Publications

You can see all the Ottemann Lab Publications via Pubmed: Ottemann Lab Publications

2022

2021

The TlpA chemoreceptor binds three attractant ligands and one agonist ligand

Graduate student Kevin Johnson lead our collaboration with Basam Elgamoudi and the team of Victoria Korolik to identify new ligands of the TlpA chemoreceptor, which is important for colonization and inflammation control. They report two new direct binding chemoattractants, fumarate and cysteine, and also found a direct binding antagonist ligand: glucosamine. Johnson KS, Elgamoudi BA, Jen FE, Day CJ, Sweeney EG, Pryce ML, Guillemin K, Haselhorst T, Korolik V, Ottemann KM. The dCache Chemoreceptor TlpA of Helicobacter pylori Binds Multiple Attractant and Antagonistic Ligands via Distinct Sites. mBio. 2021 Aug 31;12(4):e0181921. doi: 10.1128/mBio.01819-21. Epub 2021 Aug 3. PMID: 34340539; PMCID: PMC8406319.

H. pylori infection leads to loss of specific metabolites, including lactate and members of the TCA cycle

2020

H. pylori biofilm growth requires specific genes and has defined transcriptional profile

Postdoc Skander Hathroubi and graduate student Shuai Hu found that the H. pylori G27 forms gorgeous biofilms on cell surfaces that require flagella and several interesting metabolic genes. Hathroubi S, Hu S, Ottemann KM. Genetic requirements and transcriptomics of Helicobacter pylori biofilm formation on abiotic and biotic surfaces. NPJ Biofilms Microbiomes. 2020 Nov 27;6(1):56. doi: 10.1038/s41522-020-00167-3. PMID: 33247117; PMCID: PMC7695850.

H. pylori biofilm growth mode is antibiotic tolerant

Postdoc Skander Hathroubi, undergraduate Julia Zerebinski and graduate student Aaron Clarke collaborated to show that biofilm growth confers antibiotic tolerance that is dependent on surface proteins. Hathroubi S, Zerebinski J, Clarke A, Ottemann KM. Helicobacter pylori Biofilm Confers Antibiotic Tolerance in Part via A Protein-Dependent Mechanism. Antibiotics (Basel). 2020 Jun 24;9(6):355. doi: 10.3390/antibiotics9060355. PMID: 32599828

2019

What it takes to live in a gland

Ph.D. student Christina Yang turned her literature review on how to live in a gland into a publication called Control of Bacterial Colonization in the Glands and Crypts (Current Opinion in Microbiology 47:38-44, 2019).

2018

Flagella hold it all together

Postdoc Skander Hathroubi and undergraduate student Julia Zerebinski report the exciting finding that H. pylori biofilms express large amounts of flagellar apparatus genes, and these structures appear to hold the biofilm together.

Helicobacter pylori Biofilm Involves a Multigene Stress-Biased Response, Including a Structural Role for Flagella. Skander Hathroubi, Julia Zerebinski, Karen M. Ottemann mBio Oct 2018, 9 (5) e01973-18; DOI: 10.1128/mBio.01973-18

Running the ROS Gauntlet

Ph.D. student Kieran Collins went out with a bang with his finding that ROS chemotaxis is critical for H. pylori to colonize multiple gastric glands. This work made use mutant mice lacking either epithelial-produced or immune cell produced ROS. In these strains, the defect of TlpD mutants was reversed. The current model is that multiple types of host ROS limit gland colonization and that bacteria have evolved specific mechanisms to migrate through this gauntlet to establish in the glands.

Collins, K. D., Hu, S., Grasberger, H., Kao, J. Y. & Ottemann, K. M. (2018). Chemotaxis allows bacteria to overcome host-generated reactive oxygen species that constrain gland colonization. Infect Immun 86, e00878–17 (N. E. Freitag, Ed.). http://iai.asm.org/content/86/5/e00878-17.abstract

Also covered as an article of interest: Link

Helicobacter pylori Biofilm Formation and Its Potential Role in Pathogenesis

Great review article about H. pylori biofilm written as a collaboration with the Merrell lab.

Hathroubi, S., Servetas, S. L., Windham, I., Merrell, D. S., & Ottemann, K. M. (2018). Helicobacter pylori Biofilm Formation and Its Potential Role in Pathogenesis. Microbiology and molecular biology reviews : MMBR, 82(2), e00001-18. doi:10.1128/MMBR.00001-18

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Two Spatial Chemotaxis Assays: The Nutrient-Depleted Chemotaxis Assay and the Agarose-Plug-Bridge Assay.

