Jacob R. Waldbauer

Assistant Professor
Research Summary
Molecules record the history of coevolution between life and earth environments. Our group develops and applies cutting-edge analytical techniques to explore the relationships between cellular processes and global biogeochemical cycles. A major focus is proteomics, which probes the molecules directly responsible for biochemical activity.
Biogeochemistry, microbiology, organic geochemistry
Biosciences Graduate Program Association
  1. Luxem KE, Kraepiel AML, Zhang L, Waldbauer JR, Zhang X. Carbon substrate re-orders relative growth of a bacterium using Mo-, V-, or Fe-nitrogenase for nitrogen fixation. Environ Microbiol. 2022 Apr; 24(4):2170-2176. View in: PubMed

  2. Gallagher GE, Waldbauer JR. Proteome Expression and Survival Strategies of a Proteorhodopsin-Containing Vibrio Strain under Carbon and Nitrogen Limitation. mSystems. 2022 Apr 26; 7(2):e0126321. View in: PubMed

  3. Wilkes RA, Waldbauer J, Aristilde L. Analogous Metabolic Decoupling in Pseudomonas putida and Comamonas testosteroni Implies Energetic Bypass to Facilitate Gluconeogenic Growth. mBio. 2021 12 21; 12(6):e0325921. View in: PubMed

  4. Luxem KE, Kraepiel AML, Zhang L, Waldbauer JR, Zhang X. Carbon substrate re-orders relative growth of a bacterium using Mo-, V-, or Fe-nitrogenase for nitrogen fixation. Environ Microbiol. 2020 04; 22(4):1397-1408. View in: PubMed

  5. Zimmerman AE, Howard-Varona C, Needham DM, John SG, Worden AZ, Sullivan MB, Waldbauer JR, Coleman ML. Metabolic and biogeochemical consequences of viral infection in aquatic ecosystems. Nat Rev Microbiol. 2020 01; 18(1):21-34. View in: PubMed

  6. Waldbauer JR, Coleman ML, Rizzo AI, Campbell KL, Lotus J, Zhang L. Nitrogen sourcing during viral infection of marine cyanobacteria. Proc Natl Acad Sci U S A. 2019 07 30; 116(31):15590-15595. View in: PubMed

  7. Leavitt WD, Venceslau SS, Waldbauer J, Smith DA, Pereira IAC, Bradley AS. Proteomic and Isotopic Response of Desulfovibrio vulgaris to DsrC Perturbation. Front Microbiol. 2019; 10:658. View in: PubMed

  8. Zimmerman AE, Bachy C, Ma X, Roux S, Jang HB, Sullivan MB, Waldbauer JR, Worden AZ. Closely related viruses of the marine picoeukaryotic alga Ostreococcus lucimarinus exhibit different ecological strategies. Environ Microbiol. 2019 06; 21(6):2148-2170. View in: PubMed

  9. Miller SE, Rizzo AI, Waldbauer JR. Postnovo: Postprocessing Enables Accurate and FDR-Controlled de Novo Peptide Sequencing. J Proteome Res. 2018 11 02; 17(11):3671-3680. View in: PubMed

  10. Ma X, Coleman ML, Waldbauer JR. Distinct molecular signatures in dissolved organic matter produced by viral lysis of marine cyanobacteria. Environ Microbiol. 2018 08; 20(8):3001-3011. View in: PubMed

  11. Waldbauer J, Zhang L, Rizzo A, Muratore D. diDO-IPTL: A Peptide-Labeling Strategy for Precision Quantitative Proteomics. Anal Chem. 2017 11 07; 89(21):11498-11504. View in: PubMed

  12. Schwartz MH, Waldbauer JR, Zhang L, Pan T. Global tRNA misacylation induced by anaerobiosis and antibiotic exposure broadly increases stress resistance in Escherichia coli. Nucleic Acids Res. 2016 Dec 01; 44(21):10292-10303. View in: PubMed

  13. Moran MA, Kujawinski EB, Stubbins A, Fatland R, Aluwihare LI, Buchan A, Crump BC, Dorrestein PC, Dyhrman ST, Hess NJ, Howe B, Longnecker K, Medeiros PM, Niggemann J, Obernosterer I, Repeta DJ, Waldbauer JR. Deciphering ocean carbon in a changing world. Proc Natl Acad Sci U S A. 2016 Mar 22; 113(12):3143-51. View in: PubMed

  14. Waldbauer JR, Rodrigue S, Coleman ML, Chisholm SW. Transcriptome and proteome dynamics of a light-dark synchronized bacterial cell cycle. PLoS One. 2012; 7(8):e43432. View in: PubMed

  15. Waldbauer JR, Newman DK, Summons RE. Microaerobic steroid biosynthesis and the molecular fossil record of Archean life. Proc Natl Acad Sci U S A. 2011 Aug 16; 108(33):13409-14. View in: PubMed

  16. Frias-Lopez J, Thompson A, Waldbauer J, Chisholm SW. Use of stable isotope-labelled cells to identify active grazers of picocyanobacteria in ocean surface waters. Environ Microbiol. 2009 Feb; 11(2):512-25. View in: PubMed

  17. Martinez A, Bradley AS, Waldbauer JR, Summons RE, DeLong EF. Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host. Proc Natl Acad Sci U S A. 2007 Mar 27; 104(13):5590-5. View in: PubMed

  18. Summons RE, Bradley AS, Jahnke LL, Waldbauer JR. Steroids, triterpenoids and molecular oxygen. Philos Trans R Soc Lond B Biol Sci. 2006 Jun 29; 361(1470):951-68. View in: PubMed

  19. Hayes JM, Waldbauer JR. The carbon cycle and associated redox processes through time. Philos Trans R Soc Lond B Biol Sci. 2006 Jun 29; 361(1470):931-50. View in: PubMed

  20. Chamberlain CP, Waldbauer JR, Fox-Dobbs K, Newsome SD, Koch PL, Smith DR, Church ME, Chamberlain SD, Sorenson KJ, Risebrough R. Pleistocene to recent dietary shifts in California condors. Proc Natl Acad Sci U S A. 2005 Nov 15; 102(46):16707-11. View in: PubMed

  21. Rubenstein DR, Chamberlain CP, Holmes RT, Ayres MP, Waldbauer JR, Graves GR, Tuross NC. Linking breeding and wintering ranges of a migratory songbird using stable isotopes. Science. 2002 Feb 08; 295(5557):1062-5. View in: PubMed