains associated with urinary tract infections. A quick and sensitive assay to identify these operons was developed by using the polymerase chain reaction (PCR). Three pairs of 25-mer primers were defined from the se...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.30.5.1189-1193.1992
更新日期:1992-05-01 00:00:00
abstract::Herpesviruses isolated from either domesticated or wild carnivores should be immunologically compared with known viruses of this group which could have been included in the diet of the animal before being considered to be previously undescribed herpesviruses native to the carnivore in question. ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.1.1.112-113.1975
更新日期:1975-01-01 00:00:00
abstract::A panel (ENVA-1) of well-defined blinded samples containing wild-type and mutant human immunodeficiency virus type 1 (HIV-1) reverse transcriptase was analyzed by automated DNA sequencing in 23 laboratories worldwide. Drug resistance mutations at codons 41, 215, and 184 were present in the panel samples at different r...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章,多中心研究
doi:10.1128/JCM.37.7.2291-2296.1999
更新日期:1999-07-01 00:00:00
abstract::Moxalactam is highly hydrolyzed by plasmid-mediated metallo-β-lactamases (MBLs), whereas it is poorly inactivated by serine-active carbapenemases. This study demonstrated that moxalactam resistance constituted an effective screen for MBL expression in enterobacteria, which could be confirmed, even in low-MBL-producing...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00328-11
更新日期:2011-07-01 00:00:00
abstract::The number of reports concerning Escherichia coli clinical isolates that produce glutathione S-transferases responsible for fosfomycin resistance (FR-GSTs) has been increasing. We have developed a disk-based potentiation test in which FR-GST producers expand the growth inhibition zone around a Kirby-Bauer disk contain...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01094-14
更新日期:2014-09-01 00:00:00
abstract::During a previous survey, five extended-spectrum beta-lactamase (ESBL)-producing enterobacteria (ESBLE) (two Enterobacter aerogenes isolates expressing TEM-24 b, two Escherichia coli isolates expressing TEM-21 or TEM-24 b, and one Klebsiella pneumoniae isolate expressing SHV-4/TEM-15) responsible for urinary tract inf...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.43.10.5048-5054.2005
更新日期:2005-10-01 00:00:00
abstract::Between 1 and 2% of the population in the developed world experiences a nonhealing or chronic wound characterized by an apparent arrest in a stage dominated by inflammatory processes. Lately, research groups have proposed that bacteria might be involved in and contribute to the lack of healing of these wounds. To inve...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00501-08
更新日期:2008-08-01 00:00:00
abstract::From late 2003 to the end of 2005, the Health Protection Agency's national reference laboratories received approximately 1,600 referrals of Acinetobacter spp., including 419 and 58 examples, respectively, of two carbapenem-resistant Acinetobacter baumannii lineages, designated OXA-23 clones 1 and 2. Representatives of...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00699-06
更新日期:2006-10-01 00:00:00
abstract::A toxic shock syndrome toxin 1 (TSST-1) antibody-binding protein produced by an ovine-associated strain of Staphylococcus aureus was examined. The protein showed total identity to TSST-1 by immunodiffusion analysis. Western blots (immunoblots) of proteins separated by isoelectric focusing revealed that the TSST-1 anti...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.27.1.210-212.1989
更新日期:1989-01-01 00:00:00
abstract::We surveyed 75 clinical laboratories to determine if National Committee for Clinical Laboratory Standards (NCCLS) were being used for the susceptibility testing of Haemophilus influenzae. Of the 66 laboratories that performed susceptibility testing, all claimed to follow current NCCLS guidelines. However, upon further...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.32.8.2013-2015.1994
更新日期:1994-08-01 00:00:00
abstract::In Brazil, the most common etiological agent of American tegumentary leishmaniasis is Leishmania (Viannia) braziliensis. In general, diagnostic techniques envisage the visualization of the parasite, but that technique has a low sensitivity. The main purpose of the present work was to evaluate the PCR as a routine tool...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.37.6.1819-1823.1999
更新日期:1999-06-01 00:00:00
abstract::Coronavirus disease (COVID) serological tests are essential to determine the overall seroprevalence of a population and to facilitate exposure estimates within that population. We performed a head-to-head assessment of enzyme immunoassays (EIAs) and point-of-care lateral flow assays (POCTs) to detect severe acute resp...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01361-20
更新日期:2020-09-22 00:00:00
abstract::We prospectively investigated the diagnostic utility of the Xpert MTB/RIF (Mycobacterium tuberculosis/rifampin [RIF] resistance) assay in 20 cases with confirmed tuberculous pleural effusion. The sensitivity and specificity of the Xpert assay in pleural fluid were 25% and 100%, respectively. All cases positive by the ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.05454-11
更新日期:2011-12-01 00:00:00
abstract::A group of 300 clinically derived isolates of coagulase-negative staphylococci were tested in parallel with the API STAPH-IDENT system (Analytab Products) and 14 conventional biochemical tests contained in Kloos and Schleifer's simplified scheme for identification of human Staphylococcus species. STAPH-IDENT is a mini...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.18.2.254-257.1983
