INDIGO

INDIGO integrates and functionally annotates microbial genomes to support comparative analysis of genomes produced by next-generation sequencing and the study of extremophile adaptations.

Key Features:

• Data Integration: INDIGO integrates annotations from multiple resources, enabling complex queries across genomic sequences, protein domains, Gene Ontology, and pathways.
• Exploration and Analysis: Supports exploration and analysis of newly sequenced microbial genomes to investigate lifestyle and adaptations in extreme environments.
• Focus on Red Sea Extremophiles: Populated with genomes from extremophiles isolated from deep-sea anoxic brine lakes of the Red Sea, including Salinisphaera shabanensis, Haloplasma contractile, and Halorhabdus tiamatea.
• Automatic Annotation Pipeline: Incorporates the Automatic Annotation of Microbial Genomes (AAMG) pipeline to generate genome functional annotations.
• Regular Updates: The database is updated regularly with new genomes to expand genomic coverage.

Scientific Applications:

• Functional annotation and genome analysis: Enables functional annotation and integrative analysis of microbial genomes derived from next-generation sequencing data.
• Extremophile adaptation studies: Supports investigation of physiological and evolutionary adaptations of organisms from deep-sea anoxic brine lakes of the Red Sea, including Salinisphaera shabanensis, Haloplasma contractile, and Halorhabdus tiamatea.
• Comparative genomics and pathway/GO analyses: Facilitates comparative genomics, protein domain analysis, Gene Ontology interpretation, and pathway reconstruction for evolutionary and environmental studies.

Methodology:

INDIGO integrates annotations from multiple resources and employs the Automatic Annotation of Microbial Genomes (AAMG) pipeline to generate functional annotations and support complex multi-level queries.