Jove
Visualize
Contact Us

Related Concept Videos

Diversity of Protists I01:15

Diversity of Protists I

2.2K
Excavata is a diverse group of protists that includes both chemoorganotrophic and phototrophic species, with some thriving in anaerobic environments. Among the key groups within Excavata are diplomonads and parabasalids, which are flagellated protists that lack mitochondria and chloroplasts. These microorganisms typically inhabit anoxic environments, such as the intestines of animals, where they exist either symbiotically or as parasites, relying on fermentation for energy production. Some...
2.2K
Diversity of Protists III01:27

Diversity of Protists III

2.0K
Rhizaria are a diverse group of unicellular protists characterized by their threadlike cytoplasmic extensions known as pseudopodia. These structures aid in both locomotion and feeding, giving Rhizaria an amoeboid appearance. Their amoeboid morphology once led to taxonomic confusion, but molecular phylogenetics has clarified their evolutionary placement and emphasized their shared use of pseudopodia despite divergent lineages.This clade comprises diverse lineages such as Chlorarachniophyta,...
2.0K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

7.2K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
7.2K
Phylogeny01:23

Phylogeny

64.6K
Phylogeny is concerned with the evolutionary diversification of organisms or groups of organisms. A group of organisms with a name is called a taxon (singular). Taxa (plural) can span different levels of the evolutionary hierarchy. For instance, the group containing all birds is a taxon (comprising the class Aves), and the group of all species of daisies (the genus Bellis) is a taxon. Phylogenies can likewise include just one genus (i.e., depict species relationships) or span an entire kingdom.
64.6K
Diversity of Protists II01:27

Diversity of Protists II

2.2K
Alveolates are a group of organisms recognized by the presence of alveoli, which are cytoplasmic sacs located beneath the cell membrane. While their function remains uncertain, alveoli may help regulate water balance by controlling how much water enters and leaves the cell. In dinoflagellates, these structures may serve as armor plates. There are three major types of alveolates: ciliates, which move using cilia; dinoflagellates, which use flagella for movement; and apicomplexans, which are...
2.2K
Diversity of Protists IV01:27

Diversity of Protists IV

2.1K
Amoebozoa represent a diverse group of terrestrial and aquatic protists that utilize lobe-shaped pseudopodia for locomotion and feeding. This characteristic differentiates them from the Rhizaria, which possess threadlike pseudopodia. The primary classifications within Amoebozoa include gymnamoebas, entamoebas, and the plasmodial and cellular slime molds. Phylogenetic evidence indicates that Amoebozoa diverged from a lineage that ultimately gave rise to fungi and animals.Gymnamoebas and...
2.1K

You might also read

Related Articles

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

Sort by
Same author

Resistome and Mobilome Profiling of Raw Cow and Buffalo Milk from the Brazilian Amazon via Shotgun Metagenomics.

Antibiotics (Basel, Switzerland)·2026
Same author

Detection of <i>Burkholderia mallei</i> in Microbiological Culture: A Comparative Analysis of PCR Primer Sets.

Pathogens (Basel, Switzerland)·2025
Same author

Differential expression reveals inflammatory response and oxidative stress genes in dentin caries.

Archives of oral biology·2025
Same author

The Dentin Microbiome: A Metatranscriptomic Evaluation of Caries-Associated Bacteria.

Biomedicines·2025
Same author

Clinical and Molecular Characterization of Human Burkholderia mallei Infection, Brazil.

Emerging infectious diseases·2024
Same author

A comparative genomics study of the microbiome and freshwater resistome in Southern Pantanal.

Frontiers in genetics·2024
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 Experiment Video

Updated: Apr 2, 2026

A Data Integration Workflow to Identify Drug Combinations Targeting Synthetic Lethal Interactions
07:40

A Data Integration Workflow to Identify Drug Combinations Targeting Synthetic Lethal Interactions

Published on: May 27, 2021

4.7K

Improved orthologous databases to ease protozoan targets inference.

Nelson Kotowski1, Rodrigo Jardim2, Alberto M R Dávila3

  • 1Computational and Systems Biology Laboratory, Oswaldo Cruz Institute, FIOCRUZ, Avenida Brasil, 4365, 21040-360, Rio de Janeiro, RJ, Brazil. nelson.peixoto@fiocruz.br.

Parasites & Vectors
|September 30, 2015
PubMed
Summary

This study introduces an improved method for building orthologous databases using comparative genomics. The enhanced databases aid in identifying potential protozoan targets through homology inference.

More Related Videos

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing
07:21

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing

Published on: August 25, 2018

13.6K
Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

1.3K

Related Experiment Videos

Last Updated: Apr 2, 2026

A Data Integration Workflow to Identify Drug Combinations Targeting Synthetic Lethal Interactions
07:40

A Data Integration Workflow to Identify Drug Combinations Targeting Synthetic Lethal Interactions

Published on: May 27, 2021

4.7K
Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing
07:21

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing

Published on: August 25, 2018

13.6K
Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

1.3K

Area of Science:

  • Comparative genomics
  • Bioinformatics
  • Parasitology

Background:

  • Homology inference is crucial for understanding evolutionary relationships between organisms.
  • Comparative genomics pipelines, utilizing various bioinformatics tools, are essential for such analyses.
  • Identifying protozoan targets benefits significantly from advanced comparative genomics approaches.

Purpose of the Study:

  • To propose a novel methodology for constructing improved orthologous databases.
  • To leverage these databases for enhanced protozoan target identification.
  • To refine comparative genomics pipelines for broader biological applications.

Main Methods:

  • Utilized the OrthoSearch comparative genomics pipeline, based on HMM and reciprocal best hits.
  • Developed a method to merge and compare existing orthologous databases (EggNOG KOG, ProtozoaDB, Kegg Orthology).
  • Performed similarity analysis against the human genome to identify potential protozoan targets.

Main Results:

  • Created two comprehensive orthologous databases: "KO + EggNOG KOG" (16,938 groups) and "KO + EggNOG KOG + ProtozoaDB" (27,701 groups).
  • Achieved significant coverage of protozoan genomes (e.g., up to 19% for Entamoeba histolytica).
  • Identified 13 potential protozoan targets using a distant homology approach with the enhanced databases.

Conclusions:

  • The HMM-based methodology generates broader orthologous datasets compared to original databases.
  • These improved databases enhance homology inference, annotation tasks, and protozoan target discovery.
  • The approach offers a valuable tool for advancing research in protozoan biology and drug development.