Author

A. Holmes

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· 3 Biophysics· 1 Ecology· 1 Physiology· 1

Signature Assays, Organisms & Methods

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Organism:E. coli· 3 Approach:experimental assay· 3 Approach:statistical model· 3 Assay:metabolomics· 2 Research Focus:cell signaling & trafficking· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Research Focus:development & morphogenesis· 1

Frequent Co-Authors

A. D. Mahmoud· 1 shared A. E. Cohen· 1 shared A. M. Evans· 1 shared A. Moniri· 1 shared A. S. Brewster· 1 shared B. Merget· 1 shared B. Viollet· 1 shared C. N. Wyatt· 1 shared

Activity by Year

2018-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 9 mutual co-author links

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1 shared paperPhysiology

A. D. Mahmoud

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Author profile →

6 papers

Recent·Most cited

Genome scale metabolic modelling of human gut microbes to inform rational community design

J. P. M. Ortiz, D. D. McClure, A. Holmes, S. A. Rice, M. N. Read, E. R. Shanahan

This study uses genome-scale metabolic models to design microbial communities that enhance butyrate production through DRC supplementation, showing improved resilience and intervention effectiveness.

bioRxiv · May 28, 2024 · PreprintEcology

The role of L-arabinose metabolism for Escherichia coli O157:H7 in edible plants

L. E. Crozier, J. Marshall, A. Holmes, K. Wright, Y. Rossez, B. Merget, S. Humphrise, I. Toth, R. W. Jackson, N. J. Holden

This study investigates L-arabinose metabolism in E. coli O157:H7 during plant colonization, showing gene activation and metabolic utilization of plant-derived arabinose.

bioRxiv · Apr 8, 2021Microbiology

A high-throughput genomic screen identifies a role for the plasmid-borne Type II secretion system of Escherichia coli O157:H7 (Sakai) in plant-microbe interactions

A. Holmes, L. Pritchard, P. Hedley, J. Morris, S. P. McAteer, D. L. Gally, N. Holden

A high-throughput genomic screen identifies the plasmid-borne Type II secretion system (T2SS) of E. coli O157:H7 as important for plant-microbe interactions, while a chaperone-usher fimbrial gene cluster is not.

bioRxiv · Apr 13, 2020Microbiology

The hypoxic ventilatory response is facilitated by the activation of Lkb1-AMPK signalling pathways downstream of the carotid bodies

A. M. Evans, A. D. Mahmoud, A. Holmes, S. MacMillan, O. Ogunbayo, C. N. Wyatt, P. Kumar, M. Dallas, B. Viollet, M. Foretz

This study shows that Lkb1-AMPK signaling, but not CaMKK2, is essential for the hypoxic ventilatory response downstream of the carotid bodies.

bioRxiv · Apr 10, 2019 · PreprintPhysiology

Molecular mimicry in deoxy-nucleotide catalysis: the structure of Escherichia coli dGTPase reveals the molecular basis of dGTP selectivity

C. O. Barnes, Y. Wu, J. Song, G. Lin, E. L. Baxter, A. S. Brewster, V. Nagarajan, A. Holmes, M. Soltis, J. Ahn, A. E. Cohen, G. Calero

This paper determines the structure of Escherichia coli dGTPase and elucidates the molecular basis of its dGTP selectivity through comparative analysis with SAMHD1.

bioRxiv · Nov 29, 2018 · PreprintBiophysics

Simultaneous single-channel multiplex and quantification of carbapenem-resistant genes using multidimensional standard curves

J. Rodriguez-Manzano, A. Moniri, K. Malpartida-Cardenas, J. Dronavalli, F. Davies, A. Holmes, P. Georgiou

The paper introduces a method for simultaneous single-channel multiplexing and quantification of carbapenem-resistant genes using multidimensional standard curves, without fluorescent probes or sequencing.

bioRxiv · Sep 7, 2018Microbiology