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

Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

836
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
836
Automated Microbial Diagnostics01:24

Automated Microbial Diagnostics

77
Automated diagnostic analyzers have transformed clinical microbiology by providing rapid and reliable methods for pathogen identification and antibiotic susceptibility testing. Among these systems, the Vitek 2 is widely used because it automates the traditionally labor-intensive processes of microbial identification (ID) and antibiotic susceptibility testing (AST), delivering standardized and timely results that are essential for effective patient care.Microbial Identification with ID CardsThe...
77
Methods of Classification and Identification01:28

Methods of Classification and Identification

2.3K
Bacterial identification relies on a diverse array of techniques to classify and understand microorganisms, each tailored to uncover specific characteristics. Traditional morphological approaches, while still valuable, are limited for closely related or structurally simple organisms. Modern methods integrate biochemical, serological, genetic, and advanced molecular tools to achieve greater accuracy.Morphological and Biochemical TechniquesMorphological characteristics, such as cell shape and...
2.3K
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

705
Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
705
MALDI-TOF Mass Spectrometry01:19

MALDI-TOF Mass Spectrometry

5.8K
Mass spectrometry is a powerful characterization technique that can identify and separate a wide variety of compounds ranging from chemical to biological entities, based on their mass-to-charge ratio (m/z). The instruments that allow this detection, known as mass spectrometers, have three components: an ion source, a mass analyzer, and a detector. These spectrometers differ based on the nature of their ion source and analyzers.Matrix-assisted laser desorption ionization (MALDI) is a commonly...
5.8K

You might also read

Related Articles

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

Sort by
Same author

Polygenic risk scores enhance prediction of atrial fibrillation disease progression: an analysis of the UK Biobank.

Heart rhythm·2026
Same author

Regional fat distribution as a determinant of mortality in populations with left ventricular systolic dysfunction: challenging the obesity paradox.

European journal of preventive cardiology·2026
Same author

HIV-1 Nef generates lasting innate immune memory in haematopoietic stem and progenitor cells in vivo.

EMBO reports·2026
Same author

Seroprevalence of Coronavirus NL63 in Yamagata, Japan, Between 1976 and 2022.

The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale·2026
Same author

Prothrombotic genetic variants and cancer-associated venous thromboembolism: defining thrombotic risk across tumor types.

Haematologica·2026
Same author

Discovery of gene-alcohol interaction loci influencing blood pressure in 1.1 million individuals from multiple populations.

Research square·2026

Related Experiment Video

Updated: May 3, 2026

Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS
06:34

Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS

Published on: July 11, 2016

17.1K

MePIC, metagenomic pathogen identification for clinical specimens.

Fumihiko Takeuchi1, Tsuyoshi Sekizuka, Akifumi Yamashita

  • 1Pathogen Genomics Center, National Institute of Infectious Diseases.

Japanese Journal of Infectious Diseases
|January 24, 2014
PubMed
Summary

Next-generation sequencing enables pathogen identification by analyzing DNA/RNA from specimens. A new cloud-based pipeline, MePIC, streamlines this process for clinical use.

More Related Videos

Generating Whole Bacterial Genomes from Clinical Samples using a Target Enrichment Workflow
10:44

Generating Whole Bacterial Genomes from Clinical Samples using a Target Enrichment Workflow

Published on: August 15, 2025

1.3K
A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease
09:52

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

1.4K

Related Experiment Videos

Last Updated: May 3, 2026

Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS
06:34

Identification of Rare Bacterial Pathogens by 16S rRNA Gene Sequencing and MALDI-TOF MS

Published on: July 11, 2016

17.1K
Generating Whole Bacterial Genomes from Clinical Samples using a Target Enrichment Workflow
10:44

Generating Whole Bacterial Genomes from Clinical Samples using a Target Enrichment Workflow

Published on: August 15, 2025

1.3K
A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease
09:52

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

1.4K

Area of Science:

  • Microbiology
  • Bioinformatics
  • Genomics

Background:

  • Next-generation sequencing (NGS) offers a powerful approach for identifying infectious disease agents.
  • Current metagenomic analysis involves DNA/RNA extraction, sequencing, read matching, and genomic percentage estimation.
  • The computational demands of matching sequenced reads to databases pose a significant challenge.

Purpose of the Study:

  • To develop a user-friendly, cloud-based computational pipeline for metagenomic pathogen identification in clinical specimens.
  • To address the computational bottleneck in the read-matching step of metagenomic analysis.

Main Methods:

  • Development of the Metagenomic Pathogen Identification for Clinical specimens (MePIC) cloud-computing pipeline.
  • Implementation of read trimming, human read removal, and sequence similarity searching against nucleotide databases.
  • Utilization of cloud computing to accelerate sequence searching and a web interface for accessibility.

Main Results:

  • MePIC effectively processes sequenced reads by removing extraneous data and identifying similar sequences in databases.
  • The cloud-based architecture significantly speeds up the sequence matching process.
  • The pipeline provides an accessible interface for clinicians and epidemiologists.

Conclusions:

  • The MePIC pipeline facilitates efficient and accessible metagenomic pathogen identification.
  • This tool has the potential to advance the understanding and diagnosis of infectious diseases.
  • MePIC simplifies a critical computational step, promoting wider adoption of metagenomic methods in clinical settings.