Complete Microbial Genomes is an extensive collection of data, resources and tools for prokaryotic genomic analysis brought to you by The National Center for Biotechnology Information, or NCBI. Data and tools are organized into three major tables, including Organism info, Complete genomes, and Genomes in progress. The Organism info table provides organism information for all the prokaryotic genomes that are either completely sequenced, have a draft assembly, or are not yet sequenced. Features described include kingdom, genome size, GC content, Gram stain reactivity, shape, motility, salinity and oxygen requirements, habitat, and disease details. The Complete genomes table describes, and links to, a variety of genomic details including GenBank and RefSeq records, as well as sequencing center information, and more. It also features many useful genomic analysis tools, including TaxMap, ProtTable, COG Table, BLAST, CDD search, GenePlot, TaxPlot and gMap, to name a few. The Genomes in progress table includes data for genomes that have whole genome shotgun draft assemblies, as well as no sequence as of yet.

Complete Microbial Genomes is part of the NCBIs Entrez Genome Project. NCBIs interlinked network of databases enables Complete Microbial Genomes to provide an unprecedented amount of links to explore the data you are interested in. You can easily pursue relevant details in Entrez Nucleotide, Entrez Protein and PubMed, as well as taxonomy features in the Taxonomy Browser, and genomic details in Entrez Genome. You can quickly access additional specific projects, such as the Metagenomic Projects, and other related NCBI databases, like Microbial Genomes Resources.

You will learn:

  • to understand, navigate and customize the Complete Microbial Genomes data
  • about the tools available for microbial genome analysis
  • how to access details about the microbial organisms included in this resource
  • to find more information about on-going microbial genome sequencing projects
  • how to locate additional resources for prokaryotic genome analysis


This tutorial is a part of the tutorial group Microbe resources. You might find the other tutorials in the group interesting:

Viral Genomes at NCBI: Viral genome resources including single-stranded or double-stranded RNA or DNA viruses

CMR: Comprehensive Microbial Resource

Integrated Microbial Genomes (IMG): IMG is a powerful community resource for the comparative analysis and annotation of microbial genome data.

Integrated Microbial Genomes with Microbiome samples (IMG/M): IMG/M provides tools for analyzing the functional capability of microbial communities based on their metagenome sequence

VBRC: The Viral Bioinformatics Resource Center

UCSC Archaeal Genome Browser: Provides you with many research and analysis tools that can be used to examine the genomes of more than 50 microbial species from the domain archaea.

GenoCAD Advanced Topics: Computer-Assisted Design software for synthetic biology

GenoCAD: Computer-Assisted Design software for synthetic biology


Genome Databases (prok + viral) : Genomic databases or repositories primarily aimed at prokaryotic or viral organisms. Some may contain eukaryotic data as well.

NCBI : This category includes resources maintained at the National Center for Biotechnology Information (NCBI).


Tip of the Week: Comparing Microbial Databases: A few weeks ago a commenter asked me to compare IMG (Integrated Microbial Genomes) to the UCSC Microbial Genome browser. I've been exploring & thinking since then & am going to give a very brief compa...


Recent BioMed Central research articles citing this resource

van der Velde Joeri K. et al., GAVIN: Gene-Aware Variant INterpretation for medical sequencing. Genome Biology (2017) doi:10.1186/s13059-016-1141-7

Mestres Gonzalvo Carlota et al., Supporting clinical rules engine in the adjustment of medication (SCREAM): protocol of a multicentre, prospective, randomised study Health services research. BMC Geriatrics (2017) doi:10.1186/s12877-017-0426-3

Eid Sameh et al., KinMap: a web-based tool for interactive navigation through human kinome data Imaging, image analysis and data visualization. BMC Bioinformatics (2017) doi:10.1186/s12859-016-1433-7

Patel Y. Ronak et al., ClinGen Pathogenicity Calculator: a configurable system for assessing pathogenicity of genetic variants. Genome Medicine (2017) doi:10.1186/s13073-016-0391-z

Haidar Zahraa et al., Diagnosis implications of the whole genome sequencing in a large Lebanese family with hyaline fibromatosis syndrome Functional genetics. BMC Genetics (2017) doi:10.1186/s12863-017-0471-0