Over the past three decades, research supported by this grant has had a major impact on our understanding of the how Sinorhizobium meliloti invades nodules and establishes the chronic intracellular infection that underlies the symbiosis with its legume host. Our work has also identified common bacterial functions that are important for both symbiotic and pathogenic bacteria to interact with their respective eukaryotic hosts, revealed the missing enzyme in vitamin B12 biosynthesis, and discovered a previously unrecognized, extremely highly conserved RNase. The proposed research addresses critical problems concerning how host antimicrobial peptides modulate S. meliloti's cell cycle and physiology during symbiosis, how the master regulator CtrA acts to control S. meliloti cell cycle progression and terminal differentiation during symbiosis, and how the RNase YbeY exerts its multiple biological roles. Plant-encoded NCR (Nodule Cysteine Rich) antimicrobial peptides play key roles in the striking process in which the bacteria undergo rounds of endoreduplication and terminally differentiate into bacteroids. We will extend our recent work that has offered new molecular insights into how these peptides exert their effects by identifying the biological activities of representative symbiotic NCR and glycine-rich host peptides, investigating the roles of ExoS-ChvI and FeuP-FeuQ signaling pathways in S. meliloti's response to NCR peptides and survival within host plant cells, developing a DNA-based strategy for making nodule NCR and glycine-rich peptides, and continuing to investigate how BacA and other S. meliloti functions provide resistance to the antimicrobial activity of NCR peptides. We have recently gained major insights into how S. meliloti, which has a tripartite genome, controls its cell cycle in the free-living state. A comparison with the well-studied Caulobacter crescentus cell cycle has not only revealed conserved regulatory features common to other ?-proteobacteria, but also many intriguing differences. We will gain insights into how regulation of the S. meliloti cell cycle has been adapted for symbiosis by elucidating the mechanism by which NCR247 alters cell cycle regulation and blocks cell division, defining the direct transcriptional targets of S. meliloti cel cycle regulator CtrA, and analyzing the role of CtrA in regulating physiological processes relevant to symbiosis. Our characterization of a symbiotically defective S. meliloti mutant led us to discover a previously unidentified RNase, YbeY, which is present in almost all bacteria and plays crucial roles in rRNA processing, 70S ribosome quality control, and small RNA regulation. We will follow up on our recent results by assessing the role of YbeY in B. abortus pathogenesis, completing our investigation of the role of YbeY in the maturation of the 3'terminus of 16S rRNA, gaining additional insights into the mechanism of 70S ribosome quality control mediated by YbeY and RNase R, identifying YbeY's cellular RNA targets, and identifying YbeY inhibitors that could be lead compounds for a potential new class of antibiotics.

Public Health Relevance

The proposed research will offer insights into fundamental processes that enable bacteria to establish chronic intracellular infections by controlling the manner in which they replicate and the patterns of genes they express. It will also offer new insights into how host factors can either kill bacteria or cause major physiological changes. Finally the research will offer insights into ribosomal RNA processing and ribosome quality control and could lead to the development of a new class of antibiotics.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
2R01GM031030-33
Application #
8757341
Study Section
Prokaryotic Cell and Molecular Biology Study Section (PCMB)
Program Officer
Sledjeski, Darren D
Project Start
1982-07-01
Project End
2018-07-31
Budget Start
2014-08-01
Budget End
2015-07-31
Support Year
33
Fiscal Year
2014
Total Cost
$421,203
Indirect Cost
$151,201
Name
Massachusetts Institute of Technology
Department
Biology
Type
Schools of Arts and Sciences
DUNS #
001425594
City
Cambridge
State
MA
Country
United States
Zip Code
02139
Vercruysse, Maarten; Köhrer, Caroline; Davies, Bryan W et al. (2014) The highly conserved bacterial RNase YbeY is essential in Vibrio cholerae, playing a critical role in virulence, stress regulation, and RNA processing. PLoS Pathog 10:e1004175
Arnold, Markus F F; Caro-Hernandez, Paola; Tan, Karen et al. (2014) Enteric YaiW is a surface-exposed outer membrane lipoprotein that affects sensitivity to an antimicrobial peptide. J Bacteriol 196:436-44
Pandey, Shree P; Winkler, Jonathan A; Li, Hu et al. (2014) Central role for RNase YbeY in Hfq-dependent and Hfq-independent small-RNA regulation in bacteria. BMC Genomics 15:121
Pini, Francesco; Frage, Benjamin; Ferri, Lorenzo et al. (2013) The DivJ, CbrA and PleC system controls DivK phosphorylation and symbiosis in Sinorhizobium meliloti. Mol Microbiol 90:54-71
Sadowski, Craig S; Wilson, Daniel; Schallies, Karla B et al. (2013) The Sinorhizobium meliloti sensor histidine kinase CbrA contributes to free-living cell cycle regulation. Microbiology 159:1552-63
Jacob, Asha Ivy; Kohrer, Caroline; Davies, Bryan William et al. (2013) Conserved bacterial RNase YbeY plays key roles in 70S ribosome quality control and 16S rRNA maturation. Mol Cell 49:427-38
Yu, Ta-Yi; Mok, Kenny C; Kennedy, Kristopher J et al. (2012) Active site residues critical for flavin binding and 5,6-dimethylbenzimidazole biosynthesis in the flavin destructase enzyme BluB. Protein Sci 21:839-49
Modi, Sheetal R; Camacho, Diogo M; Kohanski, Michael A et al. (2011) Functional characterization of bacterial sRNAs using a network biology approach. Proc Natl Acad Sci U S A 108:15522-7
Barra-Bily, Lise; Fontenelle, Catherine; Jan, Gwenael et al. (2010) Proteomic alterations explain phenotypic changes in Sinorhizobium meliloti lacking the RNA chaperone Hfq. J Bacteriol 192:1719-29
Davies, Bryan W; Kohrer, Caroline; Jacob, Asha I et al. (2010) Role of Escherichia coli YbeY, a highly conserved protein, in rRNA processing. Mol Microbiol 78:506-18

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