Search Criteria:: Anywhere in Article: dendrogram

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121.

J. Clin. Microbiol. 2006;44:3172-3177.
Temperature Gradient Gel Electrophoresis of Fecal 16S rRNA Reveals Active Escherichia coli in the Microbiota of Patients with Ulcerative Colitis
H. Sokol, P. Lepage, P. Seksik, J. Doré, and P. Marteau
[Abstract] [Full Text]

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FIG. 1. Dendrogram representation of the TTGE profiles of 16S rRNa gene and rRNA amplicons (obtained using primers for the V6 to V8 regions) from fecal samples of nine UC patients and nine healthy controls. The dendrogram represents a statistically optimal representation of the similarities between TTGE profiles based on the matrix of Pearson correlation coefficients and by applying the unweighted pair group method using arithmetic averages. RNA- and DNA-derived TTGE profiles from a given patient did not cluster together, except for two patients with UC (UC1 and UC7). Samples tended to cluster on the basis of their clinical origin (UC versus control).

122.

J. Clin. Microbiol. 2006;44:2838-2843.
Genetic Diversity of PspA Types among Nasopharyngeal Isolates Collected during an Ongoing Surveillance Study of Children in Brazil
Fabiana Cristina Pimenta, Fátima Ribeiro-Dias, Maria Cristina C. Brandileone, Eliane N. Miyaji, Luciana C. C. Leite, and Ana Lúcia S. Sgambatti de Andrade
[Abstract] [Full Text]

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FIG. 2. Dendrogram derived from comparison of 40 PspA-deduced amino acid sequences of nasopharyngeal strains and 24 sequences of PspA invasive reference strains (GenBank accession numbers AF071802 to AF071818, AF071820, AF071821, AF071823, AF071824, AF071826, U89711, and M74122). The dendrogram was constructed by using BioNumerics software (v 4.0). The names of the NP strains are indicated to the right of each branch point of the tree. Strain M98, marked with an asterisk, represents an invasive pneumococcal isolate from the blood of a child with meningitis. The invasive reference strains are boxed. Pearson's coefficient and the UPGMA clustering method were used for the analysis. Bootstrap values based on 1,000 replicates (in parentheses) and the percentages of similarity are distinguished for important nodes. The PspA families are represented by the gray column next to the corresponding clades.

123.

J. Clin. Microbiol. 2006;44:2434-2441.
Molecular Epidemiologic Identification of Escherichia coli Genes That Are Potentially Involved in Movement of the Organism from the Intestinal Tract to the Vagina and Bladder
Jingping Xie, Betsy Foxman, Lixin Zhang, and Carl F. Marrs
[Abstract] [Full Text]

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FIG. 1. Dendrogram of 43 E. coli isolates from the five most common virulence signatures plus 27 E. coli isolates found as unique virulence signatures. The filled circles show the positions of subtraction tester isolate T280F2, and the filled squares show the positions of subtraction driver isolate T306F66. The choice of the strains shown in this dendrogram is detailed in Materials and Methods.

124.

J. Clin. Microbiol. 2006;44:1763-1768.
Spoligotyping of Mycobacterium tuberculosis Isolates from Pakistan Reveals Predominance of Central Asian Strain 1 and Beijing Isolates
Zahra Hasan, Mahnaz Tanveer, Akbar Kanji, Qaiser Hasan, Solomon Ghebremichael, and Rumina Hasan
[Abstract] [Full Text]

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FIG. 1. Dendrogram of Pakistani isolates (Pearson correlation). All isolates were spoligotyped, and data were analyzed with the Bionumerics software program. A dendrogram was calculated on the basis of the Jacquard index for pairwise analysis of strains by the unweighted-pair group method using average linkages. The clustering pattern of 314 isolates is illustrated. The five most predominant shared spoligotypes, CAS1 (n = 121), Beijing (n = 18), T1 (n = 7), ST357 (n = 7), and East African-Indian strain 3 (EAI3; n = 5), are indicated.

125.

J. Clin. Microbiol. 2006;44:1810-1820.
Multilocus Sequence Typing Reveals Intrafamilial Transmission and Microevolutions of Candida albicans Isolates from the Human Digestive Tract
M.-E. Bougnoux, D. Diogo, N. François, B. Sendid, S. Veirmeire, J. F. Colombel, C. Bouchier, H. Van Kruiningen, C. d'Enfert, and D. Poulain
[Abstract] [Full Text]

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FIG. 1. Dendrogram of the genetic relationships among 82 isolates of C. albicans based on MLST data. The dendrogram was constructed by using the unweighted-pair group method with arithmetic averages using the START software, which compares genotypic profiles (14). Strains were assigned to clades (I, II, III, III', E, and SA) on the basis of their coclustering with a set of reference C. albicans strains that had been previously typed using the Ca3 probe and MLST. Strains are designated according to the following nomenclature: family_subject_origin_number_zip code. For origin, M indicates mouth and F indicates feces. The linkage distance is indicated at the bottom.

126.

