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Davis Lab

Publications

1. Alvarez-Manzo HS, Davidson RK, Van Cauwelaert de Wyels J, Cotten KL, Nguyen B, Zhu Z, Anthony J, van Opijnen T, Davis KM. Yersinia pseudotuberculosis doxycycline tolerance strategies include modulating expression of genes linked to cell permeability and tRNA modification. PLoS Pathogens, under revision. 
*submiitted as bioRxiv pre-print, doi: https://doi.org/10.1101/2021.11.01.466809

2. Liu B, Davidson RK, Davis KM. NO-stressed Y. pseudotuberculosis have decreased cell division rates in the mouse spleen. Infection and Immunity, under revision.
*submitted as bioRxiv pre-print, doi: https://doi.org/10.1101/2021.08.04.455180

3. Gordon O, Lee D, Liu B, Langevin B, Ordonez AA, Dikeman DA, Shafiq B, Thompson JM, Sponseller PD, Flavahan K, LodgeMA, RoweSP, DannalsRF, Ruiz-BedoyaCA, ReadTD, PeloquinCA, ArcherNK, MillerLS, Davis KM, GobburuJVS, Jain SK. Dynamic PET-facilitated Modeling and High-dose Rifampin Regimens for Staphylococcus aureus Orthopedic Implant Associated Infections. 2021. Sci Transl Med, 13(622):eabl6851. doi: 10.1126/scitranslmed.abl6851. PMID: 34851697 

4. Patel P, O’Hara BJ, Aunins E, Davis KMModifying TIMER to generate a slow-folding DsRed derivative for optimal use in quickly-dividing bacteria. 2021. PLoS Pathog, 17(7):e1009284. PMID: 34214139 
*submitted as bioRxiv pre-print, doi: https://doi.org/10.1101/2021.01.12.426338

5. Davidson RK, Davis KM.  Yersinia pseudotuberculosis: cultivation, storage, and methods for introducing DNA. 2020. Curr Protoc Microbiol, 59(1):e122. PMID: 33079471

6. Raneses JR, Ellison AL, Liu, B, Davis KM. Subpopulations of stressed Y. pseudotuberculosis preferentially survive doxycycline treatment within host tissues. 2020. mBio, 11(4):e00901-20.PMID: 32753491 **also submitted as bioRxiv pre-print, doi: https://doi.org/10.1101/2020.04.13.039222

7. Clark SA, Thibault D, Shull LM, Davis KM, Aunins E, van Opijnen T, Isberg RR. Topologically correct synthetic reconstruction of pathogen social behavior found during Yersinia growth in deep tissue sites. 2020. eLife, 9:e58106. PMID: 32543373
**also submitted as bioRxiv pre-print, https://doi.org/10.1101/2020.04.27.065144

8. Davis KM. For the greater (bacterial) good: heterogeneous expression of energetically costly virulence factors. Review. 2020. Infect Immun, 88(7):e00911-19. PMID: 32041785

9. Davis KM, Krupp J, Clark S, Isberg RR. Iron-sulfur cluster repair contributes to Yersinia pseudotuberculosis survival within deep tissues. 2019. Infect Immun, 87(10):e00533-19. PMID: 31331956

10. Davis KM, Isberg RR. One for all, but not all for one: social behavior during bacterial diseases. Review. 2019. Trends Microbiol, 27(1):64-74. PMID: 30243514

11. Davis KM. All Yersinia are not created equal: phenotypic adaptation to distinct niches within mammalian tissues. Review. 2018. Front Cell Infect Microbiol, 8:261. PMID 30128305

12. Davis KM, Isberg RR. Defining heterogeneity within bacterial populations via single cell approaches. Review. 2016. Bioessays, 38(8):782-90. PMID: 27273675 ncbi.nlm.nih.gov/pubmed/27273675

13. Chen Y, Lin Y, Davis KM, Wang Q, Rnjak-Kovacina J, Li C, Isberg RR, Kumamoto CA, Mecsas J, Kaplan DL. Robust bioengineered 3D functional human intestinal epithelium. 2015. Sci Rep, 5: 1370 PMID: 26374193 ncbi.nlm.nih.gov/pubmed/26374193

14. Asrat S#, Davis KM#, Isberg RR. Modulation of the host innate immune and inflammatory response by translocated bacterial proteins. Review. 2015. Cell Microbiol, 17(6): 785-95. (# equal contribution) PMID: 25850689 ncbi.nlm.nih.gov/pubmed/25850689

15. Davis KM, Mohammadi S, Isberg RR. Community behavior and spatial regulation within a bacterial microcolony in deep tissue sites serves to protect again host attack. 2015. Cell Host Microbe, 17(1): 21-31. PMID: 25500192 ncbi.nlm.nih.gov/pubmed/25500192

16. Davis KM, Isberg RR. Plague’s partners in crime. Preview. 2014. Immunity, 41(3): 347-349. PMID: 25238090 ncbi.nlm.nih.gov/pubmed/25238090

17. Davis KM, Nakamura S, Weiser JN. Nod2-sensing of lysozyme-digested peptidoglycan promotes macrophage recruitment and clearance of S. pneumoniae colonization in mice. 2011. J Clin Invest, 121(9): 3666-3676. PMID: 21841315 ncbi.nlm.nih.gov/pubmed/21841315

18. Nakamura S, Davis KM, Weiser JN. Synergistic stimulation of type I interferons during influenza virus coinfection promotes Streptococcus pneumoniae colonization in mice. 2011. J Clin Invest, 121(9): 3657-3665. PMID: 21841308 ncbi.nlm.nih.gov/pubmed/21841308

19. Davis KM, Weiser JN. Modifications to the peptidoglycan backbone help bacteria to establish infection. Review. 2011. Infect Immun, 79(2): 562-570. PMID: 21041496 ncbi.nlm.nih.gov/pubmed/21041496

20. Clarke TB, Davis KM, Lysenko ES, Zhou AY, Yu Y, Weiser JN. Recognition of peptidoglycan from the microbiota by Nod1 enhances systemic innate immunity. 2010. Nat Med, 16(2): 228-231. PMID: 20081863 ncbi.nlm.nih.gov/pubmed/20081863

21. Davis KM, Akinbi HT, Standish AJ, Weiser JN. Resistance to mucosal lysozyme compensates for the fitness deficit of peptidoglycan modifications by Streptococcus pneumoniae. 2008. PLoS Pathog,4(12): e1000241. PMID: 19079576 ncbi.nlm.nih.gov/pubmed/19079576

22. Dunlap PV, Davis KM, Tomiyama S, Fujino M, Fukui A. Developmental and microbiological analysis of the inception of bioluminescent symbiosis in the marine fish Nuchequula nuchalis (Perciformes: Leiognathidae). 2008. Appl Environ Microbiol, 74(24): 7471-7481. PMID: 18978090 ncbi.nlm.nih.gov/pubmed/18978090

23. Ji G, Zheng J, Shen Y, Wu X, Jiang R, Lin Y, Loke JC, Davis KM, Reese GJ, Li QQ. Predictive modeling of plant messenger RNA polyadenylation sites. 2007. BMC Bioinformatics, 8(1): 43. PMID: 17286857 ncbi.nlm.nih.gov/pubmed/17286857