IMG/M statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

IMG/M specifications

Information


Unique identifier OMICS_14158
Name IMG/M
Alternative names Integrated Microbial Genomes with Microbiome Samples, IMG, Integrated Microbial Genomes
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Allowed
Version 5.0
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainers


  • person_outline Nikos Kyrpides
  • person_outline I-Min Chen

Additional information


https://img.jgi.doe.gov/cgi-bin/w/main.cgi?section=Help&page=about_index

Publications for Integrated Microbial Genomes with Microbiome Samples

IMG/M citations

 (7)
library_books

Herbivorous turtle ants obtain essential nutrients from a conserved nitrogen recycling gut microbiome

2018
Nat Commun
PMCID: 5840417
PMID: 29511180
DOI: 10.1038/s41467-018-03357-y

[…] adapter sequences after de-multiplexing. Assembly of reads from individual libraries then proceeded using a variety of k-values with the IDBA-UD metagenomic assembler. Scaffolds were uploaded to the Integrated Microbial Genomes with Microbiome Samples Expert Review (IMG/M-ER) website. Classification in IMG/M-ER proceeded based on USEARCH similarity against all public reference genomes in IMG and […]

library_books

Metagenomic mining pectinolytic microbes and enzymes from an apple pomace adapted compost microbial community

2017
Biotechnol Biofuels
PMCID: 5568718
PMID: 28852421
DOI: 10.1186/s13068-017-0885-y

[…] l classification of predicted gene was performed by BLASTP against eggNOG database and by KOBAS 2.0 (a Orthology Based Annotation System) [] against KEGG database. The “function comparison” module of integrated microbial genomes with microbiome samples (IMG/M) [] were applied to compare the COG category of APACMC against another four well-known lignocelluloses-degrading microbiomes available on IM […]

library_books

Metagenomic analysis of microbial consortia enriched from compost: new insights into the role of Actinobacteria in lignocellulose decomposition

2016
Biotechnol Biofuels
PMCID: 4731972
PMID: 26834834
DOI: 10.1186/s13068-016-0440-2

[…] non-supervised orthologous groups (eggNOG) database and the Kyoto Encyclopedia of Genes and the Genomes (KEGG) database using BLASTP with E-value <1 × 10−5. We used the “function comparison” tool of integrated microbial genomes with microbiome samples (IMG/M, http://img.jgi.doe.gov/cgi-bin/m/main.cgi, a data-management and analysis platform for genomic and metagenomic data based on IMG []) to com […]

call_split

The distribution, diversity, and importance of 16S rRNA gene introns in the order Thermoproteales

2015
Biol Direct
PMCID: 4496867
PMID: 26156036
DOI: 10.1186/s13062-015-0065-6
call_split See protocol

[…] Intron sequences were identified by querying (blastn/blastx) the NCBI nr and the DOE-Joint Genome Institute (DOE-JGI) Integrated Microbial Genomes (with Microbiome Samples (IMG/M) databases) with previously identified 16S gene introns (Additional file : Table S1). Approximately 100 16S rRNA genes were identified that […]

call_split

Application of Universal Stress Proteins in Probing the Dynamics of Potent Degraders in Complex Terephthalate Metagenome

2013
Biomed Res Int
PMCID: 3782759
PMID: 24151583
DOI: 10.1155/2013/196409
call_split See protocol

[…] The universal stress protein reads were extracted using Pfam annotation. The finished metagenomes were retrieved from the Integrated Microbial Genomes with Microbiome Samples (http://img.jgi.doe.gov/cgi-bin/m/main.cgi) using the Pfam domain accession Pfam00582. We obtained universal stress protein sequence reads from the […]

library_books

Proteogenomic Analysis of a Thermophilic Bacterial Consortium Adapted to Deconstruct Switchgrass

2013
PLoS One
PMCID: 3716776
PMID: 23894306
DOI: 10.1371/journal.pone.0068465

[…] ger contigs, the raw 454 data plus shredded Illumina contigs were assembled by Newbler again for the final assembly.Assembled metagenomic sequences were uploaded into the DOE Joint Genome Institute's Integrated Microbial Genomes with Microbiome Samples – Expert Review (IMG/M-ER) system and annotated according to the Standard Operating Procedure for the Annotations of Genomes and Metagenomes submi […]

Citations

Looking to check out a full list of citations?

IMG/M institution(s)
Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA; Resphera Biosciences, Baltimore, MD, USA
IMG/M funding source(s)
Supported by the Office of Science, Office of Biological and Environmental Research, Life Sciences Division, U.S. Department of Energy [DE-AC02-05CH11231]; and the National Energy Research Scientific Computing Center, which is funded by the Office of Science of the U.S. Department of Energy.

IMG/M reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review IMG/M