Korolik V., Ottemann K.M. (2018) Two Spatial Chemotaxis Assays: The Nutrient-Depleted Chemotaxis Assay and the Agarose-Plug-Bridge Assay. In: Manson M. (eds) Bacterial Chemosensing. Methods in Molecular Biology, vol 1729. Humana Press, New York, NY

Colonization, localization, and inflammation: the roles of H. pylori chemotaxis in vivo

Johnson, K. S., & Ottemann, K. M. (2018). Colonization, localization, and inflammation: the roles of H. pylori chemotaxis in vivo. Current opinion in microbiology, 41, 51–57. doi:10.1016/j.mib.2017.11.019

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2017

TlpC directly binds the chemoattractant lactate

The Ottemann lab collaborated with crystallographer Anna Roujeinikova's lab to identify lacatate as an H. pylori chemoattractant. The Roujeinikova lab crystallized the ligand binding domain of TlpC, and found that it had bound a lactate molecule. Ottemann Lab Ph.D. student Kevin Johnson showed that lactate is an H. pylori chemoattractant that is sensed by TlpC. TlpC is the first chemoreceptor in its family to bind a ligand in the membrane proximal CACHE domain. Lactate is a preferred food for H. pylori, so tracking it down makes sense.

Machuca, M. A., Johnson, K. S., Liu, Y. C., Steer, D. L., Ottemann, K. M. & Roujeinikova, A. (2017). Helicobacter pylori chemoreceptor TlpC mediates chemotaxis to lactate. Sci Rep 7, 14089. Nature Publishing Group. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5658362/

NLRP3 Controls the Development of Gastrointestinal CD11b+ Dendritic Cells in the Steady State and during Chronic Bacterial Infection

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Cooperation of two distinct coupling proteins creates chemosensory network connections

Abedrabbo, S., Castellon, J., Collins, K. D., Johnson, K. S., & Ottemann, K. M. (2017). Cooperation of two distinct coupling proteins creates chemosensory network connections. Proceedings of the National Academy of Sciences of the United States of America, 114(11), 2970–2975. doi:10.1073/pnas.1618227114

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Fallacy of the Unique Genome: Sequence Diversity within Single Helicobacter pylori Strains

Draper, J. L., Hansen, L. M., Bernick, D. L., Abedrabbo, S., Underwood, J. G., Kong, N., … Ottemann, K. M. (2017). Fallacy of the Unique Genome: Sequence Diversity within Single Helicobacter pylori Strains. mBio, 8(1), e02321-16. doi:10.1128/mBio.02321-16

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2016

Spatial and Temporal Shifts in Bacterial Biogeography and Gland Occupation during the Development of a Chronic Infection

Keilberg, D., Zavros, Y., Shepherd, B., Salama, N. R., & Ottemann, K. M. (2016). Spatial and Temporal Shifts in Bacterial Biogeography and Gland Occupation during the Development of a Chronic Infection. mBio, 7(5), e01705-16. doi:10.1128/mBio.01705-16

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The Helicobacter pylori CZB Cytoplasmic Chemoreceptor TlpD Forms an Autonomous Polar Chemotaxis Signaling Complex That Mediates a Tactic Response to Oxidative Stress

Collins, K. D., Andermann, T. M., Draper, J., Sanders, L., Williams, S. M., Araghi, C., & Ottemann, K. M. (2016). The Helicobacter pylori CZB Cytoplasmic Chemoreceptor TlpD Forms an Autonomous Polar Chemotaxis Signaling Complex That Mediates a Tactic Response to Oxidative Stress. Journal of bacteriology, 198(11), 1563–1575. doi:10.1128/JB.00071-16

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How Helicobacter pylori senses, targets and interacts with the gastric epithelium

Keilberg, D. and Ottemann, K. M. (2016), H. pylori–gastric epithelium interaction. Environ Microbiol, 18: 791-806. doi:10.1111/1462-2920.13222

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2015

Helicobacter pylori CheZ(HP) and ChePep form a novel chemotaxis-regulatory complex distinct from the core chemotaxis signaling proteins and the flagellar motor

