Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Sanger Sequencing01:57

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Reducing Supply Chain Dependencies for Viral Genomic Surveillance: Get by with a Little HELP from Commercial Enzymes already in your Lab Freezer.

Wellcome open research·2026
Same author

Global approaches to infectious disease surveillance and modeling.

Nature medicine·2026
Same author

Metagenomic analysis of UK retail foods finds limited evidence for associations between food production method and antimicrobial resistance gene burden.

Microbial genomics·2026
Same author

Metabolic reconstruction reveals ATP salvage as a key response to trimethoprim treatment.

iScience·2026
Same author

Trimethoprim: bactericidal or bacteriostatic activity is dependent on bacterial growth conditions.

Journal of medical microbiology·2026
Same author

The Effect of pH during Fabrication of Platinum-Containing Polymeric Arsenical Hydrogels.

Macromolecules·2026

Related Experiment Video

Updated: May 23, 2026

Cost-Efficient Transcriptomic-Based Drug Screening
06:40

Cost-Efficient Transcriptomic-Based Drug Screening

Published on: February 23, 2024

Performance comparison of benchtop high-throughput sequencing platforms.

Nicholas J Loman1, Raju V Misra, Timothy J Dallman

  • 1Centre for Systems Biology, University of Birmingham, Birmingham, UK.

Nature Biotechnology
|April 24, 2012
PubMed
Summary

Benchtop high-throughput sequencing instruments like the MiSeq, 454 GS Junior, and Ion Torrent PGM offer rapid bacterial genome sequencing for pathogen identification. The MiSeq provided the best overall performance with high throughput and low error rates.

More Related Videos

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies
13:24

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Published on: April 11, 2016

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons
10:24

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Published on: August 29, 2014

Related Experiment Videos

Last Updated: May 23, 2026

Cost-Efficient Transcriptomic-Based Drug Screening
06:40

Cost-Efficient Transcriptomic-Based Drug Screening

Published on: February 23, 2024

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies
13:24

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Published on: April 11, 2016

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons
10:24

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Published on: August 29, 2014

Area of Science:

  • Genomics
  • Microbiology
  • Bioinformatics

Background:

  • Benchtop high-throughput sequencing instruments are increasingly accessible for clinical applications.
  • These instruments offer potential for rapid pathogen identification and characterization.

Purpose of the Study:

  • To compare the performance of three leading benchtop high-throughput sequencing instruments.
  • To evaluate their suitability for clinical pathogen identification using a bacterial genome.

Main Methods:

  • Sequencing of an Escherichia coli O104:H4 isolate using the 454 GS Junior, MiSeq, and Ion Torrent PGM.
  • Comparative analysis of throughput, read length, assembly contiguity, and error rates.

Main Results:

  • The MiSeq (Illumina) demonstrated the highest throughput (1.6 Gb/run, 60 Mb/h) and lowest error rates.
  • The 454 GS Junior (Roche) produced the longest reads (up to 600 bases) and most contiguous assemblies but had the lowest throughput (70 Mb/run, 9 Mb/h).
  • The Ion Torrent PGM (Life Technologies) achieved high throughput (80–100 Mb/h) in 100-bp mode but exhibited homopolymer-associated indel errors, similar to the 454 GS Junior.

Conclusions:

  • Benchtop sequencers provide rapid draft bacterial genome data suitable for clinical pathogen identification.
  • Instrument choice depends on specific needs regarding throughput, read length, and error tolerance.
  • Homopolymer-associated indel errors are a consideration for the Ion Torrent PGM and 454 GS Junior.