Author

H. K. Carlson

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 14 Plant Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 14 Research Focus:host-pathogen & immune response· 6 Assay:metagenomics· 6 Organism:bacteria (other)· 5 Research Focus:cell type annotation· 5 Research Focus:gene regulatory network inference· 3 Research Focus:differential expression· 2 Organism:mouse· 2

Frequent Co-Authors

A. M. Deutschbauer· 9 shared A. P. Arkin· 7 shared M. N. Price· 5 shared M. E. Taga· 4 shared A. M. Nicolas· 3 shared K. C. Mok· 3 shared A. Deutschbauer· 2 shared A. L. Shiver· 2 shared

Activity by Year

2018-2024 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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9 shared papersMicrobiology

A. M. Deutschbauer

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15 papers

Recent·Most cited

High-throughput genetics enables identification of nutrient utilization and accessory energy metabolism genes in a model methanogen

L. A. Day, H. K. Carlson, D. R. Fonseca, A. P. Arkin, M. N. Price, A. Deutschbauer, K. Costa

This paper uses high-throughput genetics to identify nutrient utilization and accessory energy metabolism genes in the methanogen Methanococcus maripaludis.

mBio · Sep 11, 2024Peer-reviewedMicrobiology

Soil microbial community response to corrinoids is shaped by a natural reservoir of vitamin B12.

Z. F. Hallberg, A. M. Nicolas, Z. I. Alvarez-Aponte, K. C. Mok, E. T. Sieradzki, J. Pett-Ridge, J. Banfield, H. K. Carlson, M. K. Firestone, M. E. Taga

The paper investigates how corrinoid structure affects soil microbial community composition and stability through experimental and genomic analysis.

bioRxiv · Feb 12, 2024Microbiology

Niche exclusion of a lung pathogen in mice with designed probiotic communities

K. E. Hern, A. M. E. Phillips, C. M. Mageeney, K. P. Williams, A. Sinha, H. K. Carlson, K. Poorey, N. M. Collette, S. S. Branda, A. P. Arkin

This study shows that probiotic communities can prevent Burkholderia thailandensis infection in mice by reducing niche overlap with the pathogen.

bioRxiv · Feb 2, 2024Microbiology

Phylogenetic distribution and experimental characterization of corrinoid production and dependence in soil bacterial isolates

Z. I. Alvarez-Aponte, A. M. Govindaraju, Z. F. F. Hallberg, A. M. Nicolas, M. A. Green, K. C. Mok, C. Fonseca-Garcia, D. Coleman-Derr, E. L. Brodie, H. K. Carlson, M. E. Taga

The paper investigates corrinoid production and dependence in soil bacteria to understand metabolic interactions, finding metabolic compatibility and conserved traits across genera.

bioRxiv · Dec 21, 2023Microbiology

Geochemical constraints on bacteriophage infectivity in terrestrial environments

H. K. Carlson, D. Piya, M. L. Moore, R. T. Magar, N. H. Elisabeth, A. M. Deutschbauer, A. P. Arkin, V. K. Mutalik

This study measures ion thresholds for phage infection and shows that phage impact on terrestrial microbiomes is strongest in high-ion environments with simple carbon sources.

ISME Communications · Dec 1, 2023Peer-reviewedMicrobiology

A mutant fitness compendium in Bifidobacteria reveals molecular determinants of colonization and host-microbe interactions

A. L. Shiver, J. Sun, R. Culver, A. Violette, C. Wynter, M. Nieckarz, S. P. Mattiello, P. K. Sekhon, L. Friess, H. K. Carlson, D. Wong, S. K. Higginbottom, M. Weglarz, W. Wang, B. D. Knapp, , K. C. Huang

The paper creates a mutant fitness compendium for Bifidobacterium breve to identify molecular factors affecting colonization and host-microbe interactions.

bioRxiv · Aug 29, 2023 · PreprintMicrobiology

Impact of inoculation practices on microbiota assembly and community stability in a fabricated ecosystem

H.-H. Lin, M. Torres, C. A. Adams, P. F. Andeer, T. K. Owens, K. Zhalnina, L. K. Jabusch, H. K. Carlson, J. V. Kuehl, A. M. Deutschbauer, T. R. Northen, N. L. Glass, J. C. Mortimer

