title: The Mtb proteome library: a resource of assays to quantify the complete proteome of Mycobacterium tuberculosis.
abstract: Research advancing our understanding of Mycobacterium tuberculosis (Mtb) biology and complex host-Mtb interactions requires consistent and precise quantitative measurements of Mtb proteins. We describe the generation and validation of a compendium of assays to quantify 97% of the 4,012 annotated Mtb proteins by the targeted mass spectrometric method selected reaction monitoring (SRM). Furthermore, we estimate the absolute abundance for 55% of all Mtb proteins, revealing a dynamic range within the Mtb proteome of over four orders of magnitude, and identify previously unannotated proteins. As an example of the assay library utility, we monitored the entire Mtb dormancy survival regulon (DosR), which is linked to anaerobic survival and Mtb persistence, and show its dynamic protein-level regulation during hypoxia. In conclusion, we present a publicly available research resource that supports the sensitive, precise, and reproducible quantification of virtually any Mtb protein by a robust and widely accessible mass spectrometric method.
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland; Systems Biology Graduate School, Zurich, CH-8057, Switzerland.
authors.forename: Olga T
authors.initials: OT
authors.lastname: Schubert
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland; Molecular Life Sciences Graduate School, Zurich, CH-8093, Switzerland.
authors.forename: Jeppe
authors.initials: J
authors.lastname: Mouritsen
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland.
authors.forename: Christina
authors.initials: C
authors.lastname: Ludwig
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland; Systems Biology Graduate School, Zurich, CH-8057, Switzerland.
authors.forename: Hannes L
authors.initials: HL
authors.lastname: Röst
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland; Systems Biology Graduate School, Zurich, CH-8057, Switzerland.
authors.forename: George
authors.initials: G
authors.lastname: Rosenberger
authors.affiliation: Department of Biochemistry, Cell and Molecular Biology, University of Ghana, Accra, Ghana.
authors.forename: Patrick K
authors.initials: PK
authors.lastname: Arthur
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland.
authors.forename: Manfred
authors.initials: M
authors.lastname: Claassen
authors.affiliation: Institute for Systems Biology, Seattle, WA 98109, USA.
authors.forename: David S
authors.initials: DS
authors.lastname: Campbell
authors.affiliation: Institute for Systems Biology, Seattle, WA 98109, USA.
authors.forename: Zhi
authors.initials: Z
authors.lastname: Sun
authors.affiliation: Institute for Systems Biology, Seattle, WA 98109, USA.
authors.forename: Terry
authors.initials: T
authors.lastname: Farrah
authors.affiliation: Department of Immunology, Max Planck Institute for Infection Biology, Berlin D-10117, Germany.
authors.forename: Martin
authors.initials: M
authors.lastname: Gengenbacher
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland.
authors.forename: Alessio
authors.initials: A
authors.lastname: Maiolica
authors.affiliation: Department of Immunology, Max Planck Institute for Infection Biology, Berlin D-10117, Germany.
authors.forename: Stefan H E
authors.initials: SHE
authors.lastname: Kaufmann
authors.affiliation: Institute for Systems Biology, Seattle, WA 98109, USA.
authors.forename: Robert L
authors.initials: RL
authors.lastname: Moritz
authors.affiliation: Institute of Molecular Systems Biology, ETH Zurich, Zurich CH-8093, Switzerland; Faculty of Science, University of Zurich, Zurich CH-8057, Switzerland. Electronic address: aebersold@imsb.biol.ethz.ch.
authors.forename: Ruedi
authors.initials: R
authors.lastname: Aebersold
mesh_terms: D001426:Bacterial Proteins / Q000032:analysis*; D009169:Mycobacterium tuberculosis / Q000737:chemistry*; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods*
chemical_list: D001426:Bacterial Proteins; D020543:Proteome