Wednesday, May 21, 2008
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Biotage PyroMark ID

The spedy microbial sequencer



PyroMark ID is designed for routine microbial identification for clinical research. PyroMark ID supports microbial identification by streamlining the entire process from assay design and sequencing through to the discrimination of the microbial species. PyroMark ID integrates the sequencing process with the interpretation of Pyrosequencing data, using the new identification software IdentiFire&trade. IdentiFire compares the sequence data generated by Pyrosequencing against a local database of relevant microbial species.

Bacterial identification
Broad-range identification strategies using signature sequences in the 16S rDNA gene and the rnpB gene have been described, as well as more specific assays for Bordetella pertussis, Mycobacteria spp., Neisseria spp., Helicobacter pylori, and Streptococcus spp.

Biotage offers an Analyte Specific Reagent for detection of Non- Tuberculosis Mycobacteria. ProMark MOTT ASR

Fungal identification
Broad-range identification strategies of yeasts and molds using signature sequences in the ITS2 region have been described, capable of speciation of Candida spp., Aspergillus spp., Penicillium spp., Fusarium spp., and many others with a single assay.

Biotage offers an Analyte Specific Reagent for supporting the development of assays for detection of fungi, yeasts and molds commonly encountered in the clinic. PyroMark FUNGI ASR.

Viral identification
Identification of viruses including influenza, Human Papilloma Virus and Herpes Simplex Virus.

Resistance
Several genetic methods based on Pyrosequencing for resistance detection have already been described, including adamantane resistance in influenzavirus; ciprofloxacin resistance in Neisseria gonorrhoeae, isoniazid, rifampicin, ethambutol and quinolone resistance in Mycobacterium tuberculosis; macrolide resistance in Streptococcus pneumoniae, Streptococcus pyogenes, Mycobacterium avium, Campylobacter jejuni and Haemophilus influenzae; clarithromycin resistance in Helicobacter pylori; and linezolid resistance in Enterococcus spp.

With PyroMark ID, sequencing becomes a practical reality since it is far easier to perform compared to traditional sequencing. PyroMark ID disposes of gels, dyes and cleanup steps to shorten the preparation, sequencing and analysis process to less than 2 hours for 96 specimens.

With Pyro Gold, the new chemistry formulation for Pyrosequencing, greatly improves sequence read length and quality as well as first-time success in assay design.

Furthermore, PyroMark ID also supports sequence-based resistance typing, by analysing SNPs, point mutations, insertions, deletions and multiple gene copies on the same instrument platform.

Applications
Genetic Variation

  • SNP & mutation analysis
    • Simplex & multiplex SNP genotyping
    • Tri/tetra-allelic mutations
    • Insertions & deletions
    • Multiple contigous mutations
  • SNP association studies
  • SNP vadidation
  • Complex mutation analysis
  • Mutation hot-spot analysis
Quantification
  • CpG methylation analysis
  • Analysis of polyploid genomes
  • Allele-specific Geneion
  • SNP pooling studies
  • Viral/bacteria load
  • Loss of heterozygosity
  • Gene copy number
Short DNA sequencing
  • Microbial identification
    • Species discrimination
    • Sub-typing
    • Resistance detection
  • Sequence signatures
  • DNA bar-coding
  • Sequence variation
  • Sequence verification
  • Forensics
  • Clone checking

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