Abstract:
:Due to a highly homogeneous genetic composition, the subtyping of Salmonella enterica serovar Enteritidis strains to an epidemiologically relevant level remains intangible for pulsed-field gel electrophoresis (PFGE). We reported previously on a highly discriminatory PFGE-based subtyping scheme for S. enterica serovar Enteritidis that relies on a single combined cluster analysis of multiple restriction enzymes. However, the ability of a subtyping method to correctly infer genetic relatedness among outbreak strains is also essential for effective molecular epidemiological traceback. In this study, genetic and phylogenetic analyses were performed to assess whether concatenated enzyme methods can cluster closely related salmonellae into epidemiologically relevant hierarchies. PFGE profiles were generated by use of six restriction enzymes (XbaI, BlnI, SpeI, SfiI, PacI, and NotI) for 74 strains each of S. enterica serovar Enteritidis and S. enterica serovar Typhimurium. Correlation analysis of Dice similarity coefficients for all pairwise strain comparisons underscored the importance of combining multiple enzymes for the accurate assignment of genetic relatedness among Salmonella strains. The mean correlation increased from 81% and 41% for single-enzyme PFGE up to 99% and 96% for five-enzyme combined PFGE for S. enterica serovar Enteritidis and S. enterica serovar Typhimurium strains, respectively. Data regressions approached 100% correlation among Dice similarities for S. enterica serovar Enteritidis and S. enterica serovar Typhimurium strains when a minimum of six enzymes were concatenated. Phylogenetic congruence measures singled out XbaI, BlnI, SfiI, and PacI as most concordant for S. enterica serovar Enteritidis, while XbaI, BlnI, and SpeI were most concordant among S. enterica serovar Typhimurium strains. Together, these data indicate that PFGE coupled with sufficient enzyme numbers and combinations is capable of discerning accurate genetic relationships among Salmonella serovars comprising highly homogeneous strain complexes.
journal_name
J Clin Microbioljournal_title
Journal of clinical microbiologyauthors
Zheng J,Keys CE,Zhao S,Ahmed R,Meng J,Brown EWdoi
10.1128/JCM.00120-10subject
Has Abstractpub_date
2011-01-01 00:00:00pages
85-94issue
1eissn
0095-1137issn
1098-660Xpii
JCM.00120-10journal_volume
49pub_type
杂志文章abstract::We evaluated three molecular methods for identification of Francisella strains: pulsed-field gel electrophoresis (PFGE), amplified fragment length polymorphism (AFLP) analysis, and 16S rRNA gene sequencing. The analysis was performed with 54 Francisella tularensis subsp. holarctica, 5 F. tularensis subsp. tularensis, ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.40.8.2964-2972.2002
更新日期:2002-08-01 00:00:00
abstract::Vibrio metschnikovii and Vibrio gazogenes are two new Vibrio species that have been little studied. Thirteen strains of V. metschnikovii were highly related to the type strain, NCTC 8443, by DNA-DNA hybridization. Relatedness values were 83 to 90% at 60 degrees C and 75 to 84% at the more stringent 75 degrees C. Diver...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.10.1993-2000.1988
更新日期:1988-10-01 00:00:00
abstract::A dot immunobinding assay that uses inactivated antigen for the detection of rabies viral antibodies was compared with the rapid fluorescent focus inhibition test. Results of testing pre- and postvaccination sera from humans (n = 33) and canines (n = 22) were identical for both tests. Endpoint titers of positive sera ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.25.7.1262-1264.1987
更新日期:1987-07-01 00:00:00
abstract::The object of this study was to develop a test that would measure antibodies directed against group B streptococcal types Ia, Ib, Ic, II, and III. The type-specific carbohydrate antigens were purified, labeled with 125I, and used to develop a radioimmunoassay. This procedure should be particularly useful in testing hu...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:
更新日期:1976-05-01 00:00:00
abstract::Eleven isolates of Aeromonas species from human stool cultures were found to produce enterotoxin activity as determined by assay of culture filtrates in rabbit intestinal loops and rabbit skin and on adrenal Y1 cells. Hemolysin(s) and a cytotoxic protein were found to interfere in all three assay systems but could be ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:
更新日期:1977-08-01 00:00:00
abstract::Members of the genus Malassezia, lipophilic yeasts, are considered to be one of the exacerbating factors in atopic dermatitis (AD). We examined variation in cutaneous colonization by Malassezia species in AD patients and compared it with variation in healthy subjects. Samples were collected by applying transparent dre...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.39.10.3486-3490.2001
更新日期:2001-10-01 00:00:00