Lertsethtakarn, P., Howitt, M. R., Castellon, J., Amieva, M. R., & Ottemann, K. M. (2015). Helicobacter pylori CheZ(HP) and ChePep form a novel chemotaxis-regulatory complex distinct from the core chemotaxis signaling proteins and the flagellar motor. Molecular microbiology, 97(6), 1063–1078. doi:10.1111/mmi.13086

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The use of murine-derived fundic organoids in studies of gastric physiology

Schumacher, M. A., Aihara, E., Feng, R., Engevik, A., Shroyer, N. F., Ottemann, K. M., … Zavros, Y. (2015). The use of murine-derived fundic organoids in studies of gastric physiology. The Journal of physiology, 593(8), 1809–1827. doi:10.1113/jphysiol.2014.283028

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Helicobacter pylori-induced Sonic Hedgehog expression is regulated by NFκB pathway activation: The use of a novel in vitro model to study epithelial response to infection

Schumacher, M. A., Feng, R., Aihara, E., Engevik, A. C., Montrose, M. H., Ottemann, K. M., & Zavros, Y. (2015). Helicobacter pylori-induced Sonic Hedgehog expression is regulated by NFκB pathway activation: the use of a novel in vitro model to study epithelial response to infection. Helicobacter, 20(1), 19–28. doi:10.1111/hel.12152

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Internal Sense of Direction: Sensing and Signaling from Cytoplasmic Chemoreceptors

Collins, K. D., Lacal, J., & Ottemann, K. M. (2014). Internal sense of direction: sensing and signaling from cytoplasmic chemoreceptors. Microbiology and molecular biology reviews : MMBR, 78(4), 672–684. doi:10.1128/MMBR.00033-14

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2014

Motility and chemotaxis mediate the preferential colonization of gastric injury sites by Helicobacter pylori.

Aihara, E., Closson, C., Matthis, A. L., Schumacher, M. A., Engevik, A. C., Zavros, Y., … Montrose, M. H. (2014). Motility and chemotaxis mediate the preferential colonization of gastric injury sites by Helicobacter pylori. PLoS pathogens, 10(7), e1004275. doi:10.1371/journal.ppat.1004275

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2013

Structural basis of FliG–FliM interaction in Helicobacter pylori

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The Degree of Helicobacter pylori-Triggered Inflammation Is Manipulated by Preinfection Host Microbiota

Rolig, A. S., Cech, C., Ahler, E., Carter, J. E., & Ottemann, K. M. (2013). The degree of Helicobacter pylori-triggered inflammation is manipulated by preinfection host microbiota. Infection and immunity, 81(5), 1382–1389. doi:10.1128/IAI.00044-13

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A supplemented soft agar chemotaxis assay demonstrates the Helicobacter pylori chemotactic response to zinc and nickel

Sanders, L., Andermann, T. M., & Ottemann, K. M. (2013). A supplemented soft agar chemotaxis assay demonstrates the Helicobacter pylori chemotactic response to zinc and nickel. Microbiology (Reading, England), 159(Pt 1), 46–57. doi:10.1099/mic.0.062877-0

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2012

Conserved transcriptional unit organization of the cag pathogenicity island among Helicobacter pylori strains

Ta, L. H., Hansen, L. M., Sause, W. E., Shiva, O., Millstein, A., Ottemann, K. M., … Solnick, J. V. (2012). Conserved transcriptional unit organization of the cag pathogenicity island among Helicobacter pylori strains. Frontiers in cellular and infection microbiology, 2, 46. doi:10.3389/fcimb.2012.00046

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Helicobacter pylori requires TlpD-driven chemotaxis to proliferate in the antrum

Rolig, A. S., Shanks, J., Carter, J. E., & Ottemann, K. M. (2012). Helicobacter pylori requires TlpD-driven chemotaxis to proliferate in the antrum. Infection and immunity, 80(10), 3713–3720. doi:10.1128/IAI.00407-12

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The Helicobacter pylori autotransporter ImaA (HP0289) modulates the immune response and contributes to host colonization

Sause, W. E., Castillo, A. R., & Ottemann, K. M. (2012). The Helicobacter pylori autotransporter ImaA (HP0289) modulates the immune response and contributes to host colonization. Infection and immunity, 80(7), 2286–2296. doi:10.1128/IAI.00312-12

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2011

Bacterial chemotaxis modulates host cell apoptosis to establish a T-helper cell, type 17 (Th17)-dominant immune response in Helicobacter pylori infection

