Genomicus-metazoa

Genomicus-metazoa provides comparative genomic visualization and analysis of metazoan and other eukaryote genomes to investigate gene organization, synteny, ancestral genome reconstruction, and conserved regulatory elements.

Key Features:

• Multi-dimensional genomic navigation: Linear chromosome-axis, transversal cross-species, and chronological evolutionary-time views enable navigation of genomic loci across genomes and phylogeny.
• Multi-phyla comparative coverage: Comparative analyses span vertebrates, flowering plants, fungi, and non-vertebrate metazoans.
• Ancestral genome reconstructions: Access to ancestral gene content and gene order reconstructions for vertebrates and flowering plants.
• Synteny and karyotype visualization: Multi-KaryotypeView, PhylDiagView, KaryoView, and MatrixView represent karyotype structures and synteny blocks across genomes.
• Phylogenomic analysis: Comparative analysis across more than 150 eukaryote genomes reveals differential gene loss and gain, segmental and whole-genome duplications, and locus evolution via homology relationships.
• Regulatory element visualization: Representation of conserved non-coding elements together with their putative gene targets to infer regulatory interactions.
• Pairwise and multiple-genome comparison modes: PhyloView and AlignView provide pairwise and multiple genome comparison representations.
• Unlimited genome representation: Capability to represent and compare an unlimited number of genomes within a broad phylogenetic context.

Scientific Applications:

• Evolutionary genomics: Reconstruction of genome rearrangements, duplications, and gene gain/loss events across metazoans and other eukaryotes.
• Synteny and karyotype analysis: Comparative analysis of synteny blocks and karyotype structure to study chromosome evolution and structural variation.
• Ancestral genome inference: Use of ancestral gene content and order reconstructions to infer historical genome states and evolutionary transitions.
• Regulatory evolution: Identification and comparison of conserved non-coding elements and their putative target genes to study evolution of gene regulation.

Methodology:

Integration of extensive genomic datasets from extant and ancestral species; ancestral gene content and gene order reconstructions for vertebrates and flowering plants; computational prediction and representation of conserved non-coding elements and regulatory interactions; and advanced visualization techniques including Multi-KaryotypeView, PhylDiagView, KaryoView, MatrixView, PhyloView, and AlignView.