abstract::The etiology of the purple urine bag syndrome (PUBS), in which the urinary catheter bag of some elderly patients develops intense purple coloration, was studied. The purple was found to be a mixture of indirubin dissolved in the plastic and indigo on its surface. Six patients with PUBS were studied, and Providencia st...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.10.2152-2156.1988
更新日期:1988-10-01 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::A high-performance liquid chromatography method that utilized fluorescence detection (HPLC-FL) of mycolic acid 6,7-dimethoxycoumarin esters was developed to identify Mycobacterium tuberculosis (MTB) and M. avium complex (MAC) directly from fluorochrome stain smear-positive sputum specimens and young BACTEC 12B culture...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.33.5.1270-1277.1995
更新日期:1995-05-01 00:00:00
abstract::An alpha-toxin disk test is described in which group B streptococci completed the hemolysis of sheep erythrocytes partially lysed by the alpha-toxin of Clostridium perfringens. The test was performed satisfactorily on the sheep blood agar primary isolation plate, as well as on pure cultures. A total of 95% of strains ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.12.1.18-21.1980
更新日期:1980-07-01 00:00:00
abstract::We report an unusual case of culture-proven pneumococcal and meningococcal mixed meningitis in an 18-month-old girl. The patient responded well to antimicrobial therapy and recovered completely without sequelae. No underlying condition could be demonstrated except a rhinitis of unknown etiology 2 days before the onset...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章,评审
doi:10.1128/JCM.43.3.1477-1479.2005
更新日期:2005-03-01 00:00:00
abstract::Mueller-Hinton (MH) agar media from various commercial sources, either supplemented or not supplemented with 5% sheep blood, were studied to determine their effect on disk diffusion susceptibility testing results obtained with 90 strains of group D streptococci and four cephalosporins. The cephalosporins investigated ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.18.4.858-865.1983
更新日期:1983-10-01 00:00:00
abstract::Latex particle agglutination (LPA) testing for antigen to group B streptococcus (GBS) has been useful in the diagnosis of GBS sepsis in newborns. However, recent reports have demonstrated that the sensitivity of LPA assays may be as low as 27 to 54%. The purposes of the present study were to directly compare the abili...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.33.1.193-198.1995
更新日期:1995-01-01 00:00:00
abstract::Diagnostic tests for respiratory viral infections have traditionally been performed on nasopharyngeal swabs or washings. Reverse transcriptase PCR (RT-PCR) is rapid, sensitive, and specific for viral infection diagnosis but is rarely applied to sputum samples. Thus, we evaluated the diagnostic yield of RT-PCR for dete...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.05841-11
更新日期:2012-01-01 00:00:00
abstract::An enzyme-linked immunosorbent assay (ELISA) for the detection and quantitation of human immunoglobulin M (IgM), IgG, and IgA antibodies against Yersinia enterocolitica by using lipopolysaccharides as antigens is described. The results obtained with the lipopolysaccharide ELISA were compared with the results of the wh...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.14.1.6-14.1981
更新日期:1981-07-01 00:00:00
abstract::The aim of this study was to develop a PCR and reverse line blot hybridization (PCR-RLB) macroarray assay based on 16S-23S rRNA gene internal transcribed spacer sequences for the identification and differentiation of 34 mycobacterial species or subspecies. The performance of the PCR-RLB assay was assessed and validate...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00633-06
更新日期:2006-10-01 00:00:00
abstract::A Campylobacter-like organism was isolated from the ilea of normal hamsters. The organism was isolated from an ileal homogenate which was passed through a filter (0.65-micron pore size) and cultured on blood-agar plates in a microaerophilic atmosphere at 37 degrees C. Pinpoint translucent colonies were first observed ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.27.11.2497-2501.1989
更新日期:1989-11-01 00:00:00
abstract::Despite the high virological response rates achieved with current directly acting antiviral agents (DAAs) against hepatitis C virus (HCV), around 2% to 5% of treated patients do not achieve a sustained viral response. The identification of amino acid substitutions associated with treatment failure requires analytical ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01985-20
更新日期:2020-11-18 00:00:00
