Next Generation Sequencing and Its Role in Clinical Microbiology and Molecular Epidemiology

  • Faiza Zeeshan Jinnah Sindh Medical University
  • Sadaf Razzak jinnah sindh medical university
Keywords: next generation sequencing, bacterial genomics

Abstract

Next generation sequencing (NGS) is a trend setting molecular technology which has made whole genome sequencing of polymicrobial samples in a single run.

The obtained genomic data has significantly helped in molecular epidemiology, molecular characterization of resistant micro orgainisms, out breaks information and genomic data build up. The NGS offers variety of platforms for sequencing, yielding genomic data in terabites. The bioinformatics tools futher ease in interpretaion of data into meaningful information. Over the last decade, bacterial genomics has flourished leaps and bounds on account of NGS techniques.

 

References

Eloit M, Lecuit M. The diagnosis of infectious diseases by whole genome next generation sequencing: a new era is opening. Front Cell Infect Microbiol.2014;4:25.

Davies K. 13 years ago, a beer summit in an English pub led to the birth of Solexa. Bio IT World. 2010. (www.bio-itworld.com/2010/issues/septoct/solexa.html).

Kchouk M, Gibrat JF, Elloumi M. Generations of sequencing technologies: From first to next generation. Biol Med. 2017; 9:3.

Deurenberg RH, Bathoorn E, Chlebowicz MA, Couto N, Ferdous M, García-Cobos S. et.al. Application of next generation sequencing in clinical microbiology and infection prevention. J Biotechnol. 2017; 243:16-24.

Goldberg B, Sichtig H, Geyer C, Ledeboer N, Weinstock GM. Making the leap from research laboratory to clinic: challenges and opportunities for next-generation sequencing in infectious disease diagnostics. mBio.2015;6(6):e01888-15. doi: 10.1128/mBio.01888-15.

Cummings LA, Kurosawa K, Hoogestraat DR, SenGupta DJ, Candra F, Doyle M, et.al. Clinical next generation sequencing outperforms standard microbiological culture for characterizing polymicrobial samples. Clin Chem. 2016;62(11):1465-73. doi: 10.1373/clinchem.2016.258806.

Published
2020-07-11