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Items: 1 to 20 of 110

1.

Decreasing antibiotic use, the gut microbiota, and asthma incidence in children: evidence from population-based and prospective cohort studies.

Patrick DM, Sbihi H, Dai DLY, Al Mamun A, Rasali D, Rose C, Marra F, Boutin RCT, Petersen C, Stiemsma LT, Winsor GL, Brinkman FSL, Kozyrskyj AL, Azad MB, Becker AB, Mandhane PJ, Moraes TJ, Sears MR, Subbarao P, Finlay BB, Turvey SE.

Lancet Respir Med. 2020 Mar 24. pii: S2213-2600(20)30052-7. doi: 10.1016/S2213-2600(20)30052-7. [Epub ahead of print]

PMID:
32220282
2.

PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data.

Peabody MA, Lau WYV, Hoad G, Jia B, Maguire F, Gray KL, Beiko RG, Brinkman FSL.

Bioinformatics. 2020 Feb 28. pii: btaa136. doi: 10.1093/bioinformatics/btaa136. [Epub ahead of print]

PMID:
32108861
3.

AB569, a nontoxic chemical tandem that kills major human pathogenic bacteria.

McDaniel CT, Panmanee W, Winsor GL, Gill E, Bertelli C, Schurr MJ, Dongare P, Paul AT, Ko SB, Lau GW, Dasgupta N, Bogue AL, Miller WE, Mortensen JE, Haslam DB, Dexheimer P, Muruve DA, Aronow BJ, Forbes MDE, Danilczuk M, Brinkman FSL, Hancock REW, Meyer TJ, Hassett DJ.

Proc Natl Acad Sci U S A. 2020 Mar 3;117(9):4921-4930. doi: 10.1073/pnas.1911927117. Epub 2020 Feb 18.

PMID:
32071223
4.

CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database.

Alcock BP, Raphenya AR, Lau TTY, Tsang KK, Bouchard M, Edalatmand A, Huynh W, Nguyen AV, Cheng AA, Liu S, Min SY, Miroshnichenko A, Tran HK, Werfalli RE, Nasir JA, Oloni M, Speicher DJ, Florescu A, Singh B, Faltyn M, Hernandez-Koutoucheva A, Sharma AN, Bordeleau E, Pawlowski AC, Zubyk HL, Dooley D, Griffiths E, Maguire F, Winsor GL, Beiko RG, Brinkman FSL, Hsiao WWL, Domselaar GV, McArthur AG.

Nucleic Acids Res. 2020 Jan 8;48(D1):D517-D525. doi: 10.1093/nar/gkz935.

PMID:
31665441
5.

Eleven High-Quality Reference Genome Sequences and 360 Draft Assemblies of Shiga Toxin-Producing Escherichia coli Isolates from Human, Food, Animal, and Environmental Sources in Canada.

Tyson S, Peterson CL, Olson A, Tyler S, Knox N, Griffiths E, Dooley D, Hsiao W, Cabral J, Johnson RP, Laing C, Gannon V, Lynch T, Van Domselaar G, Brinkman F, Graham M.

Microbiol Resour Announc. 2019 Oct 10;8(41). pii: e00625-19. doi: 10.1128/MRA.00625-19.

6.

FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration.

Dooley DM, Griffiths EJ, Gosal GS, Buttigieg PL, Hoehndorf R, Lange MC, Schriml LM, Brinkman FSL, Hsiao WWL.

NPJ Sci Food. 2018 Dec 18;2:23. doi: 10.1038/s41538-018-0032-6. eCollection 2018.

7.

Improved genomic island predictions with IslandPath-DIMOB.

Bertelli C, Brinkman FSL.

Bioinformatics. 2018 Jul 1;34(13):2161-2167. doi: 10.1093/bioinformatics/bty095.

8.

Genomic characterisation of an international Pseudomonas aeruginosa reference panel indicates that the two major groups draw upon distinct mobile gene pools.

Freschi L, Bertelli C, Jeukens J, Moore MP, Kukavica-Ibrulj I, Emond-Rheault JG, Hamel J, Fothergill JL, Tucker NP, McClean S, Klockgether J, de Soyza A, Brinkman FSL, Levesque RC, Winstanley C.

FEMS Microbiol Lett. 2018 Jul 1;365(14). doi: 10.1093/femsle/fny120.

PMID:
29897457
9.

Microbial genomic island discovery, visualization and analysis.

Bertelli C, Tilley KE, Brinkman FSL.

Brief Bioinform. 2019 Sep 27;20(5):1685-1698. doi: 10.1093/bib/bby042.

10.

High-throughput detection of RNA processing in bacteria.

