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seqsphere + v9.0.1  (Ridom GmbH)

 
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    Ridom GmbH seqsphere + v9.0.1
    Seqsphere + V9.0.1, supplied by Ridom GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/seqsphere/seqsphere/pmc12278488-249-14-19
    Average 90 stars, based on 1 article reviews
    seqsphere + v9.0.1 - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    other:

    Article Title: Characterization of vanA -harboring plasmids supports differentiation of outbreak-related and sporadic vancomycin-resistant Enterococcus faecium isolates in a tertiary care hospital
    Article Snippet: MLST STs were identified using the scheme for E. faecium [ ] implemented in Ridom SeqSphere + (Ridom GmbH).

    Article Title: Antimicrobial resistance in Campylobacter spp. focussing on C. jejuni and C. coli - A Narrative Review.
    Article Snippet: Accompanying metadata were obtained from GenBank files by using a text-mining Python script, with cgMLST and MLST typing being performed using SeqSphere (https://www.ridom.de/seqsphere/).

    Article Title: High Prevalence of Cefiderocol Resistance Among New Delhi Metallo-β-Lactamase Producing Klebsiella pneumoniae High-Risk Clones in Hungary.
    Article Snippet: The comparative analysis of isolates was assessed with SeqSphere+ (Ridom, Münster, Germany).

    Article Title: Interpreting whole-genome sequencing data during neonatal Klebsiella oxytoca complex outbreak management.
    Article Snippet: The resulting genome sequences were analysed using Ridom SeqSphere.

    Article Title: Detecting plasmid-mediated dissemination of bla KPC-3 and bla OXA-48-like genes in Enterobacterales across Finnish healthcare organizations using hybrid genome assembly
    Article Snippet: The short-read sequences were processed and analyzed using Trimmomatic (version 0.33), fastQC (version 0.11.6), SRST2 (version 0.2.0), and SeqSphere+ (Ridom GmbH, Münster, Germany), as previously described ( ).

    Article Title: Characterization of vanA-harboring plasmids supports differentiation of outbreak-related and sporadic vancomycin-resistant Enterococcus faecium isolates in a tertiary care hospital.
    Article Snippet: Minimum-spanning trees were created with Ridom SeqSphere+ (Ridom GmbH) based on cgMLST [12] allelic distances.

    Sequencing:

    Article Title: Role of Staphylococcus aureus Colonization in Burn Patients.
    Article Snippet: .. Multi-locus sequencing typing (MLST) profiles were assigned in Ridom SeqSphere+ [12] using the scheme for S. aureus available at https://pubmlst.org/organisms/staphylococcus-aureus. ..

    Generated:

    Article Title: A multi-country outbreak of Salmonella Mbandaka linked to pre-cooked, frozen chicken meat in ready-to-eat products, Finland, 2022 to 2023
    Article Snippet: .. The tree was generated using Ridom SeqSphere+ based on 1,261 alleles, with no missing values. ..



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    Population structure of the global Rhodococcus equi dataset including 233 genomes from 18 countries. Tree constructed using ad hoc core-genome MLST (cgMLST) scheme containing 2’737 genes generated in Ridom Seqsphere + v9.0.1 ( https://www.ridom.de/seqsphere/cgmlst/ ) and converted to a neighbor-joining phylogeny using the R package ape . The cgMLST phylogeny was rooted at the mid-point and visualized using iTOL . The year and country of isolation are shown in the inner and second ring from the centre respectively. Source attribution of the different isolates is shown in the third ring. Presence/absence of the virulence-associated plasmid and the various plasmid categories are color-coded in the outer ring. The scale bar expresses the average number of nucleotide substitutions per site

    Journal: BMC Microbiology

    Article Title: Multi-host distribution of Rhodococcus equi (Prescottella equi) strains and their phylogenomic clustering

    doi: 10.1186/s12866-025-04152-8

    Figure Lengend Snippet: Population structure of the global Rhodococcus equi dataset including 233 genomes from 18 countries. Tree constructed using ad hoc core-genome MLST (cgMLST) scheme containing 2’737 genes generated in Ridom Seqsphere + v9.0.1 ( https://www.ridom.de/seqsphere/cgmlst/ ) and converted to a neighbor-joining phylogeny using the R package ape . The cgMLST phylogeny was rooted at the mid-point and visualized using iTOL . The year and country of isolation are shown in the inner and second ring from the centre respectively. Source attribution of the different isolates is shown in the third ring. Presence/absence of the virulence-associated plasmid and the various plasmid categories are color-coded in the outer ring. The scale bar expresses the average number of nucleotide substitutions per site

    Article Snippet: Core-genome MLST (cgMLST) analysis for 286 R. equi genomes was performed in Ridom Seqsphere+ (v9.0.1; Ridom GmbH, Münster, Germany).

    Techniques: Construct, Generated, Isolation, Plasmid Preparation