abstract::Carbapenem-resistant Enterobacter species are emerging nosocomial pathogens. As with most multidrug-resistant Gram-negative pathogens, the polymyxins are often the only therapeutic option. In this study involving clinical isolates of E. cloacae and E. aerogenes, susceptibility testing methods with polymyxin B were ana...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.02129-13
更新日期:2013-12-01 00:00:00
abstract::We report the isolation of Pseudomonas putrefaciens from an intra-abdominal abscess in a patient with colonic carcinoma and from bile in two patients with biliary tract disease. In all three cases, P. putrefaciens was isolated in mixed culture with enteric bacteria. ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.17.6.1173-1174.1983
更新日期:1983-06-01 00:00:00
abstract::A combination of two systems for the serotyping of Edwardsiella tarda developed independently at the National Institute of Health, Tokyo, Japan, and the Centers for Disease Control, Atlanta, Ga., has enabled a single serotyping scheme comprising 61 O groups and 45 H antigens to be established for international use. ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.26.11.2343-2346.1988
更新日期:1988-11-01 00:00:00
abstract::Accurate identification of mycobacterial species and subspecies is essential to evaluate their significance and to perform epidemiological studies. The subspecies of Mycobacterium avium have different attributes but coincide in their zoonotic potential. Our knowledge about M. avium subsp. silvaticum is limited, since ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.03556-14
更新日期:2015-05-01 00:00:00
abstract::Production of staphylococcal alpha- or alpha-beta-toxins correlated well with production of coagulase or thermonuclease (or both) in 203 Staphylococcus aureus isolates from milk and should be reliable indicators of S. aureus in the absence of Staphylococcus intermedius. Failures to produce toxin, tube coagulase, or th...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.21.4.582-584.1985
更新日期:1985-04-01 00:00:00
abstract::Haemophilus influenzae type b (Hib) is, in contrast to non-type b H. influenzae, associated with severe invasive disease, such as meningitis and epiglottitis, in small children. To date, accurate H. influenzae capsule typing requires PCR, a time-consuming and cumbersome method. Matrix-assisted laser desorption ionizat...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.00137-15
更新日期:2015-07-01 00:00:00
abstract::The use of centrifugation (700 x g, 60 min) in a plaque assay markedly increased (mean, 2.9-fold) the infectivity of all 42 influenza virus strains tested, compared with no centrifugation. Of 13 influenza virus strains isolated from 390 clinical specimens, 9 (69%) were efficiently isolated by the centrifugation assay ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.28.7.1669-1670.1990
更新日期:1990-07-01 00:00:00
abstract::A total of 2,559 routine clinical specimens were cultured for mycobacteria by using BACTEC Middlebrook 7H12 medium (BACTEC), Lowenstein-Jensen slants (LJ), and Mycobactosel selective Middlebrook 7H11 slants (M7H11). Thirty-three isolates (1.3%) of M. avium complex and 82 isolates (3.2%) of M. tuberculosis were recover...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.22.5.841-845.1985
更新日期:1985-11-01 00:00:00
abstract::Methicillin-resistant coagulase-negative staphylococci were isolated from the nares and skin of 1- to 8-week-old healthy chickens in three flocks from a farm. Isolation of methicillin-resistant coagulase-negative staphylococci was positive for 72 (25.7%) of the 280 chickens tested, with the frequency varying from 2.2 ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.34.9.2072-2077.1996
更新日期:1996-09-01 00:00:00
abstract::Many central vascular catheters (CVCs) are removed unnecessarily because current diagnostic methods for CVC-associated infection are unreliable. A quantitative PCR assay using primers and probe targeted to bacterial 16S ribosomal DNA was used to measure the levels of bacterial DNA in blood samples drawn through the CV...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.42.4.1402-1408.2004
更新日期:2004-04-01 00:00:00
abstract::Nontuberculous mycobacterial infections caused by Mycobacterium abscessus are responsible for a range of disease manifestations from pulmonary to skin infections and are notoriously difficult to treat, due to innate resistance to many antibiotics. Previous population studies of clinical M. abscessus isolates utilized ...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/JCM.01144-14
更新日期:2014-10-01 00:00:00
abstract::Rotavirus serotype G9 is recognized as the most widespread of the emerging serotypes, emerging since 1996 as a frequent cause of severe acute gastroenteritis in children from many countries covering all continents of the world. This study characterized serotype G9 strains collected in three widely separated Australian...
journal_title:Journal of clinical microbiology
pub_type: 杂志文章
doi:10.1128/jcm.41.8.3649-3654.2003
更新日期:2003-08-01 00:00:00