Ridom SeqSphere+


Microbial NGS typing solution for outbreak investigation & surveillance

Ridom SeqSphere+ Software is the single solution for easy microbial analysis; enabling your lab to employ genome-wide microbial typing (MLST+/cgMLST), traditional MLST and other DNA-based typing methods. SeqSphere+ is designed for distributed work-groups (client/server model) and allows automatic processing and analyzing of NGS (e.g., Illumina, Ion Torrent or Roche/454) and Sanger capillary-electrophoresis CE sequence data.

No scripting or bioinformatics skills required

Ridom SeqSphere+ includes every tool that is needed to do bacterial typing with whole genome shotgun (WGS) data. The software works directly with the short-read FASTQ files produced by a NGS sequencer. A pipeline mode allows to import, assemble and analyze hundreds of read files without any user intervention.
MLST+ schemas for outbreak analysis can be downloaded for many species from the public MLST+ nomenclature server. Phylogenetic and minimum spanning trees can be easily created using the software.

Elevate your microbial research to the next level

A variety of methods have been developed to generate isolate-specific fingerprints for epidemiological typing. However, until now there is no single typing method available to address different bacterial population structures (monomorphic vs. panmictic) and all study types (e.g., evolutionary/phylogenetic, population genetics or transmission chain/outbreak investigation). For decades, the common typing method is based on multi locus sequence typing (MLST) of 5-7 housekeeping genes or pulse field gel electrophoresis (PFGE) and multi locus VNTR analysis (MLVA). Although widely adopted, these methods either lack discriminatory power or are labor intensive and difficult to standardize.

Now, microbiologists everywhere can experience the genomic revolution that benchtop next generation sequencing (NGS) provides. With fast affordable microbial whole genome shotgun (WGS) next generation sequencing and automatized software analysis, microbiologists can use genome-wide hundreds/thousands of genes (MLST+/cgMLST) for typing, resulting in higher discrimination and more accurate strain typing.

The heightened discrimination power of MLST+, coupled with rapid and simple workflow NGS (Figure), makes this complete solution ideal for everyday microbial monitoring to outbreak investigation. Recent examples include:

  • Mycobacterium tuberculosis complex: JCM 52: 2014 [PubMed],
  • Staphylococcus aureus/MRSA: JCM 52: 2014 [PubMed],
  • Listeria monocytogenes: CMI 20: 2014 [PubMed].

Ridom SeqSphere+ product sheet
Browse Publications using Ridom SeqSphere
Play Video: Dag Harmsen on SeqSphere+, a software solution increasing speed & simplicity of bacterial typing


Figure. Microbial WGS next generation sequencing and genome-wide gene by gene (MLST+) analysis workflow.

 
  Copyright © Ridom GmbH, Germany   Last modified: 03-Dec-2014  Imprint