Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

What is an Ecosystem?

What is an Ecosystem?

Ecological Disturbance

Ecological Disturbance

An ecological disturbance is a temporary disruption in the environment resulting from abiotic, biotic, or anthropogenic factors, causing a pronounced change in an ecosystem. The impact of an ecological disturbance, which can depend on its intensity, frequency, and spatial distribution, plays a significant role in shaping the species diversity within the ecosystem.

What are Biogeochemical Cycles?

What are Biogeochemical Cycles?

The most common elements in organic molecules, carbon, hydrogen, oxygen, nitrogen, sulfur, and phosphorus, are only available in the ecosystem in limited amounts. Therefore, these nutrients must be recycled through both biotic and abiotic components of the ecosystem, in processes generally called biogeochemical cycles.

Cycloalkanes

Cycloalkanes

Cycloalkanes are saturated cyclic hydrocarbons with carbon atoms arranged in the form of rings. They have two fewer hydrogen atoms than the corresponding acyclic alkane; therefore, their general formula is CnH2n. The structural formulas of cycloalkanes are simplified using the line-angle representation. The regular polygons are used to represent the cycloalkane rings, with each side representing a carbon-carbon bond.
The IUPAC nomenclature of cycloalkanes follows similar rules that apply to...

Ecological Niches

Ecological Niches

All organisms have a position within an ecosystem. The complete set of living and nonliving factors—including food resources, climate, and terrain—that define the position of a given organism are collectively referred to as the organism’s ecological niche.

Global Climate Change

Global Climate Change

Throughout its ~4.5 billion year history, the Earth has experienced periods of warming and cooling. However, the current drastic increase in global temperatures is well outside of the Earth’s cyclic norms, and evidence for human-caused global climate change is compelling. Paleoclimatology, the study of ancient climate conditions, provides ample evidence for human-caused global climate change by comparing recent conditions with those in the past.

You might also read

Related Articles

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

Sort by

Same author

Review of Facklamia Species Involvement in Human Infection and Urological Disease.

Microorganisms·2026

Same author

The Peezy Device Compared With Midstream Clean Catch in an Obstetric Population: A Randomized Controlled Trial.

American journal of perinatology·2026

Same author

Evidence for a shift towards a proinflammatory/pronociceptive signature of gut dysbiosis in patients with axial chronic low back pain: A preliminary cross-sectional analysis.

The journal of pain·2026

Same author

Hair and wool of ruminants and canines as environmental vectors of Bacillus anthracis and potential human exposure in anthrax-endemic regions.

Scientific reports·2026

Same author

Differential Effects of Uropathogenic and Non-Uropathogenic <i>E. coli</i> on the Mouse Urobiome and Urine NGAL Levels.

Research and reports in urology·2026

Same author

PTMOverlay: A Proteomic Tool to Visualize Post-Translational Modifications Across Evolution.

bioRxiv : the preprint server for biology·2026

Same journal

The response of microbial necromass C and its contribution to SOC to vinasse biochar based on a pot experiment.

Frontiers in microbiology·2026

Same journal

Rhodamine B/gold nanoparticles-coloaded UiO-66 as a novel probe for highly sensitive and dual-mode detection of Potato virus S in field samples.

Frontiers in microbiology·2026

Same journal

Adaptive reprogramming of carbon-nitrogen metabolism in <i>Klebsiella aerogenes</i> under nitrate-rich conditions.

Frontiers in microbiology·2026

Same journal

Predatory <i>Myxococcus fulvus</i> strain KS01 confers biocontrol and growth promotion in cotton through multifaceted antifungal mechanisms.

Frontiers in microbiology·2026

Same journal

Understanding the influence of sward type and dairy cow breed on enteric methane emissions through investigation of the rumen microbiome.

Frontiers in microbiology·2026

Same journal

Morpho-cultural, pathogenic, and molecular diversity, and population structure analysis of <i>Bipolaris sorokiniana</i> causing spot blotch disease in wheat.

Frontiers in microbiology·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Oct 24, 2025

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Published on: February 10, 2023

The EcoCyc Database in 2021.

Ingrid M Keseler¹, Socorro Gama-Castro², Amanda Mackie³

¹Bioinformatics Research Group, Artificial Intelligence Center, SRI International, Menlo Park, CA, United States.

Frontiers in Microbiology

|August 16, 2021

Summary

This summary is machine-generated.

The EcoCyc database now offers enhanced Escherichia coli K-12 data, including metabolism and gene regulation. Recent updates improve usability and introduce new visualization tools for researchers.

Keywords:

EcoCyc Escherichia coli drug efflux transporters gene regulation metabolism model-organism database

More Related Videos

Compost Microcosms as Microbially Diverse, Natural-like Environments for Microbiome Research in Caenorhabditis elegans

Compost Microcosms as Microbially Diverse, Natural-like Environments for Microbiome Research in Caenorhabditis elegans

Published on: September 13, 2022

Quantification of the Potential Impact of Glyphosate-Based Products on Microbiomes

Quantification of the Potential Impact of Glyphosate-Based Products on Microbiomes

Published on: January 10, 2022

Related Experiment Videos

Last Updated: Oct 24, 2025

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Published on: February 10, 2023

Compost Microcosms as Microbially Diverse, Natural-like Environments for Microbiome Research in Caenorhabditis elegans

Compost Microcosms as Microbially Diverse, Natural-like Environments for Microbiome Research in Caenorhabditis elegans

Published on: September 13, 2022

Quantification of the Potential Impact of Glyphosate-Based Products on Microbiomes

Quantification of the Potential Impact of Glyphosate-Based Products on Microbiomes

Published on: January 10, 2022

Area of Science:

Microbiology
Bioinformatics
Systems Biology

Background:

EcoCyc is a curated model-organism database for Escherichia coli K-12.
It integrates experimental data on genes, proteins, and metabolic pathways.
Regular updates ensure data accuracy and comprehensiveness.

Purpose of the Study:

To highlight recent improvements in the EcoCyc database.
To showcase advancements in curated data for metabolism, transport, DNA repair, and gene expression regulation.
To introduce new data analysis and visualization tools.

Main Methods:

Manual curation of database entries (genes, proteins, pathways).
Programmatic addition of high-throughput analysis results.
Updates to Pathway Tools software and web interface.

Main Results:

Enhanced curated data in metabolism, transport, DNA repair, and gene expression regulation.
Introduction of an interactive metabolic network explorer.
Implementation of a circular genome viewer and improved existing tools.

Conclusions:

Recent EcoCyc updates have significantly improved data content and usability.
New tools enhance data analysis and visualization for Escherichia coli K-12 research.
The database remains a valuable resource for the scientific community.