Microbial Genomics
Gain critical genetic insight into bacteria and viruses with Illumina technology and informatics for microbial genomics. Whether you are performing metagenomics studies, or monitoring disease outbreaks, Illumina’s broad base of applications and industry-leading data quality will help you discover answers, faster and more efficiently than you ever thought possible.
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Microbiology Research
Next-generation sequencing (NGS) has been instrumental in advancing microbiology research. With NGS, you can measure changes anywhere in the genome without prior knowledge, which is critical for unculturable organisms. Single-base resolution allows tracking of microbial adaptation over short periods of time, both in the laboratory and in the environment.
Most adopted, most adaptable technology
From amplicons to metagenomes, we have a sequencing solution for you. With thousands of peer-reviewed publications, see what’s possible when microbial genomics is powered by next-generation sequencing.
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Selected Publications
- The Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486(7402):207-14.
- Li E, Hamm CM, Gulati AS, Sartor RB, Chen H, et al. (2012) Inflammatory bowel diseases phenotype, C. difficile and NOD2 genotype are associated with shifts in human ileum associated microbial composition. PLoS ONE 7(6): e26284. doi:10.1371/journal.pone.0026284
Infectious Disease Surveillance & Monitoring
Next-generation sequencing is a powerful tool for infectious disease surveillance and monitoring. By evaluating microbial and viral genome mutations, scientists can monitor changes in virulence or resistance genes, and rapidly determine outbreak origins and transmission.
Tracking Pathogenic Changes
Get an introduction to the emerging field of genomic epidemiology, as Dr. Jennifer Gardy discusses how NGS was used to reconstruct outbreaks of tuberculosis in British Columbia, Canada.
Selected Publications
- Harris, S. R., Clarke, I. N., Seth-Smith, H. M., Solomon, A.W., Cutcliffe, L. T., et al. (2012) Whole-genome analysis of diverse Chlamydia trachomatis strains identifies phylogenetic relationships masked by current clinical typing. Nat Genet 44:413-419, S411
- Reeves, P. R., Liu B., Zhou Z., Li D., Guo D., et al. (2011) Rates of mutation and host transmission for an Escherichia coli clone over 3 years. PLoS ONE 6: e26907
- Grad, Y. H., Lipsitch, M., Feldgarden, M., Arachchi, H. M., Cerqueira, G. C., et al. (2012) Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011. Proc Natl Acad Sci U S A 109: 3065-3070
Microbiology Research
Next-Generation Sequencing for Microbiology Overview
Get an overview of basic concepts behind next-generation sequencing (NGS).
Exploring the Home, Hospital, and Human Interactome- the H3MP Project
Download the webinar from Dr. Jack Gilbert »
High-Speed, Multiplexed 16S Amplicon Sequencing on the MiSeq System
Learn how you can get genus-level identification of complex microbial populations with our demonstrated protocol for MiSeq.
Download the application note »
De Novo Assembly of Microbial Genomes Made Easy
Get an overview of BaseSpace »See de novo assembly in BaseSpace »
Microbiomes Under the Microscope
Read our summary of the talks at AGBT »
Infectious Diseases
Bacterial typing of Listeria monocytogenes on the MiSeq system
Read the application note »Learn more about the MiSeq System »