Allard SM - Search Results

1

Current progress and future opportunities in applications of bioinformatics for biodefense and pathogen detection: report from the Winter Mid-Atlantic Microbiome Meet-up, College Park, MD, January 10, 2018.

Meisel JS, Nasko DJ, Brubach B, Cepeda-Espinoza V, Chopyk J, Corrada-Bravo H, Fedarko M, Ghurye J, Javkar K, Olson ND, Shah N, Allard SM, Bazinet AL, Bergman NH, Brown A, Caporaso JG, Conlan S, DiRuggiero J, Forry SP, Hasan NA, Kralj J, Luethy PM, Milton DK, Ondov BD, Preheim S, Ratnayake S, Rogers SM, Rosovitz MJ, Sakowski EG, Schliebs NO, Sommer DD, Ternus KL, Uritskiy G, Zhang SX, Pop M, Treangen TJ. Meisel JS, et al. Among authors: allard sm. Microbiome. 2018 Nov 5;6(1):197. doi: 10.1186/s40168-018-0582-5. Microbiome. 2018. PMID: 30396371 Free PMC article.

2

Agricultural Freshwater Pond Supports Diverse and Dynamic Bacterial and Viral Populations.

Chopyk J, Allard S, Nasko DJ, Bui A, Mongodin EF, Sapkota AR. Chopyk J, et al. Front Microbiol. 2018 Apr 24;9:792. doi: 10.3389/fmicb.2018.00792. eCollection 2018. Front Microbiol. 2018. PMID: 29740420 Free PMC article.

3

Creek to Table: Tracking fecal indicator bacteria, bacterial pathogens, and total bacterial communities from irrigation water to kale and radish crops.

Allard SM, Callahan MT, Bui A, Ferelli AMC, Chopyk J, Chattopadhyay S, Mongodin EF, Micallef SA, Sapkota AR. Allard SM, et al. Sci Total Environ. 2019 May 20;666:461-471. doi: 10.1016/j.scitotenv.2019.02.179. Epub 2019 Feb 12. Sci Total Environ. 2019. PMID: 30802661

4

Comparative metagenomic analysis of microbial taxonomic and functional variations in untreated surface and reclaimed waters used in irrigation applications.

Chopyk J, Nasko DJ, Allard S, Bui A, Treangen T, Pop M, Mongodin EF, Sapkota AR. Chopyk J, et al. Water Res. 2020 Feb 1;169:115250. doi: 10.1016/j.watres.2019.115250. Epub 2019 Oct 31. Water Res. 2020. PMID: 31726395

5

Metagenomic analysis of bacterial and viral assemblages from a freshwater creek and irrigated field reveals temporal and spatial dynamics.

Chopyk J, Nasko DJ, Allard S, Callahan MT, Bui A, Ferelli AMC, Chattopadhyay S, Mongodin EF, Pop M, Micallef SA, Sapkota AR. Chopyk J, et al. Sci Total Environ. 2020 Mar 1;706:135395. doi: 10.1016/j.scitotenv.2019.135395. Epub 2019 Nov 25. Sci Total Environ. 2020. PMID: 31846873

6

Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment.

Minich JJ, Ali F, Marotz C, Belda-Ferre P, Chiang L, Shaffer JP, Carpenter CS, McDonald D, Gilbert J, Allard SM, Allen EE, Knight R, Sweeney DA, Swafford AD. Minich JJ, et al. Among authors: allard sm. Microbiome. 2021 Jan 22;9(1):25. doi: 10.1186/s40168-020-00960-4. Microbiome. 2021. PMID: 33482920 Free PMC article.

7

Seasonal dynamics in taxonomy and function within bacterial and viral metagenomic assemblages recovered from a freshwater agricultural pond.

Chopyk J, Nasko DJ, Allard S, Bui A, Pop M, Mongodin EF, Sapkota AR. Chopyk J, et al. Environ Microbiome. 2020 Oct 28;15(1):18. doi: 10.1186/s40793-020-00365-8. Environ Microbiome. 2020. PMID: 33902740 Free PMC article.

8

Quenching by sodium thiosulfate does not influence 16S rRNA gene sequencing profiles of reclaimed water from three sites in the Mid-Atlantic, United States.

Allard SM, Solaiman S, Callahan MT, Bui A, Craddock H, Haymaker J, Foust D, Duncan R, Smyth E, Mongodin EF, Hashem F, May E, Micallef SA, Sapkota AR. Allard SM, et al. Environ Res. 2019 May;172:296-300. doi: 10.1016/j.envres.2019.02.022. Epub 2019 Feb 15. Environ Res. 2019. PMID: 30822563

9

SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment.

Marotz C, Belda-Ferre P, Ali F, Das P, Huang S, Cantrell K, Jiang L, Martino C, Diner RE, Rahman G, McDonald D, Armstrong G, Kodera S, Donato S, Ecklu-Mensah G, Gottel N, Salas Garcia MC, Chiang LY, Salido RA, Shaffer JP, Bryant MK, Sanders K, Humphrey G, Ackermann G, Haiminen N, Beck KL, Kim HC, Carrieri AP, Parida L, Vázquez-Baeza Y, Torriani FJ, Knight R, Gilbert J, Sweeney DA, Allard SM. Marotz C, et al. Among authors: allard sm. Microbiome. 2021 Jun 8;9(1):132. doi: 10.1186/s40168-021-01083-0. Microbiome. 2021. PMID: 34103074 Free PMC article.

10

Microbiome response in an urban river system is dominated by seasonality over wastewater treatment upgrades.

Kodera SM, Sharma A, Martino C, Dsouza M, Grippo M, Lutz HL, Knight R, Gilbert JA, Negri C, Allard SM. Kodera SM, et al. Among authors: allard sm. Environ Microbiome. 2023 Feb 19;18(1):10. doi: 10.1186/s40793-023-00470-4. Environ Microbiome. 2023. PMID: 36805022 Free PMC article.

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