Rolig, A. S., Carter, J. E., & Ottemann, K. M. (2011). Bacterial chemotaxis modulates host cell apoptosis to establish a T-helper cell, type 17 (Th17)-dominant immune response in Helicobacter pylori infection. Proceedings of the National Academy of Sciences of the United States of America, 108(49), 19749–19754. doi:10.1073/pnas.1104598108

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Motility and Chemotaxis in Campylobacter and Helicobacter

Lertsethtakarn, P., Ottemann, K. M., & Hendrixson, D. R. (2011). Motility and chemotaxis in Campylobacter and Helicobacter . Annual review of microbiology, 65, 389–410. doi:10.1146/annurev-micro-090110-102908

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ChePep controls Helicobacter pylori Infection of the gastric glands and chemotaxis in the Epsilonproteobacteria

Howitt, M. R., Lee, J. Y., Lertsethtakarn, P., Vogelmann, R., Joubert, L. M., Ottemann, K. M., & Amieva, M. R. (2011). ChePep controls Helicobacter pylori Infection of the gastric glands and chemotaxis in the Epsilonproteobacteria. mBio, 2(4), e00098-11. doi:10.1128/mBio.00098-11

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Identification of a chemoreceptor zinc-binding domain common to cytoplasmic bacterial chemoreceptors

Draper, J., Karplus, K., & Ottemann, K. M. (2011). Identification of a chemoreceptor zinc-binding domain common to cytoplasmic bacterial chemoreceptors. Journal of bacteriology, 193(17), 4338–4345. doi:10.1128/JB.05140-11

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Helicobacter pylori perceives the quorum-sensing molecule AI-2 as a chemorepellent via the chemoreceptor TlpB

Rader, B. A., Wreden, C., Hicks, K. G., Sweeney, E. G., Ottemann, K. M., & Guillemin, K. (2011). Helicobacter pylori perceives the quorum-sensing molecule AI-2 as a chemorepellent via the chemoreceptor TlpB. Microbiology (Reading, England), 157(Pt 9), 2445–2455. doi:10.1099/mic.0.049353-0

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2010

CheV: CheW-like coupling proteins at the core of the chemotaxis signaling network

Alexander, R. P., Lowenthal, A. C., Harshey, R. M., & Ottemann, K. M. (2010). CheV: CheW-like coupling proteins at the core of the chemotaxis signaling network. Trends in microbiology, 18(11), 494–503. doi:10.1016/j.tim.2010.07.004

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A remote CheZ orthologue retains phosphatase function

Lertsethtakarn, P., & Ottemann, K. M. (2010). A remote CheZ orthologue retains phosphatase function. Molecular microbiology, 77(1), 225–235. doi:10.1111/j.1365-2958.2010.07200.x

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The chemical-in-plug bacterial chemotaxis assay is prone to false positive responses

Li, J., Go, A. C., Ward, M. J., & Ottemann, K. M. (2010). The chemical-in-plug bacterial chemotaxis assay is prone to false positive responses. BMC research notes, 3(1), 77. doi:10.1186/1756-0500-3-77

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2009

Functional analysis of the Helicobacter pylori flagellar switch proteins

Lowenthal, A. C., Hill, M., Sycuro, L. K., Mehmood, K., Salama, N. R., & Ottemann, K. M. (2009). Functional analysis of the Helicobacter pylori flagellar switch proteins. Journal of bacteriology, 191(23), 7147–7156. doi:10.1128/JB.00749-09

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A fixed-time diffusion analysis method determines that the three cheV genes of Helicobacter pylori differentially affect motility

Lowenthal, A. C., Simon, C., Fair, A. S., Mehmood, K., Terry, K., Anastasia, S., & Ottemann, K. M. (2009). A fixed-time diffusion analysis method determines that the three cheV genes of Helicobacter pylori differentially affect motility. Microbiology (Reading, England), 155(Pt 4), 1181–1191. doi:10.1099/mic.0.021857-0

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The Complete Genome Sequence of Helicobacter pylori Strain G27

Baltrus, D. A., Amieva, M. R., Covacci, A., Lowe, T. M., Merrell, D. S., Ottemann, K. M., … Guillemin, K. (2009). The complete genome sequence of Helicobacter pylori strain G27. Journal of bacteriology, 191(1), 447–448. doi:10.1128/JB.01416-08

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