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Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
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...
Phylogeny01:23

Phylogeny

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...
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.

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Updated: Jul 2, 2026

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

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TreeGenes: A forest tree genome database.

Jill L Wegrzyn1, Jennifer M Lee, Brandon R Tearse

  • 1Department of Plant Sciences, University of California, Davis, 95616, USA.

International Journal of Plant Genomics
|August 30, 2008
PubMed
Summary
This summary is machine-generated.

The Dendrome Project and TreeGenes database offer a centralized resource for forest genetics research, integrating diverse genomic data to facilitate gene discovery and analysis for over 2,000 researchers globally.

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Area of Science:

  • Forest genetics and genomics
  • Bioinformatics and computational biology
  • Plant sciences

Background:

  • The forest genetics research community requires integrated access to diverse genomic data.
  • Existing data resources are often fragmented, hindering comprehensive analysis.
  • The Dendrome Project and TreeGenes database were established to address this need.

Purpose of the Study:

  • To provide a comprehensive, web-based relational database for forest tree genomics data.
  • To facilitate gene discovery and analysis in forest tree species, particularly Pinaceae.
  • To develop integrated tools for data submission, retrieval, and analysis.

Main Methods:

  • Curating and integrating a wide range of genetic data, including species, publications, DNA information, genetic maps, molecular markers, ESTs, genotypic, and phenotypic data.
  • Developing a PostgreSQL relational database with ten main search modules for logical data navigation.
  • Implementing interfaces to encourage data submission and integration from the research community.

Main Results:

  • A curated and integrated web-based relational database serving approximately 2,000 forest genetics researchers worldwide.
  • Inclusion of diverse genetic data from numerous forest trees, with a focus on commercially important Pinaceae species.
  • Development of user-friendly access points and ongoing enhancements in data content, annotation, retrieval, and visualization tools.

Conclusions:

  • The Dendrome Project and TreeGenes database provide a vital centralized resource for forest tree genomics.
  • These resources facilitate gene discovery, data exchange, and advanced analysis for the global research community.
  • Continued development focuses on expanding data content and improving analytical and visualization tools.