Journal: PeerJ

Article Title: Antibacterial and anti-adherence effects of a plant extract mixture (PEM) and its individual constituent extracts ( Psidium sp. , Mangifera sp ., and Mentha sp .) on single- and dual-species biofilms

doi: 10.7717/peerj.2519

Figure Lengend Snippet: The MIC, MBC and FIC value of PEM and its individual constituent plant extracts against tested oral bacteria.

Article Snippet: S. sanguinis ATCC BAA-1455 , (2.30 ± 0.37) × 10 6 .

Techniques: Bacteria, Concentration Assay

Journal: PeerJ

Article Title: Antibacterial and anti-adherence effects of a plant extract mixture (PEM) and its individual constituent extracts ( Psidium sp. , Mangifera sp ., and Mentha sp .) on single- and dual-species biofilms

doi: 10.7717/peerj.2519

Figure Lengend Snippet: Bacterial population in CFU/ml for the negative control for S. sanguinis and S. mutans singly and in the mixture.

Article Snippet: S. sanguinis ATCC BAA-1455 , (2.30 ± 0.37) × 10 6 .

Techniques: Negative Control, Bacteria, Control

Journal: Journal of Clinical Microbiology

Article Title: New PCR-Based Open Reading Frame Typing Method for Easy, Rapid, and Reliable Identification of Acinetobacter baumannii International Epidemic Clones without Performing Multilocus Sequence Typing

doi: 10.1128/JCM.01064-14

Figure Lengend Snippet: ORF candidates relating to small genomic islets (SGI) and their distributions among the A. baumannii genomes a

Article Snippet: A total of 24 SGI candidates ( ) were selected by comparing the whole-genome data of the six A. baumannii strains (AB0057, AB307-0294, AYE, ACICU, ATCC 17978, and SDF).

Techniques: Sequencing

Journal: Journal of Clinical Microbiology

Article Title: New PCR-Based Open Reading Frame Typing Method for Easy, Rapid, and Reliable Identification of Acinetobacter baumannii International Epidemic Clones without Performing Multilocus Sequence Typing

doi: 10.1128/JCM.01064-14

Figure Lengend Snippet: Correlations between MLST and ORFs used for POT

Article Snippet: A total of 24 SGI candidates ( ) were selected by comparing the whole-genome data of the six A. baumannii strains (AB0057, AB307-0294, AYE, ACICU, ATCC 17978, and SDF).

Techniques:

Journal: Journal of Clinical Microbiology

Article Title: New PCR-Based Open Reading Frame Typing Method for Easy, Rapid, and Reliable Identification of Acinetobacter baumannii International Epidemic Clones without Performing Multilocus Sequence Typing

doi: 10.1128/JCM.01064-14

Figure Lengend Snippet: Distributions of small genomic islets and species-specific markers on genomes of representative strains. Open circles indicate SGIs, and closed circles indicate species-specific genetic markers. Locations of atpA selected as the universal marker of Acinetobacter species are not provided. The genome sequence data of A. pittii, A. nosocomialis, and Acinetobacter species close to A. nosocomialis are still draft data at present. The positions of each marker were decided by mapping the contigs containing markers on the basis of the genome of A. baumannii ACICU. Genome comparison maps illustrated by Artemis Comparison Tool (http://www.sanger.ac.uk/resources/software/act/) are arranged outside the circles, indicating genomes. The outer, second outer, and third outer rings indicate the genomes of A. baumannii AB0057, ACICU, and ATCC 17978, respectively. The dark-gray drawings in genome comparison maps indicate matches between the sequences, and the silver drawing in ACICU_02966 indicates an inversion match. The calibration bar indicates 4 kbp on all seven genome comparison maps. A large color version of this figure with high resolution is available in Fig. S1 in the supplemental material.

Article Snippet: A total of 24 SGI candidates ( ) were selected by comparing the whole-genome data of the six A. baumannii strains (AB0057, AB307-0294, AYE, ACICU, ATCC 17978, and SDF).

Techniques: Marker, Sequencing, Comparison, Software

Journal: Journal of Clinical Microbiology

Article Title: New PCR-Based Open Reading Frame Typing Method for Easy, Rapid, and Reliable Identification of Acinetobacter baumannii International Epidemic Clones without Performing Multilocus Sequence Typing

doi: 10.1128/JCM.01064-14

Figure Lengend Snippet: Agarose gel electrophoresis patterns of PCR-based ORF typing using 12-plex PCR. Lane M, 50-bp ladder marker; lane PC, positive control; lanes 1 to 40, A. baumannii; lanes 41 to 45, A. pittii; lanes 46 to 48, A. nosocomialis; lanes 49 to 52, Acinetobacter species close to A. nosocomialis; lane 53, A. radioresistens; lane 54, A. ursingii; lane 55, A. bereziniae; lane 56, A. soli. International clones II (lanes 1 to 17) and I (lanes 18 to 20) showed unique patterns and can be distinguished from other A. baumannii clones (lanes 21 to 40) and other Acinetobacter species (lanes 41 to 56). The POT numbers of both A. baumannii ST49 (lane 30) and an Acinetobacter species close to A. nosocomialis (lane 49) become 41, but these isolates can apparently be discriminated from each other by the ladder patterns of the upper 5 fragments from bp 321 to bp 553. ST, sequence type; CC, clonal complex. “N” in ST lines indicates a novel ST. The ladder used for the binary digitization of the genotype of each isolate is shown in the white box. The binary numbers corresponding to each band were 1 for 81 bp, 2 for 102 bp, 4 for 122 bp, 8 for 151 bp, 16 for 189 bp, 32 for 234 bp, and 64 for 271 bp, from the bottom of the ladder in the box. The remaining 5 bands from 321 bp to 553 bp were used for the identification of Acinetobacter spp.

Article Snippet: A total of 24 SGI candidates ( ) were selected by comparing the whole-genome data of the six A. baumannii strains (AB0057, AB307-0294, AYE, ACICU, ATCC 17978, and SDF).

Techniques: Agarose Gel Electrophoresis, Marker, Positive Control, Clone Assay, Sequencing