EvoPrinter

EvoPrinter enables comparative genomic analysis of Flavivirus and Filovirus sequences to identify conserved sequence elements, single nucleotide polymorphisms (SNPs), recombinant strains, and host adenosine-to-inosine (A-to-I) hyper-editing events.

Key Features:

• Advanced alignment algorithms: Performs rapid alignments of full genomes and partial sequences using advanced alignment algorithms.
• Superimposed one-on-one alignments: Allows superimposition of an unlimited number of one-on-one sequence alignments to reveal conserved elements and evolutionary changes across strains.
• Color-coded alignment readouts: Produces color-coded visualizations that overlay hundreds of individual alignments to display unique and shared identity SNPs.
• Extensive genome databases: Provides comparative access to a library containing 1,094 Flavivirus and 460 Filovirus genomes for selection as database genomes or subsets.
• Lineage identity SNP detection: Identifies lineage identity SNPs through superimposed alignment data to assess sublineage complexity within outbreaks.
• Whole-genome SNP profile screening: Uses whole-genome SNP profile screens to uncover novel recombinant strains, including Dengue2 and Zika, and to identify parental lineages.
• Differential SNP profiling for A-to-I editing: Detects host cell adenosine-to-inosine (A-to-I) hyper-editing events in Ebola and Marburg virus genomes via differential SNP profiling.
• Ultra-conserved and variable region identification: Highlights ultra-conserved regulatory sequences, invariant amino acid codons, and evolutionarily variable protein-encoding domains within single genomes using hundreds of superimposed alignments.

Scientific Applications:

• Evolutionary analysis of Flaviviruses and Filoviruses: Comparative analyses of conservation and divergence across Flavivirus and Filovirus genomes to study viral evolution.
• Epidemiological tracking of Zika sublineages: Identification and tracking of unique Zika virus sublineages circulating across global regions.
• Recombinant strain discovery: Detection and characterization of recombinant viral strains and inference of parental lineages, exemplified by Dengue2 and Zika findings.
• Host-virus interaction studies: Investigation of host-induced adenosine-to-inosine (A-to-I) editing in Ebola and Marburg genomes to assess viral adaptation mechanisms.
• Assessment of genomic conservation and protein variability: Mapping ultra-conserved regulatory elements, invariant codons, and variable protein domains to inform functional and evolutionary studies of hemorrhagic fever viruses.

Methodology:

Performs advanced sequence alignments including superimposed one-on-one alignments and whole-genome and differential SNP profile screening with color-coded overlay visualizations.