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Related Concept Videos

Operon Model01:23

Operon Model

The operon model represents a fundamental mechanism of gene regulation in prokaryotes, enabling coordinated expression of genes involved in related metabolic or functional pathways. Operons consist of structural genes, a promoter, and an operator, with transcription regulated by repressors, activators, and small effector molecules.Structure and Function of OperonsAn operon is a cluster of structural genes transcribed together under the control of a single promoter. The promoter region...
Operons02:09

Operons

Prokaryotes can control gene expression through operons—DNA sequences consisting of regulatory elements and clustered, functionally related protein-coding genes. Operons use a single promoter sequence to initiate transcription of a gene cluster (i.e., a group of structural genes) into a single mRNA molecule. The terminator sequence ends transcription. An operator sequence, located between the promoter and structural genes, prohibits the operon’s transcriptional activity if bound by a repressor...
Operons02:09

Operons

Prokaryotes can control gene expression through operons—DNA sequences consisting of regulatory elements and clustered, functionally related protein-coding genes. Operons use a single promoter sequence to initiate transcription of a gene cluster (i.e., a group of structural genes) into a single mRNA molecule. The terminator sequence ends transcription. An operator sequence, located between the promoter and structural genes, prohibits the operon’s transcriptional activity if bound by a repressor...
Prokaryotic Transcriptional Activators and Repressors01:58

Prokaryotic Transcriptional Activators and Repressors

The organization of prokaryotic genes in their genome is notably different from that of eukaryotes. Prokaryotic genes are organized, such that the genes for proteins involved in the same biochemical process or function are located together in groups. This group of genes, along with their regulatory elements, are collectively known as an operon. The functional genes in an operon are transcribed together to give a single strand of mRNA known as polycistronic mRNA.
Transcription of prokaryotic...
Prokaryotic Transcriptional Activators and Repressors01:58

Prokaryotic Transcriptional Activators and Repressors

The organization of prokaryotic genes in their genome is notably different from that of eukaryotes. Prokaryotic genes are organized, such that the genes for proteins involved in the same biochemical process or function are located together in groups. This group of genes, along with their regulatory elements, are collectively known as an operon. The functional genes in an operon are transcribed together to give a single strand of mRNA known as polycistronic mRNA.
Transcription of prokaryotic...
Repressible Operon: trp Operon01:21

Repressible Operon: trp Operon

The trp operon in Escherichia coli exemplifies a repressible operon. It regulates the synthesis of tryptophan through repressor-mediated transcriptional control and attenuation. This dual regulatory mechanism ensures tryptophan biosynthesis occurs only when needed, conserving cellular resources.Structure of the trp OperonThe trp operon consists of five structural genes (trpE, trpD, trpC, trpB, and trpA) that encode enzymes for tryptophan biosynthesis. These genes are transcribed as a single...

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Related Experiment Video

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Engineering Adherent Bacteria by Creating a Single Synthetic Curli Operon
15:28

Engineering Adherent Bacteria by Creating a Single Synthetic Curli Operon

Published on: November 16, 2012

ProOpDB: Prokaryotic Operon DataBase.

Blanca Taboada1, Ricardo Ciria, Cristian E Martinez-Guerrero

  • 1Centro de Ciencias Aplicadas y Desarrollo Tecnológico, Universidad Nacional Autónoma de México, México, DF, México.

Nucleic Acids Research
|November 19, 2011
PubMed
Summary
This summary is machine-generated.

The Prokaryotic Operon DataBase (ProOpDB) provides precise operon predictions for over 1200 prokaryotic genomes. This resource aids in understanding gene organization and regulation across diverse bacterial species.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Microbiology

Background:

  • Operons are fundamental units of gene organization and regulation in prokaryotes.
  • Accurate operon prediction is crucial for understanding prokaryotic gene expression and function.
  • Existing databases may lack comprehensive or highly accurate operon predictions.

Purpose of the Study:

  • To present the Prokaryotic Operon DataBase (ProOpDB) as a precise and comprehensive repository of operon predictions.
  • To provide a novel and accurate algorithm for operon identification.
  • To facilitate the retrieval and analysis of operon structures across a large number of prokaryotic genomes.

Main Methods:

  • Development and application of a novel, highly accurate operon identification algorithm.
  • Prediction of operon structures for over 1200 prokaryotic genomes.
  • Integration of ProOpDB with external databases (KEGG, COG, Pfam) for enhanced data retrieval.
  • Implementation of a phylogenetic distance matrix for selecting non-redundant organisms.
  • Development of a Gene Context Tool for visualizing genomic context and retrieving regulatory sequences.

Main Results:

  • ProOpDB contains operon predictions for more than 1200 prokaryotic genomes.
  • The database offers diverse retrieval options including organism name, metabolic pathways, gene orthology, and conserved domains.
  • ProOpDB enables selection of representative organisms using a phylogenetic distance matrix.
  • Operon predictions are directly usable with the Gene Context Tool for genomic visualization and sequence retrieval.

Conclusions:

  • ProOpDB is a highly precise and complete resource for prokaryotic operon predictions.
  • The database significantly advances the study of prokaryotic gene organization and regulation.
  • ProOpDB and its associated tools provide valuable insights into prokaryotic genomics and functional analysis.