This study evaluates how different inoculation practices and harvesting times affect microbial community reproducibility in a fabricated ecosystem with Brachypodium distachyon.

bioRxiv · Jun 13, 2023Plant Biology

A chemically-defined growth medium to support Lactobacillus-Acetobacter community analysis

K. Aumiller, E. Stevens, R. Scheffler, Z. T. Guvener, E. Tung, A. B. Grimaldo, H. K. Carlson, A. M. Deutschbauer, M. E. Taga, M. L. Marco, W. B. Ludington

The paper develops a chemically-defined medium that supports the growth of both Lactobacillus and Acetobacter bacteria, enabling the study of their metabolic interactions.

bioRxiv · May 12, 2021 · PreprintMicrobiology

Sulfate adenylyl transferase kinetics and mechanisms of metabolic inhibitors of microbial sulfate respiration

H. K. Carlson, M. D. Youngblut, S. A. Redford, A. J. Williamson, J. Coates

The paper measures kinetic parameters of sulfate adenylyl transferase and compares inhibitor potency with growth inhibition in sulfate-reducing bacteria.

bioRxiv · Mar 29, 2021Microbiology

Identification of a novel cobamide remodeling enzyme in the beneficial human gut bacterium Akkermansia muciniphila

K. C. Mok, O. M. Sokolovskaya, A. M. Nicolas, Z. Hallberg, A. M. Deutschbauer, H. K. Carlson, M. E. Taga

This paper identifies a novel cobamide remodeling enzyme, CbiR, in Akkermansia muciniphila that enables the bacterium to use diverse cobamides by modifying their structure.

bioRxiv · Sep 2, 2020Microbiology

Genome-wide identification of tomato xylem sap fitness factors for three plant-pathogenic Ralstonia species

S. J. Georgoulis, K. E. Shalvarjian, T. C. Helmann, C. D. Hamilton, H. K. Carlson, A. M. Deutschbauer, T. M. Lowe-Power

This paper identifies genes essential for Ralstonia spp. growth in tomato xylem sap using RB-TnSeq, revealing envelope-related factors critical for survival in this niche.

bioRxiv · Aug 31, 2020Microbiology

Selective carbon sources influence the end-products of microbial nitrate respiration

H. K. Carlson, L. M. Lui, M. N. Price, A. E. Kazakov, A. V. Carr, J. V. Kuehl, T. K. Owens, T. Nielsen, A. P. Arkin, A. M. Deutschbauer

The paper investigates how different carbon sources affect the end-products of nitrate respiration in microbial communities from diverse environments.

bioRxiv · Nov 4, 2019Microbiology

Large-scale chemical-genetics of the human gut bacterium Bacteroides thetaiotaomicron

H. Liu, M. N. Price, H. K. Carlson, Y. Chen, J. Ray, A. L. Shiver, C. J. Petzold, K. C. Huang, A. P. Arkin, A. Deutschbauer

This study systematically measures mutant phenotypes for genes in Bacteroides thetaiotaomicron to uncover gene functions and improve understanding of gut microbiota physiology.

bioRxiv · Mar 9, 2019Microbiology

Oxidative pathways of deoxyribose and deoxyribonate catabolism

M. N. Price, J. Ray, A. T. Iavarone, H. K. Carlson, E. M. Ryan, R. R. Malmstrom, A. P. Arkin, A. M. Deutschbauer

The paper identifies novel oxidative pathways for deoxyribose and deoxyribonate catabolism in bacteria using genome-wide mutant fitness assays and genetic evidence.

bioRxiv · Nov 12, 2018Microbiology

Defining the toxicity limits on microbial range in a metal-contaminated aquifer

H. K. Carlson, M. N. Price, M. Callaghan, A. Aaring, R. Chakraborty, H. Liu, A. P. Arkin, A. M. Deutschbauer

The paper identifies toxic inorganic ions that inhibit sensitive microorganisms and favor Rhodanobacter in a metal-contaminated aquifer.

bioRxiv · Aug 9, 2018Microbiology