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

Ribosome Profiling02:24

Ribosome Profiling

3.5K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.5K
Proteomics01:33

Proteomics

7.3K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
7.3K

You might also read

Related Articles

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

Sort by
Same author

4‑Aminoalkylquinolines as Potent Antitubercular Agents Targeting the Cytochrome bc<sub>1</sub> Complex.

ACS medicinal chemistry letters·2026
Same author

Identification of Potential Anti-TB Candidates: A Step-by-Step Guide to Synthesis, MIC Determination, and Cytotoxicity Assessment in Mammalian Cells.

Journal of visualized experiments : JoVE·2026
Same author

Inhibitory effects of thiophene-2-thiazole hybrids against sensitive strains and resistant clinical isolates of Mycobacterium tuberculosis.

Bioorganic & medicinal chemistry letters·2026
Same author

Microprotein-Derived Secreted Peptide That Stimulates Cellular cAMP Production.

Biochemistry·2026
Same author

Compartment-specific activation of kinin B1 and B2 receptors drives the production of vasoactive and inflammatory mediators during SARS-CoV-2 infection.

Immunology letters·2025
Same author

Abnormal mitochondrial structure and function in brown adipose tissue of SLC35A4-MP knockout mice.

Science advances·2025

Related Experiment Video

Updated: Jun 21, 2025

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.4K

Identification of Novel Bacterial Microproteins Encoded by Small Open Reading Frames Using a Computational

Eduardo Vieira de Souza1,2, Cristiano Valim Bizarro3,4

  • 1Centro de Pesquisas em Biologia Molecular e Funcional (CPBMF) and Instituto Nacional de Ciência e Tecnologia em Tuberculose (INCT-TB), Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Porto Alegre, Brazil.

Methods in Molecular Biology (Clifton, N.J.)
|July 12, 2024
PubMed
Summary

This study introduces μProteInS, a bioinformatics pipeline for identifying microproteins from small open reading frames (smORFs) in bacteria. It leverages proteogenomics to accurately detect these previously overlooked proteins.

Keywords:
Genome annotationMass spectrometryProteomicsRNA-seqsmORFsμProteInS

More Related Videos

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
07:38

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

Published on: April 11, 2019

12.7K
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

545

Related Experiment Videos

Last Updated: Jun 21, 2025

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.4K
Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
07:38

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

Published on: April 11, 2019

12.7K
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

545

Area of Science:

  • Genomics
  • Proteomics
  • Bioinformatics

Background:

  • Small open reading frames (smORFs) encoding microproteins (proteins < 100 amino acids) have been historically excluded from genome annotation due to limitations in traditional genomics pipelines.
  • This exclusion has led to a significant underrepresentation of potentially functional small proteins in genomic databases.

Purpose of the Study:

  • To present μProteInS, a comprehensive bioinformatics pipeline designed for the identification of unannotated microproteins encoded by smORFs in bacterial genomes.
  • To demonstrate the utility of proteogenomics in overcoming the challenges of identifying short protein sequences.

Main Methods:

  • The μProteInS pipeline integrates genomics, transcriptomics, and proteomics data.
  • It encompasses quality control, transcriptome assembly, and mass spectrometry data analysis, including scoring and post-processing.
  • A machine learning component is included for high-confidence spectral identification.

Main Results:

  • The pipeline enables accurate identification of microproteins by overlaying multi-omics evidence.
  • It provides a systematic workflow for discovering novel small proteins from smORFs.
  • The machine learning approach enhances the reliability of identifying microproteins in large datasets.

Conclusions:

  • Proteogenomics, facilitated by pipelines like μProteInS, is crucial for the accurate annotation of microproteins.
  • This approach significantly expands the scope of genome annotation to include previously neglected small proteins.
  • μProteInS offers a robust solution for identifying and validating microproteins in bacterial systems.