J. Clin. Microbiol. 2006;44:218-221.
Four-Year Persistence of a Single Candida albicans Genotype Causing Bloodstream Infections in a Surgical Ward Proven by Multilocus Sequence Typing
Maria Anna Viviani, Massimo Cogliati, Maria Carmela Esposto, Anna Prigitano, and Anna Maria Tortorano
[Abstract] [Full Text]

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FIG. 1. Dendrogram of the genetic relations between 21 isolates of Candida albicans, based on the seven housekeeping loci investigated. The dendrogram was constructed using the unweighted pair group method with arithmetic averages and the matrix of distances. MLST genotypes are indicated on the right.

127.

Appl. Envir. Microbiol. 2005;71:8352-8361.
Genetic Variation among Staphylococcus aureus Strains from Norwegian Bulk Milk
H. J. Jørgensen, T. Mørk, D. A. Caugant, A. Kearns, and L. M. Rørvik
[Abstract] [Full Text]

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FIG. 2. Dendrogram created from PFGE restriction profiles of 306 Staphylococcus aureus isolates from bovine bulk milk (B), caprine bulk milk (C), cases of ruminant mastitis (M), raw-milk products (P), and human blood cultures (H). The cluster cutoff was set at 80% similarity. Columns to the right of the dendrogram show the assigned cluster number, the number of different PTs observed within each cluster, the number of isolates from each source, and the multilocus STs and SE gene profiles observed among isolates in each cluster.

128.

J. Bacteriol. 2005;187:7518-7525.
Characterization of Bacterial Drug Antiporters Homologous to Mammalian Neurotransmitter Transporters
Eyal Vardy, Sonia Steiner-Mordoch, and Shimon Schuldiner
[Abstract] [Full Text]

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FIG. 1. Dendrogram of the main clusters of the DHA12 family. The tree consists of representatives from each cluster in the DAH12 family. Cluster A consists of drug and multidrug transporters from yeast and fungi. The rest of the clusters consist of sequences from different bacteria and archaea. The novel multidrug transporters (CGmdr, MSmdr, and HSmdr) form differentiated branches in the same cluster with VMAT (cluster C). The sources of the sequences in the dendrogram are as follows. Cluster A: UM05248—Ustilago maydis, CNBH0110—Cryptococcus neoformans, YALI0ACHR—Yarrowia lipolytica, Yhr048W—Saccharomyces cerevisiae, UM02490—Ustilago maydis, CyhR—Candida maltosa, and CaMDR1—Candida albicans. Cluster B: Bcr—Burkholderia mallei, LP_Flo—Legionella pneumophila, PP_Flo—Photobacterium damselae, CmlA—Pseudomonas aeruginosa, CflA—Coxiella burnetii, EmrD—Escherichia coli, MdfA—Escherichia coli, MDT—Yersinia pestis biovar Medievalis, and YjiO—Escherichia coli. Cluster C: rVMAT2—Rattus norvegicus, hVMAT2—Homo sapiens, hVMAT1—Homo sapiens, HMmdr—Haloarcula marismortui, HSmdr (YfmO2)—Halobacterium sp. NRC-1, CEmdr—Corynebacterium efficiens, CGmdr—Corynebacterium glutamicum, MSmdr—Mycobacterium smegmatis, and MAmdr—Mycobacterium avium. Cluster D: EF_MEP—Enterococcus faecium, Bmr—Bacillus subtilis, NorA—Bacillus cereus, TetA—Escherichia coli, TetG—Pasteurella multocida. Cluster E: CmlA—Pseudomonas aeruginosa, OpdE—Pseudomonas aeruginosa, LmrP—Lactococcus lactis.

129.

Appl. Envir. Microbiol. 2005;71:6431-6433.
Comparison of Rectoanal Mucosal Swab Cultures and Fecal Cultures for Determining Prevalence of Escherichia coli O157:H7 in Feedlot Cattle
M. A. Greenquist, J. S. Drouillard, J. M. Sargeant, B. E. Depenbusch, Xiaorong Shi, K. F. Lechtenberg, and T. G. Nagaraja
[Abstract] [Full Text]

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FIG. 1. Dendrogram generated to show the relationship of 48 isolates (24 from RAMSs and 24 from fecal cultures) of E. coli O157 from 24 cattle. The bands were analyzed by Dice similarity coefficient and the unweighted pair group method for clustering, with a position tolerance setting of 1.5% for optimization and a position tolerance of 1.5% for band comparison. The scale at the top of the dendrogram indicates the levels of similarity between isolates.

130.

J. Clin. Microbiol. 2005;43:5319-5323.
Multilocus Sequence Typing of Escherichia coli O26:H11 Isolates Carrying stx in Canada Does Not Identify Genetic Diversity
Matthew W. Gilmour, Tyler Cote, Jamie Munro, Linda Chui, John Wylie, Judith Isaac-Renton, Greg Horsman, Dobryan M. Tracz, Ashleigh Andrysiak, and Lai-King Ng
[Abstract] [Full Text]

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FIG. 1. Dendrogram based on the concatenated metA, mdh, gnd, gcl, ppk, ftsZ, relA, and metG genes sequences for the six multilocus sequence types (ST) observed in this study and the previously determined sequences of these loci encoded by Escherichia coli K-12 MG1655, O157:H7 EDL933, and CFT073 (GenBank accession numbers NC_000913, NC_002655, and NC_004431, respectively). The dendrogram was constructed by the neighbor-joining method, and the scale bar indicates the distance score.

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Search Criteria:: Anywhere in Article: dendrogram