更新日期:1983-08-01 00:00:00
abstract::We describe here the use of an immunomagnetic separation enrichment process coupled with a modified real-time cellular analysis (RTCA) system (RTCA version 2) for the detection of C. difficile toxin (CDT) in stool. The limit of CDT detection by RTCA version 2 was 0.12 ng/ml. Among the consecutively collected 401 diarr...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02601-13
更新日期:2014-04-01 00:00:00
abstract::A multiplex PCR (mPCR) protocol was developed for simultaneous detection of the gyrB gene in Streptococcus pneumoniae, Streptococcus mitis, and Streptococcus oralis, and the specificity was evaluated using 141 coccus strains. Genomic DNAs purified from S. pneumoniae, S. mitis, and S. oralis strains were efficiently de...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02920-12
更新日期:2013-03-01 00:00:00
abstract::Despite attempts to control avian mycoplasmosis through management, vaccination, and surveillance, Mycoplasma gallisepticum continues to cause significant morbidity, mortality, and economic losses in poultry production. Live attenuated vaccines are commonly used in the poultry industry to control avian mycoplasmosis; ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00833-16
更新日期:2016-12-28 00:00:00
abstract::Traveler's diarrhea (TD) is the most common infectious illness acquired by visitors to developing nations. The purpose of this study was to utilize molecular diagnostic techniques to determine the prevalence of norovirus (NoV) in TD occurring among visitors from the United States to Guatemala and Mexico. Stool samples...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.43.3.1112-1117.2005
更新日期:2005-03-01 00:00:00
abstract::Bilophila wadsworthia is a common inhabitant of the human colon and has been associated with appendicitis and other local sites of inflammation in humans. Challenge-exposure or prevalence studies in laboratory and other animals have not been reported. B. wadsworthia is closely related phylogenetically to Desulfovibrio...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.39.4.1577-1579.2001
更新日期:2001-04-01 00:00:00
abstract::Infections associated with Neisseria meningitidis are a major public health problem in England, Wales, and Northern Ireland. Currently, over 40% of cases are confirmed directly from clinical specimens using PCR-based methodologies without an organism being isolated. A nested/seminested multilocus sequence typing (MLST...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.43.12.6007-6014.2005
更新日期:2005-12-01 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::The first outbreak caused by vancomycin-resistant enterococci of the VanB phenotype in Poland was analyzed. It occurred in a single ward of a Warsaw hospital which is a specialized center for the treatment of hematological disorders. Between July 1999 and February 2000, 11 patients in the ward were found to be infecte...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.39.5.1781-1787.2001
更新日期:2001-05-01 00:00:00
abstract::Streptococcus pneumoniae is a major cause of bacteremia, meningitis, pneumonia, sinusitis, and acute otitis media in children. Although optochin susceptibility, bile solubility, and Quellung testing are the standards for identifying and differentiating pneumococci, there are several reports of nontypeable pneumococci ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.05182-11
更新日期:2012-04-01 00:00:00
abstract::The etiology of Crohn's disease in humans is largely unknown. Clinical signs of Crohn's disease partly resemble the clinical picture of Johne's disease in ruminants caused by Mycobacterium avium subsp. paratuberculosis. Because of the high prevalence of these bacteria in (products of) ruminants and their remarkable th...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.42.11.5022-5028.2004
更新日期:2004-11-01 00:00:00
abstract::Prostate tissues from patients with prostate cancer and benign prostatic hyperplasia (BPH) frequently contain histological inflammation, and a proportion of these patients show evidence of Propionibacterium acnes infection in the prostate gland. We developed a multicolor fluorescent in situ hybridization (FISH) assay ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01543-07
更新日期:2007-11-01 00:00:00
abstract::To differentiate the Borrelia burgdorferi sensu lato genospecies, LightCycler real-time PCR was used for the fluorescence (SYBR Green I) melting curve analysis of borrelial recA gene PCR products. The specific melting temperature analyzed is a function of the GC/AT ratio, length, and nucleotide sequence of the amplifi...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.38.7.2756-2759.2000
更新日期:2000-07-01 00:00:00
abstract::Mycoplasma hominis most frequently causes diseases of the genitourinary tract. Extragenital infections are uncommon, with almost all occurring in immunosuppressed persons or those predisposed due to trauma or surgery. We present the case of a previously well man who developed an M. hominis-associated parapharyngeal ab...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02203-08
更新日期:2009-09-01 00:00:00
abstract::In this work, we show that antibodies to baculovirus recombinant DNA polymerase of human cytomegalovirus are present in human sera during natural infection. Specific antibody was found to be of the immunoglobulin G class, produced at low titers only for a short period of time at the beginning of acute infection and no...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.31.3.724-726.1993
更新日期:1993-03-01 00:00:00