Gill EE, Chan LS, Winsor GL, Dobson N, Lo R, Ho Sui SJ, Dhillon BK, Taylor PK, Shrestha R, Spencer C, Hancock REW, Unrau PJ, Brinkman FSL.

BMC Genomics. 2018 Mar 27;19(1):223. doi: 10.1186/s12864-018-4538-8.

11.

Disruption of the Gut Microbiota With Antibiotics Exacerbates Acute Vascular Rejection.

Rey K, Manku S, Enns W, Van Rossum T, Bushell K, Morin RD, Brinkman FSL, Choy JC.

Transplantation. 2018 Jul;102(7):1085-1095. doi: 10.1097/TP.0000000000002169.

PMID:
29538261
12.

The OxyR-regulated phnW gene encoding 2-aminoethylphosphonate:pyruvate aminotransferase helps protect Pseudomonas aeruginosa from tert-butyl hydroperoxide.

Panmanee W, Charoenlap N, Atichartpongkul S, Mahavihakanont A, Whiteside MD, Winsor G, Brinkman FSL, Mongkolsuk S, Hassett DJ.

PLoS One. 2017 Dec 7;12(12):e0189066. doi: 10.1371/journal.pone.0189066. eCollection 2017.

13.

SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology.

Petkau A, Mabon P, Sieffert C, Knox NC, Cabral J, Iskander M, Iskander M, Weedmark K, Zaheer R, Katz LS, Nadon C, Reimer A, Taboada E, Beiko RG, Hsiao W, Brinkman F, Graham M, Van Domselaar G.

Microb Genom. 2017 Jun 8;3(6):e000116. doi: 10.1099/mgen.0.000116. eCollection 2017 Jun 30.

14.

Characterization of Legionella Species from Watersheds in British Columbia, Canada.

Peabody MA, Caravas JA, Morrison SS, Mercante JW, Prystajecky NA, Raphael BH, Brinkman FSL.

mSphere. 2017 Aug 2;2(4). pii: e00246-17. doi: 10.1128/mSphere.00246-17. eCollection 2017 Jul-Aug.

15.

Context Is Everything: Harmonization of Critical Food Microbiology Descriptors and Metadata for Improved Food Safety and Surveillance.

Griffiths E, Dooley D, Graham M, Van Domselaar G, Brinkman FSL, Hsiao WWL.

Front Microbiol. 2017 Jun 26;8:1068. doi: 10.3389/fmicb.2017.01068. eCollection 2017.

16.

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets.

Bertelli C, Laird MR, Williams KP; Simon Fraser University Research Computing Group, Lau BY, Hoad G, Winsor GL, Brinkman FSL.

Nucleic Acids Res. 2017 Jul 3;45(W1):W30-W35. doi: 10.1093/nar/gkx343.

17.

Genotypes Associated with Listeria monocytogenes Isolates Displaying Impaired or Enhanced Tolerances to Cold, Salt, Acid, or Desiccation Stress.

Hingston P, Chen J, Dhillon BK, Laing C, Bertelli C, Gannon V, Tasara T, Allen K, Brinkman FS, Truelstrup Hansen L, Wang S.

Front Microbiol. 2017 Mar 8;8:369. doi: 10.3389/fmicb.2017.00369. eCollection 2017.

18.

From bugs to brains: The microbiome in neurological health.

McKay KA, Kowalec K, Brinkman F, Finlay BB, Horwitz M, Manges AR, Osborne L, Tremlett H.

Mult Scler Relat Disord. 2017 Feb;12:1-3. doi: 10.1016/j.msard.2016.12.007. Epub 2016 Dec 18.

PMID:
28283098
19.

Baseline Practices for the Application of Genomic Data Supporting Regulatory Food Safety.

Lambert D, Pightling A, Griffiths E, Van Domselaar G, Evans P, Berthelet S, Craig D, Chandry PS, Stones R, Brinkman F, Angers-Loustau A, Kreysa J, Tong W, Blais B.

J AOAC Int. 2017 May 1;100(3):721-731. doi: 10.5740/jaoacint.16-0269. Epub 2017 Jan 19.

20.

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database.

Jia B, Raphenya AR, Alcock B, Waglechner N, Guo P, Tsang KK, Lago BA, Dave BM, Pereira S, Sharma AN, Doshi S, Courtot M, Lo R, Williams LE, Frye JG, Elsayegh T, Sardar D, Westman EL, Pawlowski AC, Johnson TA, Brinkman FS, Wright GD, McArthur AG.

Nucleic Acids Res. 2017 Jan 4;45(D1):D566-D573. doi: 10.1093/nar/gkw1004. Epub 2016 Oct 26.

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