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Brown P, Murray RGE, Galsworthy S, Ivanova M, Leekitcharoenphon P, Ward T, Kucerova Z, Chen Y, Elhanafi D, Siletzky R, Kathariou S. Draft genome sequences of a historical collection of Listeria monocytogenes from humans and other sources, 1926-1964. Microbiol Resour Announc 2023; 12:e0062523. [PMID: 37772827 PMCID: PMC10586164 DOI: 10.1128/mra.00625-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2023] [Accepted: 08/09/2023] [Indexed: 09/30/2023] Open
Abstract
Listeria monocytogenes can persistently contaminate food processing environments and tolerate sanitizers. Most sequenced strains are from clinical and environmental sources in the contemporary era, with relatively few prior to extensive food processing and sanitizer use. We report the genome sequences of a diverse panel of 83 strains from 1926 to 1964.
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Affiliation(s)
- Phillip Brown
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| | - Robert G. E. Murray
- Department of Microbiology and Immunology, University of Western Ontario, London, Ontario, Canada
| | - Sara Galsworthy
- Department of Microbiology and Immunology, University of Western Ontario, London, Ontario, Canada
| | - Mirena Ivanova
- Research Group for Genomic Epidemiology, National Food Institute,Technical University of Denmark, Lyngby, Denmark
| | - Pimlapas Leekitcharoenphon
- Research Group for Genomic Epidemiology, National Food Institute,Technical University of Denmark, Lyngby, Denmark
| | - Todd Ward
- U.S. Department of Agriculture, Agricultural Research Service, Peoria, Illinois, USA
| | - Zuzana Kucerova
- Centers for Disease Control and Prevention (CDC), EDLB/DFWED, Atlanta, Georgia, USA
| | - Yi Chen
- Division of Microbiology, Center for Food Safety and Applied Nutrition, Food and Drug Administration, College Park, Maryland, USA
| | - Driss Elhanafi
- Biomanufacturing Training and Education Center, North Carolina State University, Raleigh, North Carolina, USA
| | - Robin Siletzky
- Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State University, Raleigh, North Carolina, USA
| | - Sophia Kathariou
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
- Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State University, Raleigh, North Carolina, USA
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Brown P, Chen Y, Siletzky R, Parsons C, Jaykus LA, Eifert J, Ryser E, Logue CM, Stam C, Brown E, Kathariou S. Harnessing Whole Genome Sequence Data for Facility-Specific Signatures for Listeria monocytogenes: A Case Study With Turkey Processing Plants in the United States. Front Sustain Food Syst 2021. [DOI: 10.3389/fsufs.2021.742353] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Listeria monocytogenes is a Gram-positive foodborne pathogen responsible for the severe disease listeriosis and notorious for its ability to persist in food processing plants, leading to contamination of processed, ready-to-eat foods. L. monocytogenes persistence in various food processing environments (FPEs) has been extensively investigated by various subtyping tools, with increasing use of whole genome sequencing (WGS). However, major knowledge gaps remain. There is a need for facility-specific molecular signatures not only for adequate attribution of L. monocytogenes to a specific FPE but also for improved understanding of the ecology and evolution of L. monocytogenes in the food processing ecosystem. Furthermore, multiple strains can be recovered from a single FPE sample, but their diversity can be underestimated with common molecular subtyping tools. In this study we investigated a panel of 54 L. monocytogenes strains from four turkey processing plants in the United States. A combination of WGS and phenotypic assays was employed to assess strain persistence as well as identify facility-specific molecular signatures. Comparative analysis of allelic variation across the whole genome revealed that allelic profiles have the potential to be specific to individual processing plants. Certain allelic profiles remained associated with individual plants even when closely-related strains from other sources were included in the analysis. Furthermore, for certain sequence types (STs) based on the seven-locus multilocus sequence typing scheme, presence and location of premature stop codons in inlA, inlB length, prophage sequences, and the sequence content of a genomic hotspot could serve as plant-specific signatures. Interestingly, the analysis of different isolates from the same environmental sample revealed major differences not only in serotype and ST, but even in the sequence content of strains of the same ST. This study highlights the potential for WGS data to be deployed for identification of facility-specific signatures, thus facilitating the tracking of strain movement through the food chain. Furthermore, deployment of WGS for intra-sample strain analysis allows for a more complete environmental surveillance of L. monocytogenes in food processing facilities, reducing the risk of failing to detect strains that may be clinically relevant and potentially novel.
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Newton ER, Gillis DC, Sun K, Dandurand BR, Siletzky R, Biswas S, Karver MR, Tsihlis ND, Stupp SI, Kibbe MR. Evaluation of a Targeted Drug‐Eluting Intravascular Nanotherapy to Prevent Neointimal Hyperplasia in an Atherosclerotic Rat Model. Adv NanoBio Res 2021. [DOI: 10.1002/anbr.202000093] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Affiliation(s)
- Emily R. Newton
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - David C. Gillis
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - Kui Sun
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - Brooke R. Dandurand
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - Robin Siletzky
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - Suvendu Biswas
- Simpson Querrey Institute Northwestern University Chicago IL 60611 USA
| | - Mark R. Karver
- Simpson Querrey Institute Northwestern University Chicago IL 60611 USA
| | - Nick D. Tsihlis
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
| | - Samuel I. Stupp
- Simpson Querrey Institute Northwestern University Chicago IL 60611 USA
- Department of Medicine Northwestern University Chicago IL 60611 USA
- Departments of Chemistry Materials Science and Engineering Biomedical Engineering Northwestern University Evanston IL 60208 USA
| | - Melina R. Kibbe
- Department of Surgery Center for Nanotechnology in Drug Delivery University of North Carolina at Chapel Hill Burnett Womack Suite 4041, 101 Manning Drive Chapel Hill NC 27599-7050 USA
- Department of Biomedical Engineering University of North Carolina at Chapel Hill Chapel Hill NC 27599 USA
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Li F, Bahnson EM, Wilder J, Siletzky R, Hagaman J, Nickekeit V, Hiller S, Ayesha A, Feng L, Levine JS, Takahashi N, Maeda-Smithies N. Corrigendum to "Oral high dose vitamin B12 decreases renal superoxide and post-ischemia/reperfusion injury in mice" Redox Biol; 32 (2020): 101504, doi: 10.1016/j.redox.2020.101504, PMID: 32182573. Redox Biol 2021; 44:102023. [PMID: 34082383 DOI: 10.1016/j.redox.2021.102023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022] Open
Affiliation(s)
- Feng Li
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA.
| | - Edward M Bahnson
- Department of Surgery, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Jennifer Wilder
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Robin Siletzky
- Department of Surgery, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - John Hagaman
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Volker Nickekeit
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA; Division of Nephropathy, School of Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Sylvia Hiller
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Azraa Ayesha
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Lanfei Feng
- Section of Nephrology, Department of Medicine, University of Illinois at Chicago and Jesse Brown Veterans Affairs Medical Center, Chicago, IL, 60612, USA
| | - Jerrold S Levine
- Section of Nephrology, Department of Medicine, University of Illinois at Chicago and Jesse Brown Veterans Affairs Medical Center, Chicago, IL, 60612, USA
| | - Nobuyuki Takahashi
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA; Division of Clinical Pharmacology and Therapeutics, Tohoku University Graduate School, Sendai, Japan
| | - Nobuyo Maeda-Smithies
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
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Li F, Bahnson EM, Wilder J, Siletzky R, Hagaman J, Nickekeit V, Hiller S, Ayesha A, Feng L, Levine JS, Takahashi N, Maeda-Smithies N. Oral high dose vitamin B12 decreases renal superoxide and post-ischemia/reperfusion injury in mice. Redox Biol 2020; 32:101504. [PMID: 32182573 PMCID: PMC7078436 DOI: 10.1016/j.redox.2020.101504] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2020] [Revised: 02/27/2020] [Accepted: 03/09/2020] [Indexed: 01/25/2023] Open
Abstract
Renal ischemia/reperfusion injury (IRI) is a leading cause of acute kidney injury (AKI), a potentially fatal syndrome characterized by a rapid decline in kidney function. Excess production of superoxide contributes to the injury. We hypothesized that oral administration of a high dose of vitamin B12 (B12 - cyanocobalamin), which possesses a superoxide scavenging function, would protect kidneys against IRI and provide a safe means of treatment. Following unilateral renal IR surgery, C57BL/6J wild type (WT) mice were administered B12 via drinking water at a dose of 50 mg/L. After 5 days of the treatment, plasma B12 levels increased by 1.2-1.5x, and kidney B12 levels increased by 7-8x. IRI mice treated with B12 showed near normal renal function and morphology. Further, IRI-induced changes in RNA and protein markers of inflammation, fibrosis, apoptosis, and DNA damage response (DDR) were significantly attenuated by at least 50% compared to those in untreated mice. Moreover, the presence of B12 at 0.3 μM in the culture medium of mouse proximal tubular cells subjected to 3 hr of hypoxia followed by 1 hr of reperfusion in vitro showed similar protective effects, including increased cell viability and decreased reactive oxygen species (ROS) level. We conclude that a high dose of B12 protects against perfusion injury both in vivo and in vitro without observable adverse effects in mice and suggest that B12 merits evaluation as a treatment for I/R-mediated AKI in humans.
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Affiliation(s)
- Feng Li
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA.
| | - Edward M Bahnson
- Department of Surgery, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Jennifer Wilder
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Robin Siletzky
- Department of Surgery, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - John Hagaman
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Volker Nickekeit
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA; Division of Nephropathy, School of Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Sylvia Hiller
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Azraa Ayesha
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Lanfei Feng
- Section of Nephrology, Department of Medicine, University of Illinois at Chicago and Jesse Brown Veterans Affairs Medical Center, Chicago, IL, 60612, USA
| | - Jerrold S Levine
- Section of Nephrology, Department of Medicine, University of Illinois at Chicago and Jesse Brown Veterans Affairs Medical Center, Chicago, IL, 60612, USA
| | - Nobuyuki Takahashi
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA; Division of Clinical Pharmacology and Therapeutics, Tohoku University Graduate School, Sendai, Japan
| | - Nobuyo Maeda-Smithies
- Dept of Pathology and Laboratory Medicine, The University of North Carolina, Chapel Hill, NC, 27599, USA
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Vishnivetskaya TA, Siletzky R, Jefferies N, Tiedje JM, Kathariou S. Effect of low temperature and culture media on the growth and freeze-thawing tolerance of Exiguobacterium strains. Cryobiology 2007; 54:234-40. [PMID: 17382311 DOI: 10.1016/j.cryobiol.2007.01.008] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2006] [Revised: 01/30/2007] [Accepted: 01/30/2007] [Indexed: 11/26/2022]
Abstract
Bacteria of the genus Exiguobacterium have been repeatedly isolated from ancient permafrost sediments of the Kolyma lowland of Northeast Eurasia. Here we report that the Siberian permafrost isolates Exiguobacterium sibiricum 255-15, E. sibiricum 7-3, Exiguobacterium undae 190-11 and E. sp. 5138, as well as Exiguobacterium antarcticum DSM 14480, isolated from a microbial mat sample of Lake Fryxell (McMurdo Dry Valleys, Antarctica), were able to grow at temperatures ranging from -6 to 40 degrees C. In comparison to cells grown at 24 degrees C, the cold-grown cells of these strains tended to be longer and wider. We also investigated the effect of growth conditions (broth or surface growth, and temperature) on cryotolerance of the Exiguobacterium strains. Bacteria grown in broth at 4 degrees C showed markedly greater survival following freeze-thawing treatments (20 repeated cycles) than bacteria grown in broth at 24 degrees C. Surprisingly, significant protection to repeated freeze-thawing was also observed when bacteria were grown on agar at either 4 or 24 degrees C.
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Smith K, Reimers N, Barnes HJ, Lee BC, Siletzky R, Kathariou S. Campylobacter colonization of sibling turkey flocks reared under different management conditions. J Food Prot 2004; 67:1463-8. [PMID: 15270502 DOI: 10.4315/0362-028x-67.7.1463] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Uncertainty exists concerning the key factors contributing to Campylobacter colonization of poultry, especially the possible role of vertical transmission from breeder hens to young birds. A longitudinal study of Campylobacter colonization was performed in two sibling pairs of turkey flocks (four flocks total). Each pair of sibling flocks shared breeder hen populations and was obtained from the same hatchery. One flock of each pair was grown on a commercial farm, and the other was grown in an instructional demonstration unit (Teaching Animal Unit [TAU]). Flocks were located within a 60-mi (96.8-km) radius. The time of placement, feed formulations, stocking density, and general husbandry were the same for both flocks, and each flock was processed at a commercial processing plant following standard feed withdrawal and transport protocols. Both flocks grown on the commercial farms became colonized with Campylobacter between weeks 2 and 3 and remained colonized until processing. Between 80 and 90% of isolates were Campylobacter coli, and the remainder were Campylobacter jejuni. In contrast, neither C. coli nor C. jejuni were isolated from either of the TAU flocks at any time during the production cycle. None of the fla types of Campylobacter from the breeders that provided poults to one of the commercial flocks matched those from the progeny. These results failed to provide evidence for vertical transmission and indicate that this type of transmission either did not occur or was not sufficient to render the TAU turkey flocks Campylobacter positive. Management practices such as proper litter maintenance, controlled traffic between the TAU farm and other turkey flocks, and other less well-defined aspects of turkey production were likely responsible for the absence of Campylobacter in the TAU flocks before harvest.
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Affiliation(s)
- Katie Smith
- Department of Food Science, North Carolina State University, Raleigh, North Carolina 27695, USA
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