Welcome to MSRdb
The Mycobacterial Systems Resource (MSR) is a comprehensive, integrated biological and bioinformatic resource for the research community. The MSR uses M. smegmatis as its model organism, while focusing exclusively on genes that are highly conserved across the mycobacterial genus. Thus, functional insights from the MSR will apply to all mycobacterial species.
There are 1,153 genes that share over 50% amino acid identity across M. tuberculosis, M. leprae, M. avium, M. abscessus, and M. smegmatis and these genes were targeted for analysis in this resource. We anticipate that the integration of their functional analyses in M. smegmatis will facilitate studies of these core proteins in all Mycobacterium species, including the less experimentally tractable pathogens M. abscessus, M. avium, M. kansasii, M. leprae, M. marinum, M. tuberculosis, and M. ulcerans. The constituent arrayed libraries are suitable for large-scale screens, as well as for individual clone retrieval.
The biological resource includes:
- (i) an expression-plasmid library of 1,118 genes fused to a green fluorescent protein to assess protein localization.
- (ii) a library of 588 precise deletions of non-essential genes.
- (iii) a set of 843 CRISPRi-plasmids specifically targeted to essential core genes and genes for which a precise deletion was not obtained.
MSRdb.org provides details on individual genes in the collection, plasmid constructs for expression of CRISPRi clones and dendra-gene fusions, and non-essential genes targeted for replacement. It also provides high-quality fluorescent images of proteins fused to the green fluorescent protein Dendra, and detailed summaries of protein localization.
All the plasmids and strains are described in Judd et al (2020).
MSR Data Sets
Data sets are available for download in a variety of formats. Information about each data set can be found on the Downloads page.On this website, you can also browse all genes, view protein localization data and images, see lists of biofilm mutant genes and available dendra plasmids, or check sgRNA sequences for CRISPRi plasmids.
Principal Investigators and Lab Contributors
Wadsworth Center
- Keith Derbyshire (Principal Investigator)
- Todd Gray (Principal Investigator)
- Joe Wade (Principal Investigator)
- Jill Canestrari
- Ryan Clark
- Erica Lasek-Nesselquist
- Ashna Joseph
- Julius Judd
- Pascal LaPierre
- Mushtaq Mir
- Michael Palumbo
- Carol Smith
- Melissa Stone
- Ashutosh Upadhyay
- Samantha Wirth
University of Pittsburgh
- Graham Hatfull (Principal Investigator)
- Rebekah Dedrick
- Dan Russell
- Christopher Meier
Harvard University
- Sarah Fortune (Principal Investigator) Eric Rubin (Principal Investigator)
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- Alexander Dills
- Emmy Dove
- Jemilla Kester
- Jeremy Rock
- Ian Wolf
- Junhao Zhu
Publications
Shell, S. S., Wang, J., Lapierre, P., Mir, M., Chase, M. R., DeJesus, M. A., Ioerger, T. R., Ahmad, R., Fortune, S. M., Derbyshire, K., Wade, J. T. and Gray, T. A. (2015). Leaderless transcripts and small proteins are common features of the mycobacterial translational landscape. PLoS Genet. 11, e1005641. PMCID: PMC4633059.
Useful information about functional gene annotations: http://www.wadsworth.org/research/scientific-resources/interactive-genomics
Citing MSRdb
Pending publication