Navigation Links
DOE JGI releases a new version of its metagenome data management and analysis system

WALNUT CREEK, CA--Targeting its ever-expanding user community, the U.S. Department of Energy Joint Genome Institute (DOE JGI) has released an upgraded version of the IMG/M metagenome data management and analysis system, accessible to the public at

IMG/M provides tools for analyzing the functional capability of microbial communities based on their metagenome DNA sequence in the context of reference isolate genomes. The new version of IMG/M includes five additional metagenome datasets generated from microbial community samples that were the subject of recently published studies. These include the metagenomic and functional analysis of termite hindgut microbiota (Nature 450, 560-565, 22 November 2007) and the single cell genetic analysis of TM7, a rare and uncultivated microbe from the human mouth (PNAS, July 17, 2007, vol. 104, no. 29, 11889-11894).

"IMG/M is a fantastic tool that is incredibly helpful in understanding our data," said Stephen Quake, Co-Chair, Department of Bioengineering at Stanford University, Investigator, Howard Hughes Medical Institute, and senior author on the PNAS study. "We used IMG/M in numerous ways, both to analyze our data and to understand general properties of other relevant bacterial genomes. I look forward to analyzing our new datasets with IMG/M."

IMG/M will be demonstrated at a workshop on March 26 as part of the DOE JGI Third Annual User Meeting. IMG/M contains all isolate genomes in version 2.4 of DOE JGI's Integrated Microbial Genomes (IMG) system, which represents an increase of 1,339 reference genomes from the previous version of IMG/M. Now, IMG/M contains 2,953 isolate genomes consisting of 819 bacterial, 50 archaeal, 40 eukaryotic genomes, and 2,044 viruses.

IMG/M provides new tools for analyzing metagenome datasets in the context of reference isolate genomes, such as the Reference Genome Context Viewer and Protein Recruitment Plot that allow the examination of metagenomes in the context of individual reference isolate genomes. New Abundance Comparison and Functional Category Comparison tools enable pairwise function analysis (COG, Pfam, Enzyme, TIGRfam) and functional category (e.g., COG category) abundance comparisons, respectively, between a metagenome dataset and one or several reference metagenomes or genomes, and test whether the differences in abundance are statistically significant.

IMG/M has been developed jointly by the DOE JGI's Genome Biology Program (GBP) and Lawrence Berkeley National Laboratory (LBNL) Biological Data Management and Technology Center (BDMTC). The large-scale pairwise gene similarity computations for all the genomes included in IMG/M have been carried out using ScalaBLAST by the Computational Biology and Bioinformatics Group of the Computational Sciences and Mathematics Division at Pacific Northwest National Laboratory, using the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) Molecular Sciences Computing Facility supercomputer.


Contact: David Gilbert
DOE/Joint Genome Institute

Related biology news :

1. Toxic releases down from North American industry leaders, increasing from other facilities
2. University of Minnesota releases first ever comprehensive report of the health of college students
3. WHRC releases 4 key reports
4. DOE JGI releases soybean genome assembly to enable worldwide bioenergy research efforts
5. Central targets may hinder wider waste management objectives
6. Upgraded IMG 2.3 Data Management System released by DOE JGI to eager user community
7. Fujitsu and HT Systems Partner to Provide Biometric Patient Identity Management
8. Fujitsu and HT Systems Partner to Provide Biometric Patient Identity Management
9. Parus Interactive Awarded Patent for Speech-Activated Remote System Management
10. Mosaic Intelligent Video Management System: Video Surveillance Just Got Smarter
11. Secure Services Corp. Achieves Milestone in United States Identity Protection with the Launch of the SSC SHAPE Card Management Solution
Post Your Comments:
(Date:6/16/2016)... , June 16, 2016 ... size is expected to reach USD 1.83 billion ... Grand View Research, Inc. Technological proliferation and increasing ... applications are expected to drive the market growth. ... , The development of advanced multimodal ...
(Date:6/9/2016)... June 9, 2016 Paris ... Teleste,s video security solution to ensure the safety of people ... during the major tournament Teleste, an international ... and services, announced today that its video security solution will ... to back up public safety across the country. The system ...
(Date:6/2/2016)... 2016 The Department of Transport Management ... 44 million US Dollar project, for the , ... Personalization, Enrolment, and IT Infrastructure , to ... and implementation of Identity Management Solutions. Numerous renowned international vendors ... Decatur was selected for the most compliant and ...
Breaking Biology News(10 mins):
(Date:6/23/2016)... June 23, 2016   Boston Biomedical , ... compounds designed to target cancer stemness pathways, announced ... granted Orphan Drug Designation from the U.S. Food ... gastric cancer, including gastroesophageal junction (GEJ) cancer. Napabucasin ... to inhibit cancer stemness pathways by targeting STAT3, ...
(Date:6/23/2016)... , June 23, 2016 Houston Methodist ... the Cy-Fair Sports Association to serve as their ... agreement, Houston Methodist Willowbrook will provide sponsorship support, ... connectivity with association coaches, volunteers, athletes and families. ... the Cy-Fair Sports Association and to bring Houston ...
(Date:6/23/2016)... NEW YORK , June, 23, 2016  The ... students to envision new ways to harness living systems ... of Modern Art (MoMA) in New York ... more than 130 participating students, showcased projects at MoMA,s ... included Paola Antonelli , MoMA,s senior curator of ...
(Date:6/23/2016)... , ... June 23, 2016 , ... STACS DNA Inc., ... Leader at the Arkansas State Crime Laboratory, has joined STACS DNA as a Field ... DNA team,” said Jocelyn Tremblay, President and COO of STACS DNA. “In further expanding ...
Breaking Biology Technology: