version 7.7.0 (r2008b)  (MathWorks Inc)

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Distribution of carbapenemase genes among A. baumannii isolates from animal sources.

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques:

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Characteristics of 42 carbapanemase-producing Acinetobacter baumannii isolates, sorted by ST Pa .

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques: Isolation

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Minimum spanning tree based on cgMLST allelic profiles of 42 CP-producing A. baumannii isolates. ( A ) Distribution of cgMLST clusters with respect to the source of isolates regarding veterinary clinic and country (Germany = DE, France = F, and Italy = IT); ( B ) multilocus sequence type and presence of A. baumannii resistance islands. Each circle represents an allelic profile, i.e., complex type (CT), based on sequence analysis of 2390 target genes (pairwise ignoring missing values). The numbers inside the circles represent isolate designation. The numbers on the connecting lines illustrate the number of target genes with different alleles. Clonally related CTs (≤10 allele differences) are grey shaded and numbers of clusters are indicated. The presence of CPs OXA-23 and OXA-58 and their location ( P = plasmid; CH = chromosomal) as well as the year of strain isolation are indicated. Patterns of flanking regions of the bla OXA-58 (A–D) and bla OXA-23 regions (a–e) are given above the strain names in part B of the figure.

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques: Sequencing, Plasmid Preparation, Isolation

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Maximum-likelihood tree of 42 genomes of carbapenemase-producing A. baumannii isolates. The phylogeny is based on 2,646 orthologous genes and was calculated by RAxML v8. Graphical visualization was achieved by iTOL v5. Colored rings represent (from inner to outer ring the ( i ) year of isolation, ( ii ) veterinary clinic, ( iii ) country of isolation, ( iv ) multilocus sequence type (Pasteur scheme), ( v ) international clone, ( vi ) core genome MLST complex type, ( vii ) core genome MLST cluster, ( viii ) OXA-51-like type, ( ix ) acquired oxacillinase type, and ( x ) A. baumannni resistance island type. Color of strain numbers indicates the origin of the isolates (green = cats; black = dogs; red = environment).

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques: Isolation, Sequencing

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Genetic environment of bla OXA-23 genes in 13 A. baumannii from dogs and cats. ( a ): Chromosomally located bla OXA-23 ; ( b – e ): bla OXA-23 located on plasmids (partially shown).

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques:

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Genetic environment of bla OXA-58 genes in 29 A. baumannii isolates from dogs and cats. ( A – D ) bla OXA-58 located on different plasmids. Extent and orientation of genes and open reading frames ( orf ) are shown by a horizontal arrow with the gene names below. The bla OXA-58 gene is shown in red, araC1 in yellow, lysE in blue, orfs in grey and other genes in light green. Insertion sequence (IS) elements are represented by a black framed box with the orientation of the transposase genes shown within. Primer pairs used for bridging PCRs are shown as numbers (forward primer in black, reverse primer in red) above the respective genes . Numbers to the right indicate the size of the genetic regions displayed in the figure and the estimated total size of the plasmids (shown in brackets).

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques: Sequencing

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Carbapenemase-positive A. baumannii from small animals according to the current literature.

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques:

Journal: Antibiotics

Article Title: Genomic Analysis of Acinetobacter baumannii Isolates Carrying OXA-23 and OXA-58 Genes from Animals Reveals ST1 and ST25 as Major Clonal Lineages

doi: 10.3390/antibiotics11081045

Figure Lengend Snippet: Sample collection of A. baumannii isolates investigated in this study.

Article Snippet: To determine the clonal relationship of CR- A. baumannii strains, core genome MLST (cgMLST) implemented in Ridom SeqSphere + version 7.7.0 (Ridom GmbH, Germany) was performed [ ].

Techniques: