Skip to main content
ARS Home » Pacific West Area » Albany, California » Western Regional Research Center » Produce Safety and Microbiology Research » Research » Research Project #430420

Research Project: Molecular Identification and Characterization of Bacterial and Viral Pathogens Associated with Foods

Location: Produce Safety and Microbiology Research

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Genetic characterization of Campylobacter concisus: strategies for improved genomospecies discrimination - (Peer Reviewed Journal)

Impact of ceftiufor administration in steers on prevalence and antimicrobial resistance of Campylobacter Reprint Icon - (Peer Reviewed Journal)
Fan, S., Foster, D., Miller, W.G., Osborne, J., Kathariou, S. 2021. Impact of ceftiufor administration in steers on prevalence and antimicrobial resistance of Campylobacter. Microorganisms. https://doi.org/10.3390/microorganisms9020318.

Complete genome sequence of the novel Campylobacter species “Candidatus Campylobacter infans” - (Other)

Campylobacter pinnipediorum subsp. caledonicus and C.pinnipediorum subsp. pinnipediorum recovered from abscesses in pinnipeds Reprint Icon - (Peer Reviewed Journal)
Foster, G., Baily, J., Howie, F., Brownlow, A., Wagenaar, J.A., Gilbert, M.J., Miller, W.G., Byrne, B.A., Clothier, K.A., Schmitt, T., Patterson, I., Reid, R., Dagleish, M. 2020. Campylobacter pinnipediorum subsp. caledonicus and Campylobacter pinnipediorum subsp. pinnipediorum recovered from abscesses in pinnipeds. Diseases of Aquatic Organisms. 142:41-46. https://doi.org/10.3354/dao03544.

Dataset of the phospholipidome and transcriptome of Campylobacter jejuni under different growth conditions Reprint Icon - (Peer Reviewed Journal)
Cao XF., Brouwers JFHM., Heijmen Van Dijk, L., Parker, CT., Huynh, S., Van Putten, JPM., Kelly DJ., Wosten, M.M. 2020. Dataset of the phospholipidome and transcriptome of Campylobacter jejuni under different growth conditions. Data in Brief. 33:106349.

A porcine ligated loop model reveals new insight into the host immune response against Campylobacter jejuni Reprint Icon - (Peer Reviewed Journal)
Negretti, N.M., Ye, Y., Malavasi, L.M., Pokharel, S.M., Huynh, S., Noh, S., Gourley, C.R., Ragle, C.A., Bose, S., Looft, T.P., Parker, C., Clair, G., Adkins, J.N., Konkel, M.E. 2020. A porcine ligated loop model reveals new insight into the host immune response against Campylobacter jejuni. Gut Microbes. 12: e1814121. https://doi.org/10.1080/19490976.2020.1814121.

Search for Campylobacter reveals high prevalence and pronounced genetic diversity of Arcobacter butzleri in floodwater samples associated with Hurricane Florence in North Carolina, USA - (Peer Reviewed Journal)
Niedermeyer, J., Miller, W.G., Yee, E., Harris, A., Emanuel, R., Jass, T., Nelson, N., Kathariou, S. 2020. Search for Campylobacter reveals high prevalence and pronounced genetic diversity of Arcobacter butzleri in floodwater samples associated with Hurricane Florence, North Carolina, USA. Applied and Environmental Microbiology. 20:e01118-20.

Unique inducible filamentous motility identified in pathogenic Bacillus cereus group species Reprint Icon - (Peer Reviewed Journal)
Liu MM, Coleman S, Wilkinson L, Smith ML, Hoang T, Niyah N, Mukherjee M, Huynh S, Parker CT, Kovac J, Hancock REW, Gaynor EC. Unique inducible filamentous motility identified in pathogenic Bacillus cereus group species. ISME J. 2020 Aug 7;. doi.org/10.1038/s41396-020-0728-x

The unique Phospholipidome of the enteric pathogen Campylobacter jejuni: Lysophosholipids are required for motility at low oxygen availability Reprint Icon - (Peer Reviewed Journal)
Cao X, Brouwers J, Heijmen Van Dijk L, Parker CT, Huynh S, Van Putten J, Kelly DJ, Wosten M. The unique Phospholipidome of the enteric pathogen Campylobacter jejuni: Lysophosholipids are required for motility at low oxygen availability. J Mol Biol. 2020 Jul 22;. doi.org/10.1016/j.jmb.2020.07.012

Global similarity and local differences in Campylobacter jejuni lineages associated with asymptomatic pediatric infection from the Peruvian Amazon Reprint Icon - (Peer Reviewed Journal)
Pascoe, B., Schiaffino, F., Murray, S., Bayliss, S.C., Hitchings, M.D., Méric, G., Mageiros, L., Mourkas, E., Calland, J.K., Burga, R., Penataro-Yori, P., Jolley, K.A., Maiden, M.C., Cooper, K.K., Parker, C., Olortegui, M., Kosek, M.N., Sheppard, S.K. 2020. Global similarity and local differences in Campylobacter jejuni lineages associated with asymptomatic pediatric infection from the Peruvian Amazon. PLoS Pathogens. 14(8):e0008533. https://doi.org/10.1371/journal.pntd.0008533.

A critical rebuttal of the proposed division of the genus Arcobacter into six genera using comparative genomic, phylogenetic, and phenotypic criteria Reprint Icon - (Peer Reviewed Journal)
On, S.L., Miller, W.G., Biggs, P., Cornelius, A., Vandamme, P. 2020. A critical rebuttal of the proposed division of the genus Arcobacter into six genera using comparative genomic, phylogenetic, and phenotypic criteria. Systematic and Applied Microbiology. 43(5):126108. https://doi.org/10.1016/j.syapm.2020.126108.

An emended description of Arcobacter anaerophilus Sasi Jyothsna et al. 2013: genomic and phenotypic insights Reprint Icon - (Peer Reviewed Journal)
On, S.L., Miller, W.G., Kelly, D., Vandamme, P. 2020. An emended description of Arcobacter anaerophilus Sasi Jyothsna et al. 2013: genomic and phenotypic insights. International Journal of Systematic and Evolutionary Microbiology. 70(6):3921-3923. https://doi.org/10.1099/ijsem.0.004214.

Agricultural intensification and the evolution of host specialism in the enteric pathogen Campylobacter jejuni Reprint Icon - (Peer Reviewed Journal)
Mourkas, E., Taylor, A.J., Méric, G., Bayliss, S.C., Pascoe, B., Mageiros, L., Calland, J.K., Ridley, A., Vidal, A., Forbes, K., Strachan, N.J., Parker, C., Parkhill, J., Cody, A., Jolley, K.A., Maiden, M.M., Kelly, D.J., Sheppard, S.K. 2020. Agricultural intensification and the evolution of host specialism in the enteric pathogen Campylobacter jejuni. Proceedings of the National Academy of Sciences. 117(20):11018-11028. https://doi.org/10.1073/pnas.1917168117.

Complete genome sequencing of four Arcobacter species reveals a diverse suite of mobile elements Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2020. Complete genome sequencing of four Arcobacter species reveals a diverse suite of mobile elements. Genome Biology and Evolution. 12(2):3850–3856. https://doi.org/10.1093/gbe/evaa014.

Antimicrobial resistance patterns and molecular resistance markers of Campylobacter jejuni isolates from human diarrheal cases Reprint Icon - (Peer Reviewed Journal)
Elhadidy, M., Ali, M.M., El-Shibiny, A., Miller, W.G., Elkhatib, W.F., Botteldoorn, N., Dierick, K. 2020. Antimicrobial resistance patterns and molecular resistance markers of Campylobacter jejuni isolates from human diarrheal cases. PLoS One. 15(1):e0227833. https://doi.org/10.1371/journal.pone.0227833.

Campylobacter abundance in breastfed infants and identification of a new species in the global enterics multicenter study Reprint Icon - (Peer Reviewed Journal)
Bian, X., Garber, J.M., Cooper, K.K., Huynh, S., Jones, J., Mills, M., Rafala, D., Nasarin, D., Kotloff, K.L., Parker, C., Tennant, S.M., Miller, W.G., Szymanski, C.M. 2020. Campylobacter abundance in breastfed infants and identification of a new species in the global enterics multicenter study. mSphere. 5(1):e00735-19. https://doi.org/10.1128/mSphere.00735-19.

Detection and identification of a protein biomarker in antibiotic resistant Escherichia coli using intact protein LC offline MALDI-MS and MS/MS Reprint Icon - (Peer Reviewed Journal)
Maus, A., Bisha, B., Fagerquist, C.K., Basile, F. 2019. Detection and identification of a protein biomarker in antibiotic resistant Escherichia coli using intact protein LC offline MALDI-MS and MS/MS. Journal of Applied Microbiology. 128(3):697-709. https://doi.org/10.1111/jam.14507.

Top-down proteomic identification of Shiga toxin 1 and 2 from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Top-down proteomic identification of Shiga toxin 1 and 2 from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry. Microorganisms. 7(488):1-14. https://doi.org/10.3390/microorganisms7110488.

Campylobacter armoricus sp. nov., a novel member of the Campylobacter lari group isolated from surface water and stools from humans with enteric infection Reprint Icon - (Peer Reviewed Journal)
Boukerb, A.M., Penny, C., Serghine, J., Walczak, C., Cauchie, H., Miller, W.G., Losch, S., Ragimbeau, C., Mossong, J., Megraud, F., Lehours, P., Benejat, L., Gourmelon, M. 2019. Campylobacter armoricus sp. nov., a novel member of the Campylobacter lari group isolated from surface water and stools from humans with enteric infection. International Journal of Systematic and Evolutionary Microbiology. 69(12):3969-3979. https://doi.org/10.1099/ijsem.0.003836.

Complete genome sequences of the Campylobacter fetus subsp. venerealis, Campylobacter lari subsp. concheus, Campylobacter sputorum bv. sputorum, and Campylobacter volucris Type Strains Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E. 2019. Complete genome sequences of the Campylobacter fetus subsp. venerealis, Campylobacter lari subsp. concheus, Campylobacter sputorum bv. sputorum, and Campylobacter volucris Type Strains. Microbiology Resource Announcements. 8(45):e01157-19. https://doi.org/10.1128/MRA.01157-19.

Complete genome sequence of the Arcobacter canalis type strain LMG 29148 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Chapman, M.H. 2019. Complete genome sequence of the Arcobacter canalis type strain LMG 29148. Microbiology Resource Announcements. 8(44):e01156-19. https://doi.org/10.1128/MRA.01156-19.

Strain-specific differences in survival of Campylobacter spp. in naturally-contaminated turkey feces and water Reprint Icon - (Peer Reviewed Journal)
Good, L., Miller, W.G., Niedermeyer, J., Osborne, J., Siletzky, R.M., Carver, D., Kathariou, S. 2019. Strain-specific differences in survival of Campylobacter spp. in naturally-contaminated turkey feces and water. Applied and Environmental Microbiology. 85:e01579-19. https://doi.org/10.1128/AEM.01579-19.

Bimodal response to Shiga toxin 2 subtypes results from relatively weak binding to the target cell Reprint Icon - (Peer Reviewed Journal)
Cherubin, P., Fiddler, D., Quinones, B., Teter, K. 2019. Bimodal response to Shiga toxin 2 subtypes results from relatively weak binding to the target cell. Infection and Immunity. 87:e00428-19. https://doi.org/10.1128/IAI.00428-19.

Use of membrane filtration for the recovery of campylobacter from raw chicken carcasses purchased at retail markets in Culiacan, Sinaloa, Mexico Reprint Icon - (Peer Reviewed Journal)
Soto-Beltran, M., Quinones, B., Ibarra Rodriguez, A., Amezquita-Lopez, B.A. 2019. Use of membrane filtration for the recovery of campylobacter from raw chicken carcasses purchased at retail markets in Culiacan, Sinaloa, Mexico. Journal of Biosciences. 7:e698. https://doi.org/10.15741/revbio.07.e698.

Arcobacter cryaerophilus isolated from New Zealand mussels harbor a putative virulence plasmid Reprint Icon - (Peer Reviewed Journal)
On, S.L., Althus, D., Miller, W.G., Lizamore, D., Wong, S.G., Mathai, A.J., Chelikani, V., Carter, G. 2019. Arcobacter cryaerophilus isolated from New Zealand mussels harbor a putative virulence plasmid. Frontiers in Microbiology. 10:1802. https://doi.org/10.3389/fmicb.2019.01802.

Whole-genome sequencing-based characterization of 100 Listeria monocytogenes isolates collected from food processing environments over a four-year period Reprint Icon - (Peer Reviewed Journal)
Hurley, D., Luque-Sastre, L., Parker, C., Huynh, S., Eshwar, A.K., Nguyen, S.V., Andrews, N., Moura, A., Fox, E.M., Jordan, K., Lehner, A., Stephan, R., Fanning, S. 2019. Whole-genome sequencing-based characterization of 100 Listeria monocytogenes isolates collected from food processing environments over a four-year period. mSphere. 4(4):e00252-19. https://doi.org/10.1128/mSphere.00252-19.

Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis - (Proceedings)
Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis. Proceedings of the ASMS Conference on Mass Spectrometry and Allied Topics, June 2 - 6, 2019, Atlanta, GA. ID 297530 (ThP 536).

Draft genome sequences of Shiga toxin-producing Escherichia coli O157:H7 strains recovered from a major production region for leafy greens in California Reprint Icon - (Peer Reviewed Journal)
Quiñones, B., Yambao, J.C., Silva, C.J., Lee, B.G. 2019. Draft genome sequences of Shiga toxin-producing Escherichia coli O157:H7 strains recovered from a major production region for leafy greens in California. Microbiology Resource Announcements. 8(27):e00644-19. https://doi.org/10.1128/MRA.00644-19.

Comparative genomics and genome biology of Campylobacter showae Reprint Icon - (Peer Reviewed Journal)
Hsu, T., Gemmell, M.R., Franzosa, E., Berry, S., Mukhopadhya, I., Hansen, R., Michaud, M., Nielsen, H., Miller, W.G., Nielsen, H., Bajaj-Elliott, M., Huttenhower, C., Garrett, W.S., Hold, G.L. 2019. Comparative genomics and genome biology of Campylobacter showae. Emerging Microbes & Infections. 8(1):827-840. https://doi.org/10.1080/22221751.2019.1622455.

The Campylobacter jejuni helical to coccoid transition involves changes to peptidoglycan and ability to elicit an immune response Reprint Icon - (Peer Reviewed Journal)
Frirdich, E., Biboy, J., Pryjma, M., Lee, J., Huynh, S., Parker, C., Girardin, S.E., Vollmer, W., Gaynor, E.C. 2019. The Campylobacter jejuni helical to coccoid transition involves changes to peptidoglycan and ability to elicit an immune response. Molecular Microbiology. 112(1):280-301. https://doi.org/10.1111/mmi.14269.

Top-down and middle-down proteomic analysis of Shiga toxin using MALDI-TOF-TOF mass spectrometry Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J. 2019. Top-down and middle-down proteomic analysis of Shiga toxin using MALDI-TOF-TOF mass spectrometry. MethodsX. 6:815-826. https://doi.org/10.1016/j.mex.2019.04.011.

Top-down (and middle-down) proteomics of bacterial proteins and toxins using MALDI-TOF-TOF-MS/MS - (Proceedings)
Fagerquist, C.K. 2019. Top-down (and middle-down) proteomics of bacterial proteins and toxins using MALDI-TOF-TOF-MS/MS. Meeting Proceedings. Mass Spectrometry: Application to the Clinical Lab 2019, March 31-April 4, 2019, Palm Springs, CA.

Campylobacter jejuni demonstrates conserved proteomic and transcriptomic responses when co-cultured with human INT 407 and Caco-2 epithelial cells Reprint Icon - (Peer Reviewed Journal)
Negretti, N.M., Clair, G., Gourley, C.R., Huynh, S., Adkins, J.N., Parker, C., Konkel, M.E. 2019. Campylobacter jejuni demonstrates conserved proteomic and transcriptomic responses when co-cultured with human INT 407 and Caco-2 epithelial cells. Frontiers in Microbiology. 10:755. https://doi.org/10.3389/fmicb.2019.00755.

Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis - (Abstract Only)
Fagerquist, C.K., Zaragoza, W.J., Carter, M.Q. 2019. Typing/subtyping Shiga toxin from pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry and top-down proteomic analysis [abstract]. 67th ASMS Conference on Mass Spectrometry and Allied Topics, June 2-6, 2019, Atlanta, GA.

The effect of asparagine and the aspartic acid fragmentation mechanism on post-source decay of intact Shiga toxin (Stx) from Shiga toxin-producing Escherichia coli (STEC) using MALDI-TOF-TOF mass spectrometry - (Abstract Only)
Fagerquist, C.K., Zaragoza, W.J. 2019. The effect of asparagine and the aspartic acid fragmentation mechanism on post-source decay of intact Shiga toxin (Stx) from Shiga toxin-producing Escherichia coli (STEC) using MALDI-TOF-TOF mass spectrometry [abstract]. Mass Spectrometry: Application to the Clinical Lab 2019, March 31-April 4, 2019, Palm Springs, CA.

Software for top-down proteomic identification of a plasmid-borne factor (and other proteins) from genomically sequenced pathogenic bacteria using MALDI-TOF-TOF-MS/MS and post-source decay Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Lee, B.G., Zaragoza, W.J., Yambao, J.C., Quiñones, B. 2018. Software for top-down proteomic identification of a plasmid-borne factor (and other proteins) from genomically sequenced pathogenic bacteria using MALDI-TOF-TOF-MS/MS and post-source decay. International Journal of Mass Spectrometry. 438:1-12. https://doi.org/10.1016/j.ijms.2018.12.006.

Clinically-relevant Shiga toxin 2 subtypes from environmental Shiga toxin-producing Escherichia coli identified by top-down/middle-down proteomics and DNA sequencing Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J., Lee, B.G., Yambao, J.C., Quiñones, B. 2018. Clinically-relevant Shiga toxin 2 subtypes from environmental Shiga toxin-producing Escherichia coli identified by top-down/middle-down proteomics and DNA sequencing. Clinical Mass Spectrometry. 11:27-36. https://doi.org/10.1016/j.clinms.2018.12.001.

Proteolytic surface-shaving and serotype-dependent expression of SPI-1 invasion proteins in Salmonella enterica subspecies enterica Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J. 2018. Proteolytic surface-shaving and serotype-dependent expression of SPI-1 invasion proteins in Salmonella enterica subspecies enterica. Frontiers in Nutrition. 5:124. https://doi.org/10.3389/fnut.2018.00124.

Complete genome sequences of the Arcobacter cryaerophilus strains ATCC 43158T and ATCC 49615 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequences of the Arcobacter cryaerophilus strains ATCC 43158T and ATCC 49615. Microbiology Resource Announcements. 7(20):e01463-18. https://doi.org/10.1128/MRA.01463-18.

Current (and future) applications of MALDI mass spectrometry in the identification and characterization of clinically-relevant microorganisms for research, clinical and regulatory laboratories - (Proceedings)
Fagerquist, C.K. 2019. Current (and future) applications of MALDI mass spectrometry in the identification and characterization of clinically-relevant microorganisms for research, clinical and regulatory laboratories. Meeting Proceedings. ASM Microbe 2019, June 20-24, 2019, San Francisco, CA.

Molecular epidemiology and antimicrobial resistance mechanisms of Campylobacter coli from diarrheal patients and broiler carcasses in Belgium Reprint Icon - (Peer Reviewed Journal)
Elhadidy, M., Miller, W.G., Arguello, H., Álvarez-Ordóñez, A., Dierick, K., Botteldoorn, N. 2018. Molecular epidemiology and antimicrobial resistance mechanisms of Campylobacter coli from diarrheal patients and broiler carcasses in Belgium. Transboundary and Emerging Diseases. 66:463-475. https://doi.org/10.1111/tbed.13046.

Complete genome sequence of the Arcobacter skirrowii type strain LMG 6621 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E. 2018. Complete genome sequence of the Arcobacter skirrowii type strain LMG 6621. Microbiology Resource Announcements. 7(17):e01308-18. https://doi.org/10.1128/MRA.01308-18.

Complete genome sequence of the Arcobacter suis type strain LMG 26152 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter suis type strain LMG 26152. Microbiology Resource Announcements. 7(17):e01307-18. https://doi.org/10.1128/MRA.01307-18.

Complete genome sequence of the Arcobacter marinus type strain JCM 15502 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Huynh, S., Parker, C. 2018. Complete genome sequence of the Arcobacter marinus type strain JCM 15502. Microbiology Resource Announcements. 7(16):e01269-18. https://doi.org/10.1128/MRA.01269-18.

Complete genome sequence of the Arcobacter ellisii type strain LMG 26155 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter ellisii type strain LMG 26155. Microbiology Resource Announcements. 7(16):e01268-18. https://doi.org/10.1128/MRA.01268-18.

Complete genome sequence of the Arcobacter molluscorum type strain LMG 25693 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter molluscorum type strain LMG 25693. Microbiology Resource Announcements. 7(16):e01293-18. https://doi.org/10.1128/MRA.01293-18.

Complete genome sequence of the Arcobacter halophilus type strain CCUG 53805 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter halophilus type strain CCUG 53805. Microbiology Resource Announcements. 7(14):e01077-18. https://doi.org/10.1128/MRA.01077-18.

Complete genome sequence of the Arcobacter trophiarum type strain LMG 25534 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E. 2018. Complete genome sequence of the Arcobacter trophiarum type strain LMG 25534. Microbiology Resource Announcements. 7(13):e01110-18. https://doi.org/10.1128/MRA.01110-18.

Relation between broiler and human C. jejuni strains isolated in Belgium from 2011 to 2013 Reprint Icon - (Peer Reviewed Journal)
Duarte, A., Botteldoorn, N., Miller, W.G., Coucke, W., Martiny, D., Hallin, M., Seliwiorstow, T., De Zutter, L., Uyttendaele, M., Vandenberg, O., Dierick, K. 2018. Relation between broiler and human C. jejuni strains isolated in Belgium from 2011 to 2013. Journal of Applied Microbiology. 126:277-287. https://doi.org/10.1111/jam.14132.

Complete genome sequence of the Arcobacter bivalviorum type strain LMG 26154 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter bivalviorum type strain LMG 26154. Microbiology Resource Announcements. 7(12):e01076-18. https://doi.org/10.1128/MRA.01076-18.

Complete genome sequence of the Arcobacter mytili type strain LMG 24559 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2018. Complete genome sequence of the Arcobacter mytili type strain LMG 24559. Microbiology Resource Announcements. 7(11):e01078-18. https://doi.org/10.1128/MRA.01078-18.

Draft genome sequences of nine Campylobacter hyointestinalis subsp. lawsonii strains Reprint Icon - (Peer Reviewed Journal)
Bian, X., Huynh, S., Chapman, M.H., Szymanski, C., Parker, C., Miller, W.G. 2018. Draft genome sequences of nine Campylobacter hyointestinalis subsp. lawsonii strains. Microbiology Resource Announcements. 7(10):e01016-18. https://doi.org/10.1128/MRA.01016-18.

Multi-drug resistant Escherichia coli in diarrhoeagenic foals: pulsotyping, phylotyping, serotyping, antibiotic resistance and virulence profiling Reprint Icon - (Peer Reviewed Journal)
Kennedy, C., Walsh, C., Karczmarczyk, M., O’Brien, S., Akasheh, N., Quirke, M., Farrell-Ward, S., Buckley, T., Fogherty, U., Kavanagh, K., Parker, C., Sweeney, T., Fanning, S. 2018. Multi-drug resistant Escherichia coli in diarrhoeagenic foals: pulsotyping, phylotyping, serotyping, antibiotic resistance and virulence profiling. Veterinary Microbiology. 223:144-152. https://doi.org/10.1016/j.vetmic.2018.08.009.

Complete genome sequence of Acinetobacter radioresistens strain LH6, a multidrug-resistant bacteriophage-propagating strain Reprint Icon - (Peer Reviewed Journal)
Crippen, C., Huynh, S., Miller, W.G., Parker, C., Szymanski, C.M. 2018. Complete genome sequence of Acinetobacter radioresistens strain LH6, a multidrug-resistant bacteriophage-propagating strain. Microbiology Resource Announcements. 7(5):e00929-18. https://doi.org/10.1128/MRA.00929-18.

Proximity to other commercial turkey farms affects colonization onset, genotypes and antimicrobial resistance profiles of Campylobacter in turkeys: suggestive evidence from a paired-farm model Reprint Icon - (Peer Reviewed Journal)
Niedermeyer, J., Ring, L., Miller, W.G., Genger, S., Parr Lindsey, C., Osborne, J., Kathariou, S. 2018. Proximity to other commercial turkey farms affects colonization onset, genotypes and antimicrobial resistance profiles of Campylobacter in turkeys: suggestive evidence from a paired-farm model. Applied and Environmental Microbiology. 84(18):e01212-18. https://doi.org/10.1128/AEM.01212-18.

Lack of evidence for erm(B) infiltration into Erythromycin-resistant Campylobacter coli and Campylobacter jejuni from commercial turkey production in eastern North Carolina: a major turkey-growing region in the United State Reprint Icon - (Peer Reviewed Journal)
Bolinger, H.K., Zhang, Q., Miller, W.G., Kathariou, S. 2018. Lack of evidence for erm(B) infiltration into Erythromycin-resistant Campylobacter coli and Campylobacter jejuni from commercial turkey production in eastern North Carolina: a major turkey-growing region in the United States. Foodborne Pathogens and Disease. 15(11):698-700. https://doi.org/10.1089/fpd.2018.2477.

Top-down proteomic identification of a novel antibiotic-induced plasmid-encoded factor from Shiga toxin-producing Escherichia coli (STEC) using MALDI-TOF-TOF-MS/MS and post-source decay - (Proceedings)
Fagerquist, C.K., Lee, B.G., Zaragoza, W.J., Yambao, J.C., Quinones, B. 2018. Top-down proteomic identification of a novel antibiotic-induced plasmid-encoded factor from Shiga toxin-producing Escherichia coli (STEC) using MALDI-TOF-TOF-MS/MS and post-source decay. Proceedings for 66th Conference on Mass Spectrometry and Allied Topics, June 3-7, 2018, San Diego, California.

Genome sequences of eight Shiga toxin-producing Escherichia coli strains isolated from a produce-growing region in California Reprint Icon - (Peer Reviewed Journal)
Parker, C., Cooper, K.K., Huynh, S., Smith, T.P., Bono, J.L., Cooley, M.B. 2018. Genome sequences of eight Shiga toxin-producing Escherichia coli strains isolated from a produce-growing region in California. Genome Announcements. 7(1):1-3. https://doi.org/10.1128/MRA.00807-18.

Complete genome sequence of Campylobacter jejuni strain 12567 a livestock-associated clade representative Reprint Icon - (Peer Reviewed Journal)
Sacher, J.C., Yee, E., Szymanski, C.M., Miller, W.G. 2018. Complete genome sequence of Campylobacter jejuni strain 12567 a livestock-associated clade representative. Genome Announcements. 6(24):e00513-18. https://doi.org/10.1128/genomeA.00513-18.

Complete genome sequences of three Campylobacter jejuni phage-propagating strains Reprint Icon - (Peer Reviewed Journal)
Sacher, J.C., Yee, E., Szymanski, C.M., Miller, W.G. 2018. Complete genome sequences of three Campylobacter jejuni phage-propagating strains. Genome Announcements. 6(24):e00514-18. https://doi.org/10.1128/genomeA.00514-18.

Genetic basis and clonal population structure of antibiotic resistance in Campylobacter jejuni isolated from broiler carcasses in Belgium Reprint Icon - (Peer Reviewed Journal)
Elhadidy, M., Miller, W.G., Arguello, H., Álvarez-Ordóñez, A., Duarte, A., Dierick, K., Botteldoorn, N. 2018. Genetic basis and clonal population structure of antibiotic resistance in Campylobacter jejuni isolated from broiler carcasses in Belgium. Frontiers in Microbiology. 9:1014. https://doi.org/10.3389/fmicb.2018.01014.

Orthogonal typing methods identify genetic diversity among Belgian Campylobacter jejuni strains isolated over a decade from poultry and cases of sporadic human illness Reprint Icon - (Peer Reviewed Journal)
Elhadidy, M., Arguello, H., Álvarez-Ordóñez, A., Miller, W.G., Duarte, A., Martiny, D., Hallin, M., Vandenberg, O., Dierick, K., Botteldoorn, N. 2018. Orthogonal typing methods identify genetic diversity among Belgian Campylobacter jejuni strains isolated over a decade from poultry and cases of sporadic human illness. International Journal of Food Microbiology. 275:66-75. https://doi.org/10.1016/j.ijfoodmicro.2018.04.004.

Possible mistranslation of Shiga toxin from pathogenic Escherichia coli as measured by MALDI-TOF and Orbitrap mass spectrometry Reprint Icon - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J. 2018. Possible mistranslation of Shiga toxin from pathogenic Escherichia coli as measured by MALDI-TOF and Orbitrap mass spectrometry. Journal of Analytical & Bioanalytical Techniques. 9(2):1000400. https://doi.org/10.4172/2155-9872.1000400.

Low prevalence of human pathogens on fresh produce on farms and in packing facilities Reprint Icon - (Peer Reviewed Journal)
Van Pelt, A., Quinones, B., Lofgren, H., Bartz, F., Newman, K., Leon, J. 2018. Low prevalence of human pathogens on fresh produce on farms and in packing facilities. FRONTIERS IN PUBLIC HEALTH. https://doi.org/10.3389/fpubh.2018.00040.

Cellular recovery from exposure to sub-optimal concentrations of AB toxins that inhibit protein synthesis Reprint Icon - (Peer Reviewed Journal)
Cherubin, P., Quinones, B., Teter, K. 2018. Cellular recovery from exposure to sub-optimal concentrations of AB toxins that inhibit protein synthesis. Scientific Reports. https://doi.org/10.1038/s41598-018-20861-9.

Catabolite repression by intracellular succinate in Campylobacter jejuni Reprint Icon - (Peer Reviewed Journal)
Van Der Stel, A., Van De Lest, C.H., Huynh, S., Parker, C., Van Putten, J.M., Wösten, M.M. 2018. Catabolite repression by intracellular succinate in Campylobacter jejuni. Environmental Microbiology. https://doi.org/10.1111/1462-2920.14042.

MALDI-TOF-TOF tandem mass spectrometry (MS/MS) for rapid top-down proteomic identification of bacterial proteins and toxins - (Proceedings)
Fagerquist, C.K. 2018. MALDI-TOF-TOF tandem mass spectrometry (MS/MS) for rapid top-down proteomic identification of bacterial proteins and toxins. Meeting Proceedings. In: Application to the Clinical Lab 2018. January 21-25, 2018, Palm Springs, CA.

Complete genomic sequences of two salmonella enterica subsp. enterica serogroup C2 (O:6,8) strains from central California Reprint Icon - (Peer Reviewed Journal)
Gorski, L.A., Huynh, S., Cooper, K.K., Parker, C. 2017. Complete genomic sequences of two salmonella enterica subsp. enterica serogroup C2 (O:6,8) strains from central California. Genome Announcements. 5:e01234-17. https://doi.org/10.1128/genomeA.01234-17.

International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Campylobacter and Related Bacteria. Minutes of the Meetings, September 15th and 18th 2013, Aberdeen, Scotland - (Proceedings)

International Committee on Systematics of Prokaryotes. Subcommittee on the taxonomy of Campylobacter and related bacteria. Minutes of the Meeting, August 27 2011, Vancouver, Canada. - (Proceedings)

Draft genome sequences of Escherichia coli O113:H21 strains recovered from a major produce-production region in California Reprint Icon - (Peer Reviewed Journal)
Quinones, B., Yambao, J.C., Lee, B.G. 2017. Draft genome sequences of Escherichia coli O113:H21 strains recovered from a major produce-production region in California. Genome Announcements. https://doi.org/10.1128/genomeA.01203-17.

Complete genome sequence of the hippuricase-positive Campylobacter avium type strain LMG 24591 Reprint Icon - (Peer Reviewed Journal)
Miller, W.G., Chapman, M.H., Yee, E., Revez, J., Bono, J.L., Rossi, M. 2017. Complete genome sequence of the hippuricase-positive Campylobacter avium type strain LMG 24591. Genome Announcements. 5(43):e01221-17. https://doi.org/10.1128/genomeA.01221-17.

Sensitive genotyping of foodborne-associated human noroviruses and hepatitis A virus using an array-based platform Reprint Icon - (Peer Reviewed Journal)
Quinones, B., Lee, B.G., Martinsky, T.J., Yambao, J.C., Haje, P.K., Schena, M. 2017. Sensitive genotyping of foodborne-associated human noroviruses and hepatitis A virus using an array-based platform. Sensors. 17(9):2157. https://doi.org/10.3390/s17092157.

Minimal standards for describing new species belonging to the families Campylobacteraceae and Helicobacteraceae: Campylobacter, Arcobacter, Helicobacter and Wolinella spp Reprint Icon - (Peer Reviewed Journal)
On, S.L., Miller, W.G., Houf, K., Fox, J.G., Vandamme, P. 2017. Minimal standards for describing new species belonging to the families Campylobacteraceae and Helicobacteraceae: Campylobacter, Arcobacter, Helicobacter and Wolinella spp. International Journal of Systematic and Evolutionary Microbiology. 67:5296-5311. doi:10.1099/ijsem.0.002255.

Isolation, genotyping, and antimicrobial resistance of zoonotic shiga toxin-producing escherichia coli Reprint Icon - (Review Article)
Amézquita-López, B.A., Soto-Beltrán, M., Lee, B.G., Yambao, J.C., Quinones, B. 2017. Isolation, genotyping, and antimicrobial resistance of zoonotic shiga toxin-producing escherichia coli. Journal of Microbiology, Immunology. 51(4):425-434. https://doi.org/10.1016/j.jmii.2017.07.004.

Comparative genomics of all three Campylobacter sputorum biovars and a novel cattle-associated C. sputorum clade - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Chapman, M.H., Bono, J.L. 2017. Comparative genomics of all three Campylobacter sputorum biovars and a novel cattle-associated C. sputorum clade. Genome Biology and Evolution. 9(6): 1513-1518.

Generation of the membrane potential and its impact on the motility, ATP production and growth in Campylobacter jejuni Reprint Icon - (Peer Reviewed Journal)
Van Der Stel, A., Boogerd, F.C., Huynh, S., Parker, C., Van Putten, J.P., Wösten, M.M. 2017. Generation of the membrane potential and its impact on the motility, ATP production and growth in Campylobacter jejuni. Molecular Microbiology. 105:637-651. https://doi:10.1111/mmi.13723.

Translational errors in expression of Shiga toxin from pathogenic Escherichia coli as measured by MALDI-TOF-TOF and Orbitrap mass spectrometry - (Proceedings)
Fagerquist, C.K., Zaragoza, W.J. 2017. Translational errors in expression of Shiga toxin from pathogenic Escherichia coli as measured by MALDI-TOF-TOF and Orbitrap mass spectrometry. Meeting Proceedings. June 4-8, 2017.

Local genes for local bacteria: Evidence of allopatry in the genomes of transatlantic Campylobacter populations - (Peer Reviewed Journal)
Pascoe, B., Meric, G., Yahar, K., Wimaralathna, H., Murray, S., Hitchings, M.D., Sproston, E.L., Carrillo, C.D., Taboada, E.N., Cooper, K.K., Huynh, S., Cody, A., Jolley, K.A., Maiden, M.J., McCarthy, N., Didelot, X., Parker, C., Sheppard, S.K. 2017. Local genes for local bacteria: evidence of allopatry in the genomes of transatlantic Campylobacter populations. Molecular Ecology Resources. doi: 10.1111/mec.14176.

Comparative genomic analysis identifies a Campylobacter clade deficient in selenium metabolism - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Lopes, B.S., Chapman, M.H., Huynh, S., Bono, J.L., Parker, C., Strachan, N., Forbes, K.J. 2017. Comparative genomic analysis identifies a Campylobacter clade deficient in selenium metabolism. Genome Biology and Evolution. doi: 10.1093/gbe/evx093.

Complete genome sequence of the Campylobacter cuniculorum type strain LMG 24588 - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Revez, J., Bono, J.L., Rossi, M. 2017. Complete genome sequence of the Campylobacter cuniculorum type strain LMG 24588. Genome Announcements. 5:e00543-17.

Microbiota-derived short-chain fatty acids modulate expression of Campylobacter jejuni determinants required for commensalism and virulence - (Peer Reviewed Journal)
Leuthy, P.M., Huynh, S., Ribardo, D.A., Winter, S.E., Parker, C., Hendrixson, D.R. 2017. Microbiota-derived short-chain fatty acids modulate expression of Campylobacter jejuni determinants required for commensalism and virulence. mBio. 8(3):e00407-17. doi:10.1128/mBio.00407-17.

Complete genome sequence of the Campylobacter helveticus type strain ATCC 51209T - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Bono, J.L. 2017. Complete genome sequence of the Campylobacter helveticus type strain ATCC 51209T. Genome Announcements. 5(21): e00398-17.

Morphology heterogeneity within a Campylobacter jejuni helical population Reprint Icon - (Peer Reviewed Journal)
Frirdich, E., Biboy, J., Huynh, S., Parker, C., Vollmer, W., Gaynor, E. 2017. Morphology heterogeneity within a Campylobacter jejuni helical population. Molecular Microbiology. 104(6):948-971. https://doi.org/10.1111/mmi.13672.

Molecular sequence typing reveals genotypic diversity among Escherichia coli isolates recovered from a cantaloupe packinghouse in Northwestern Mexico - (Peer Reviewed Journal)
Quinones, B., Campos-Sauceda, J.P., Lee, B.G., Yambao, J.C., Chaidez, C. 2017. Molecular sequence typing reveals genotypic diversity among Escherichia coli isolates recovered from a cantaloupe packinghouse in Northwestern Mexico. Letters in Applied Microbiology. doi: 10.1111/lam.12733.

Overcoming the challenges of safely quantifying and distinguishing among Shiga toxins in complex media and human serum - (Abstract Only)
Silva, C.J., Erickson-Beltran, M.L., Skinner, C.B., Patfield, S.A., He, X., Wu, V.C. 2017. Overcoming the challenges of safely quantifying and distinguishing among Shiga toxins in complex media and human serum. Meeting Abstract. Poster. ARS-FSIS 2017 meeting.

Campylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov. - (Peer Reviewed Journal)
Gilbert, M.J., Miller, W.G., St. Leger, J., Chapman, M.H., Timmerman, A.J., Foster, G., Wagenaar, J.A. 2017. Campylobacter pinnipediorum sp. nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov.. International Journal of Systematic and Evolutionary Microbiology. doi:10.1099/ijemo.001894.

Complementary b/y fragment ion pairs from post-source decay of metastable YahO for calibration of MALDI-TOF-TOF-MS/MS - (Peer Reviewed Journal)
Fagerquist, C.K., Zaragoza, W.J. 2017. Complementary b/y fragment ion pairs from post-source decay of metastable YahO for calibration of MALDI-TOF-TOF-MS/MS. International Journal of Mass Spectrometry. 415:29-37.

A cell-based fluorescent assay to detect the activity of AB toxins that inhibit protein synthesis - (Peer Reviewed Journal)
Cherubin, P., Quinones, B., Elkahoui, S., Yokoyama, W.H., Teter, K. 2017. A cell-based fluorescent assay to detect the activity of AB toxins that inhibit protein synthesis. Methods in Molecular Biology. 1600:25-26. doi:10.1007/978-1-4939-6958-6_3.

Complete genomic sequence of campylobacter jejuni subsp. jejuni HS:19 penner reference strain - (Peer Reviewed Journal)
Parker, C., Huynh, S., Heikema, A.P. 2017. Complete genomic sequence of campylobacter jejuni subsp. jejuni HS:19 penner reference strain. Genome Announcements. 5(8):e01701-16. doi: 10.1128/genomeA.01701-16.

Detecting and distinguishing among type 1 and type 2 Shiga toxins in human serum - (Abstract Only)
Silva, C.J., Erickson-Beltran, M.L., Skinner, C.B., Patfield, S.A., He, X. 2017. Detecting and distinguishing among type 1 and type 2 Shiga toxins in human serum. Abstracts of the Papers of the American Chemical Society. 253:234-AGFD.

The complete annotated genome sequences of three Campylobacter jejuni strains isolated from naturally colonized, farm raised chickens - (Peer Reviewed Journal)
Taveirne, M.E., Dunham, D.T., Perault, A., Beauchamp, J.M., Huynh, S., Parker, C., Dirita, V.J. 2017. The complete annotated genome sequences of three Campylobacter jejuni strains isolated from naturally colonized, farm raised chickens. Genome Announcements. 5(4):e01407-16. doi:10.1128/genomeA.01407-16.

Unlocking the proteomic information encoded in MALDI-TOF-MS data used for microbial identification and characterization - (Review Article)
Fagerquist, C.K. 2017. Unlocking the proteomic information encoded in MALDI-TOF-MS data used for microbial identification and characterization. Expert Review of Proteomics. 14(1):97-107.

Inhibition of cholera toxin and other AB toxins by polyphenolic compounds - (Peer Reviewed Journal)
Cherubin, P., Garcia, M.C., Curtis, D., Britt, C.B., Craft Jr., J.W., Burress, H., Berndt, C., Reddy, S., Guyette, J., Zheng, T., Huo, Q., Quinones, B., Briggs, J.M., Teter, K. 2016. Inhibition of cholera toxin and other AB toxins by polyphenolic compounds. PLoS One. doi:10.1371/journal.pone.0166477.

Shiga toxins: a review of structure, mechanism, and detection - (Book / Chapter)
Silva, C.J., Brandon, D.L., Skinner, C.B., He, X. 2017. Shiga Toxins: a Review of Structure, Mechanism, and Detection. Cham, Switzerland: Springer International Publishing. 118 p.

Complete genome sequences of multidrug-resistant Campylobacter jejuni 14980A (turkey feces) and Campylobacter coli 14983A (housefly from turkey farm), harboring a novel gentamicin resistance mobile element. - (Peer Reviewed Journal)
Miller, W.G., Huynh, S., Parker, C., Neidermayer, J., Kathariou, S. 2016. Complete genome sequences of multidrug-resistant Campylobacter jejuni 14980A (turkey feces) and Campylobacter coli 14983A (housefly from turkey farm), harboring a novel gentamicin resistance mobile element. Genome Announcements. 4(5):e01175-16. doi:10.1128/genomeA.01175-16.

Complete genomic sequence of Campylobacter jejuni subsp. jejuni HS:19 strain RM1285 that was isolated from packaged chicken - (Peer Reviewed Journal)
Parker, C., Huynh, S., Heikema, A.P. 2016. Complete genomic sequence of Campylobacter jejuni subsp. jejuni HS:19 strain RM1285 that was isolated from packaged chicken. Genome Announcements. 4(5):e01100-16.

Shiga toxin-producing escherichia coli: detection, differentiation, and implications for food safety - (Monograph)
Zaragoza, W.J., Teplitski, M., Fagerquist, C.K. 2016. Shiga toxin-producing escherichia coli: detection, differentiation, and implications for food safety. Extension Digital Information Source (EDIS). SL440, pages 1-6.

YahO protein as a calibrant for top-down proteomic identification of Shiga toxin using MALDI-TOF-TOF-MS/MS and post-source decay - (Proceedings)
Fagerquist, C.K., Zaragoza, W.J. 2016. YahO protein as a calibrant for top-down proteomic identification of Shiga toxin using MALDI-TOF-TOF-MS/MS and post-source decay. Proceedings of the ASMS Conference on Mass Spectrometry and Allied Topics. 280941 MP 719.

Complete genome sequence of the Campylobacter iguaniorum strain RM11343, isolated from an alpaca - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Huynh, S., Chapman, M.H., Parker, C. 2016. Complete genome sequence of the Campylobacter iguaniorum strain RM11343, isolated from an alpaca. Genome Announcements. 4(3):e00646-16.

Complete genome sequences of Campylobacter hyointestinalis subsp. hyointestinalis strain LMG9260 and Campylobacter hyointestinalis subsp. lawsonii strain LMG15993 - (Peer Reviewed Journal)
Miller, W.G., Yee, E., Chapman, M.H. 2016. Complete genome sequences of Campylobacter hyointestinalis subsp. hyointestinalis strain LMG9260 and Campylobacter hyointestinalis subsp. lawsonii strain LMG15993. Genome Announcements. 4(4):e00665-16.