mlva plugin of the bionumerics program  (Applied Maths)

Journal: Antimicrobial Resistance and Infection Control

Article Title: Clinical impact of endemic NDM-producing Klebsiella pneumoniae in intensive care units of the national referral hospital in Jakarta, Indonesia

doi: 10.1186/s13756-020-00716-7

Figure Lengend Snippet: MLVA minimum spanning trees of carbapenem-non-susceptible Klebsiella pneumoniae. Minimum spanning tree analysis of K. pneumoniae isolates based on clustering at the VNTR loci. Clusters of genotypes differing in only one marker are indicated with a grey background. Panel a : Colours correspond to specimens from which K. pneumoniae isolates were cultured. Panel b : Distribution of genotypes per patient. Each colour, except white, indicates a different patient. Only patients with 2 or more isolates are presented in this manner. Patients that had only one isolate of a carbapenem-non-susceptible K. pneumoniae are indicated by the colour white

Article Snippet: Electropherograms were analyzed using the MLVA plugin in BioNumerics v7.6 software (Applied-Maths, Sint-Martens-Latem, Belgium).

Techniques: Marker, Cell Culture

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Summary of the MLVA results

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Dendrogram containing the pulsotypes obtained on the four farms. Per pulsotype, one isolate is shown as an example. Consecutive the dendrogram, pulsotype pattern, farm and number of isolates belonging to the pulsotype on the total number of typed isolates per farm are shown. For each example, the isolate origin, unit (NU: nursing unit, GU: growing unit, GU1: growing unit 1, FU: finishing unit, FU2: finishing unit 2), spa type, SCC mec type (NT type 3: mec A complex NT/ ccr complec C) and MLVA cluster are given.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Minimum spanning tree of the farm C MLVA types. The MLVA types are indicated by numbers, according to origin (green: piglet, orange: sow and blue: wall). The dominant clusters B, C, D, and E of the farm are indicated in coloured spheres, whereas the non-dominant clusters are indicated in black spheres.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Minimum spanning tree of the farm D MLVA types. The MLVA types are indicated in numbers, according to origin (green: piglet, orange: sow and blue: wall). The dominant clusters B and D of the farm are indicated in coloured spheres, whereas the non-dominant clusters are indicated in black spheres.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Minimum Spanning Tree of the farm A MLVA types. The MLVA types are indicated by numbers, according to origin (green: piglet, orange: sow and blue: wall). The dominant cluster A of the farm is indicated in a coloured sphere, whereas the non-dominant clusters are indicated in black spheres.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Minimum spanning tree of the farm B MLVA types. The MLVA types are indicated by numbers, according to origin (green: piglet, orange: sow and blue: wall). The dominant clusters B, G, and H of the farm are indicated in coloured spheres, whereas the non-dominant clusters are indicated in black spheres.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Overview of some observations. A) Piglets carrying non-related MLVA types to their mother sow (sow 12 and her offspring sampled one day after farrowing on farm B); B) Overview of the MLVA types found in the three units of farm A (green: nursing unit, red: growing unit and blue: finishing unit); C) Piglets carrying related MLVA types to their mother sow (sow 9 and her offspring sampled 3, 6, and 20 days after farrowing on farm D). In addition, piglets of the same litter carried various related and unrelated MLVA types.

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Distribution of the MLVA clusters, observed on the four farms, at each time point after farrowing. The cluster designation is shown in the bar. The non-dominant clusters and non-clustered MLVA types are given in the purple bar without indication. On farm A , no isolates were obtained within the hour and 17 days after farrowing, whereas on farm B 23 days after farrowing. The piglets of farm C were transported to the second site after a short stay in the growing unit of site 1. The animals received a promycin and amoxicillin treatment in both growing units. The pigs of farm D were moved from one finishing unit to another after a few weeks (h: hour, d: days, NU: nursing unit, GU: growing unit, FU: finishing unit).

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques:

Journal: Veterinary Research

Article Title: Genetic diversity of livestock-associated MRSA isolates obtained from piglets from farrowing until slaughter age on four farrow-to-finish farms

doi: 10.1186/s13567-014-0089-4

Figure Lengend Snippet: Example of the molecular typing results of all isolates obtained from two sows (sows 1 and 9) and two piglets (pig 6 originating from sow 1 and pig 88 originating from sow 9) from farm C

Article Snippet: The obtained patterns were transformed into numeric codes using the MLVA plugin in Bionumerics (Bionumerics version 6.5; Applied Maths, St.-Martens-Latem, Belgium).

Techniques: Sampling