Publications

2025

Neonatal fungi promote lifelong metabolic health through macrophage-dependent β cell development

JH Hill, R Bell, L Barrios, H Baird, K Ost, M Greenewood, JK Monts, ...

Science 387 (6738), eadn0953

microRNA-regulated transcriptional state defines intratumoral CD8+ T cells that respond to immunotherapy

WW Tang, B Battistone, KM Bauer, AM Weis, C Barba, MZH Fadlullah, ...

Cell Reports 44 (2)

Draft genome of a human gut-derived Blautia sp. that ameliorates colitis and colitis-associated sociability deficits in mice

MA Murphy, DG Brown, RS Bell, AM Weis, LA Barrios, WZ Stephens, ...

Microbiology Resource Announcements 14 (1), e00726-24

Clec12a controls colitis by tempering inflammation and restricting expansion of specific commensals

TR Chiaro, M Greenewood, KM Bauer, KS Ost, E Stephen-Victor, ...

Cell Host & Microbe 33 (1), 89-103. e7

Draft Turicibacter sp. genome isolated from a spore-forming community in mice

KA Klag, AM Weis, WZ Stephens, JL Round

Microbiology Resource Announcements 13 (8), e00385-24

Genomes of diverse Clostridia isolated from a spore forming community in mice that were associated with protection against metabolic syndrome and obesity

AM Weis, KA Klag, R Bell, WZ Stephens, JL Round

Microbiology Resource Announcements 13 (7), e00351-24

Draft genome of a human-derived pks+ E. coli that caused spontaneous disseminated infection in a mouse

AM Weis, OCJ Matthews, MA Mulvey, JL Round

Microbiology Resource Announcements 13 (7), e00387-24

Colitis reduces active social engagement in mice and is ameliorated by supplementation with human microbiota members

DG Brown, M Murphy, R Cadeddu, R Bell, A Weis, T Chiaro, K Klag, ...

Nature Communications 15 (1), 2769

CD11c+ myeloid cell exosomes reduce intestinal inflammation during colitis

KM Bauer, MC Nelson, WW Tang, TR Chiaro, DG Brown, A Ghazaryan, ...

JCI insight 7 (19), e159469

Epithelial-myeloid exchange of MHC class II constrains immunity and microbiota composition

WZ Stephens, JL Kubinak, A Ghazaryan, KM Bauer, R Bell, K Buhrke, ...

Cell reports 37 (5)

Microbiota-antibody interactions that regulate gut homeostasis

AM Weis, JL Round

Cell host & microbe 29 (3), 334-346

Phylogenetic and biogeographic patterns of Vibrio parahaemolyticus strains from North America inferred from whole-genome sequence data

JJ Miller, BC Weimer, R Timme, CHM Lüdeke, JB Pettengill, DJD Bandoy, ...

Applied and environmental microbiology 87 (3), e01403-20

Insular microbiogeography: Three pathogens as exemplars

JH Kaufman, CA Elkins, M Davis, AM Weis, BC Huang, MK Mammel, ...

Current issues in molecular biology 36 (1), 89-108

Low heterozygosity is associated with vector‐borne disease in crows

AK Townsend, CC Taff, SS Wheeler, AM Weis, MG Hinton, ML Jones, ...

Ecosphere 9 (10), e02407

Commensal regulation of T cell survival through Erdr1

AM Weis, R Soto, JL Round

Gut Microbes 9 (5), 458-464

Comparative analysis of Campylobacter isolates from wild birds and chickens using MALDI-TOF MS, biochemical testing, and DNA sequencing

SJ Lawton, AM Weis, BA Byrne, H Fritz, CC Taff, AK Townsend, ...

Journal of Veterinary Diagnostic Investigation 30 (3), 354-361

Graduate School and Early Career

Draft Genome Sequences of 1,183 Salmonella Strains from the 100K Pathogen Genome Project

N Kong, M Davis, N Arabyan, BC Huang, AM Weis, P Chen, K Thao, W Ng, ...

Genome announcements 5 (28), 10.1128/genomea. 00518-17

Shigella draft genomes: resources for food safety and public health

AM Weis, B Gilpin, BC Huang, N Kong, P Chen, BC Weimer

Genome Announcements 5 (16)

Draft genome sequence of multidrug-resistant abortive Campylobacter jejuni from Northern California

AM Weis, KA Clothier, BC Huang, N Kong, BC Weimer

Genome announcements 5 (15), 10.1128/genomea. 00171-17

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

JL Draper, LM Hansen, DL Bernick, S Abedrabbo, JG Underwood, ...

MBio 8 (1), 10.1128/mbio. 02321-16

Large-Scale Release of Campylobacter Draft Genomes: Resources for Food Safety and Public Health from the 100K Pathogen Genome Project

AM Weis, BC Huang, DB Storey, N Kong, P Chen, N Arabyan, B Gilpin, ...

Genome announcements 5 (1), 10.1128/genomea. 00925-16

Campylobacter Genomics in Health and Disease

AM Weis

University of California, Davis

Automation of PacBio SMRTbell NGS library preparation for bacterial genome sequencing

SLBCWE Nguyet Kong, Whitney Ng, Kao Thao, Regina Agulto, Allison Weis ...

Standards in Genomic Sciences 12 (27)

Genomic comparison of Campylobacter spp. and their potential for zoonotic transmission between birds, primates, and livestock

AM Weis, DB Storey, CC Taff, AK Townsend, BC Huang, NT Kong, ...

Applied and Environmental Microbiology 82 (24), 7165-7175

Influence of host ecology and behavior on Campylobacter jejuni prevalence and environmental contamination risk in a synanthropic wild bird species

CC Taff, AM Weis, S Wheeler, MG Hinton, BC Weimer, CM Barker, ...

Applied and Environmental Microbiology 82 (15), 4811-4820

DNA methylation profiles of Helicobacter pylori strains from patients with gastric cancer and gastritis

MC Camargo, J Torres, JV Solnick, C Raley, D Storey, M Becker, R Torres, ...

Cancer Research 76 (14_Supplement), 3438-3438

Salmonella Degrades the Host Glycocalyx Leading to Altered Infection and Glycan Remodeling

N Arabyan, D Park, S Foutouhi, AM Weis, BC Huang, CC Williams, ...

Scientific reports 6 (1), 29525

Prevalence and pathogenic potential of Campylobacter isolates from free-living, human-commensal American crows

AM Weis, WA Miller, BA Byrne, N Chouicha, WM Boyce, AK Townsend

Applied and environmental microbiology 80 (5), 1639-1644

Simple methods for generating and detecting locus-specific mutations induced with TALENs in the zebrafish genome

TJ Dahlem, K Hoshijima, MJ Jurynec, D Gunther, CG Starker, AS Locke, ...

Public Library of Science 8 (8), e1002861

C. elegans BLOC-1 Functions in Trafficking to Lysosome-Related Gut Granules

GJ Hermann, E Scavarda, AM Weis, DS Saxton, LL Thomas, R Salesky, ...

Public Library of Science 7 (8), e43043

glo-3, a Novel Caenorhabditis elegans Gene, Is Required for Lysosome-Related Organelle Biogenesis

BM Rabbitts, MK Ciotti, NE Miller, M Kramer, AL Lawrenson, S Levitte, ...

Genetics 180 (2), 857-871