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Related Concept Videos

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...

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Updated: Jun 23, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

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Computational gene annotation in new genome assemblies using GeneID.

Enrique Blanco1, Josep F Abril

  • 1Departament de Genètica, Facultat de Biologia, Universitat de Barcelona, Spain.

Methods in Molecular Biology (Clifton, N.J.)
|April 21, 2009
PubMed
Summary
This summary is machine-generated.

Annotating eukaryotic genomes is crucial for understanding biological elements. This study presents a bioinformatics protocol using GeneID to locate genes in the *Drosophila yakuba* genome, aiding genomic research.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Eukaryotic genome sequences are widely accessible.
  • Genome annotation, especially gene identification, is essential but challenging.
  • Bioinformatics tools are critical for effective genome analysis.

Purpose of the Study:

  • To present a straightforward protocol for gene annotation.
  • To demonstrate the application of bioinformatics tools for gene location.
  • To annotate a known gene from *Drosophila melanogaster* in the *Drosophila yakuba* genome.

Main Methods:

  • Utilizing the GeneID program as a primary tool.
  • Combining GeneID with other computational methods.
  • Applying the protocol to the assembled *D. yakuba* genome.

Main Results:

  • Successful annotation of a previously identified gene's location.
  • Demonstration of a feasible gene identification strategy.
  • Validation of the protocol's utility in comparative genomics.

Conclusions:

  • The presented protocol offers a practical approach to gene annotation in newly sequenced eukaryotic genomes.
  • Effective gene annotation is achievable through integrated bioinformatics tools.
  • This method facilitates comparative genomics studies by enabling gene mapping across species.