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Evolutionary Relationships through Genome Comparisons

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...

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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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Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomics Data.

Dan Bolser¹, Daniel M Staines², Emily Pritchard³

¹European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. dbolser@ebi.ac.uk.

Methods in Molecular Biology (Clifton, N.J.)

|November 1, 2015

Summary

Ensembl Plants provides comprehensive genome-scale data for 33 plant species, including gene models, variation data, and evolutionary history. This resource facilitates plant genomics research through integrated access and comparative analyses.

Keywords:

Cereals Comparative genomic s Crops Databases Functional genomic s Genetic variation Genome browser Genomics Phenotype Transcriptomics

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Area of Science:

Plant genomics
Bioinformatics
Comparative genomics

Background:

The Ensembl Plants database serves as a crucial resource for plant genomic information.
It integrates genome sequences, gene models, and functional annotations for numerous plant species.

Purpose of the Study:

To present an updated overview of the Ensembl Plants resource.
To highlight new data types and features available to researchers.
To emphasize the resource's utility in comparative genomics and evolutionary studies.

Main Methods:

Data integration from sequenced plant genomes.
Comparative analyses of whole genomes and protein sequences.
Development of genome browsers and programmatic access tools.

Main Results:

Ensembl Plants currently supports 33 sequenced plant species.
Provides detailed information on gene models, functional annotation, and polymorphic loci.
Includes comparative genomics data, such as genome alignments and gene trees.

Conclusions:

Ensembl Plants is a continuously updated, integrative resource for plant genomics.
It supports diverse research needs, from basic annotation to evolutionary analysis.
Collaborative efforts with Gramene and transPLANT enhance its scope and utility.