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Items: 1 to 50 of 136

1.

Mycobiome Sequencing and Analysis Applied to Fungal Community Profiling of the Lower Respiratory Tract During Fungal Pathogenesis.

McTaggart LR, Copeland JK, Surendra A, Wang PW, Husain S, Coburn B, Guttman DS, Kus JV.

Front Microbiol. 2019 Mar 15;10:512. doi: 10.3389/fmicb.2019.00512. eCollection 2019.

2.

Map of physical interactions between extracellular domains of Arabidopsis leucine-rich repeat receptor kinases.

Mott GA, Smakowska-Luzan E, Pasha A, Parys K, Howton TC, Neuhold J, Lehner A, Grünwald K, Stolt-Bergner P, Provart NJ, Mukhtar MS, Desveaux D, Guttman DS, Belkhadir Y.

Sci Data. 2019 Feb 26;6:190025. doi: 10.1038/sdata.2019.25.

3.

Microbiome networks and change-point analysis reveal key community changes associated with cystic fibrosis pulmonary exacerbations.

Layeghifard M, Li H, Wang PW, Donaldson SL, Coburn B, Clark ST, Caballero JD, Zhang Y, Tullis DE, Yau YCW, Waters V, Hwang DM, Guttman DS.

NPJ Biofilms Microbiomes. 2019 Jan 21;5:4. doi: 10.1038/s41522-018-0077-y. eCollection 2019.

4.

Penicillin-binding protein 3 is a common adaptive target among Pseudomonas aeruginosa isolates from adult cystic fibrosis patients treated with β-lactams.

Clark ST, Sinha U, Zhang Y, Wang PW, Donaldson SL, Coburn B, Waters VJ, Yau YCW, Tullis DE, Guttman DS, Hwang DM.

Int J Antimicrob Agents. 2019 Jan 19. pii: S0924-8579(19)30009-3. doi: 10.1016/j.ijantimicag.2019.01.009. [Epub ahead of print]

PMID:
30664925
5.

Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex.

Dillon MM, Thakur S, Almeida RND, Wang PW, Weir BS, Guttman DS.

Genome Biol. 2019 Jan 3;20(1):3. doi: 10.1186/s13059-018-1606-y.

6.

Identifying Pseudomonas syringae Type III Secreted Effector Function via a Yeast Genomic Screen.

Lee AH, Bastedo DP, Youn JY, Lo T, Middleton MA, Kireeva I, Lee JY, Sharifpoor S, Baryshnikova A, Zhang J, Wang PW, Peisajovich SG, Constanzo M, Andrews BJ, Boone CM, Desveaux D, Guttman DS.

G3 (Bethesda). 2019 Feb 7;9(2):535-547. doi: 10.1534/g3.118.200877.

7.

Design and application of a novel two-amplicon approach for defining eukaryotic microbiota.

Popovic A, Bourdon C, Wang PW, Guttman DS, Voskuijl W, Grigg ME, Bandsma RHJ, Parkinson J.

Microbiome. 2018 Dec 20;6(1):228. doi: 10.1186/s40168-018-0612-3.

8.

A genome-wide association analysis reveals a potential role for recombination in the evolution of antimicrobial resistance in Burkholderia multivorans.

Diaz Caballero J, Clark ST, Wang PW, Donaldson SL, Coburn B, Tullis DE, Yau YCW, Waters VJ, Hwang DM, Guttman DS.

PLoS Pathog. 2018 Dec 7;14(12):e1007453. doi: 10.1371/journal.ppat.1007453. eCollection 2018 Dec.

9.

Constructing and Analyzing Microbiome Networks in R.

Layeghifard M, Hwang DM, Guttman DS.

Methods Mol Biol. 2018;1849:243-266. doi: 10.1007/978-1-4939-8728-3_16.

PMID:
30298259
10.

Postnatal exposure to household disinfectants, infant gut microbiota and subsequent risk of overweight in children.

Tun MH, Tun HM, Mahoney JJ, Konya TB, Guttman DS, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR, Brook JR, Lou W, Takaro TK, Scott JA, Kozyrskyj AL; CHILD Study Investigators.

CMAJ. 2018 Sep 17;190(37):E1097-E1107. doi: 10.1503/cmaj.170809. Erratum in: CMAJ. 2018 Nov 12;190(45):E1341.

11.

Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies.

Fitzpatrick CR, Lu-Irving P, Copeland J, Guttman DS, Wang PW, Baltrus DA, Dlugosch KM, Johnson MTJ.

Microbiome. 2018 Aug 18;6(1):144. doi: 10.1186/s40168-018-0534-0.

12.

Publisher Correction: An extracellular network of Arabidopsis leucine-rich repeat receptor kinases.

Smakowska-Luzan E, Mott GA, Parys K, Stegmann M, Howton TC, Layeghifard M, Neuhold J, Lehner A, Kong J, Grünwald K, Weinberger N, Satbhai SB, Mayer D, Busch W, Madalinski M, Stolt-Bergner P, Provart NJ, Mukhtar MS, Zipfel C, Desveaux D, Guttman DS, Belkhadir Y.

Nature. 2018 Sep;561(7722):E8. doi: 10.1038/s41586-018-0268-y.

PMID:
29973716
13.

Population genomics of bacterial host adaptation.

Sheppard SK, Guttman DS, Fitzgerald JR.

Nat Rev Genet. 2018 Sep;19(9):549-565. doi: 10.1038/s41576-018-0032-z. Review.

PMID:
29973680
14.

Epidemiology of Clonal Pseudomonas aeruginosa Infection in a Canadian Cystic Fibrosis Population.

Middleton MA, Layeghifard M, Klingel M, Stanojevic S, Yau YCW, Zlosnik JEA, Coriati A, Ratjen FA, Tullis ED, Stephenson A, Wilcox P, Freitag A, Chilvers M, McKinney M, Lavoie A, Wang PW, Guttman DS, Waters VJ.

Ann Am Thorac Soc. 2018 Jul;15(7):827-836. doi: 10.1513/AnnalsATS.201801-007OC.

PMID:
29911888
15.

Association of Exposure to Formula in the Hospital and Subsequent Infant Feeding Practices With Gut Microbiota and Risk of Overweight in the First Year of Life.

Forbes JD, Azad MB, Vehling L, Tun HM, Konya TB, Guttman DS, Field CJ, Lefebvre D, Sears MR, Becker AB, Mandhane PJ, Turvey SE, Moraes TJ, Subbarao P, Scott JA, Kozyrskyj AL; Canadian Healthy Infant Longitudinal Development (CHILD) Study Investigators.

JAMA Pediatr. 2018 Jul 2;172(7):e181161. doi: 10.1001/jamapediatrics.2018.1161. Epub 2018 Jul 2.

PMID:
29868719
16.

FUT2 genotype and secretory status are not associated with fecal microbial composition and inferred function in healthy subjects.

Turpin W, Bedrani L, Espin-Garcia O, Xu W, Silverberg MS, Smith MI, Guttman DS, Griffiths A, Moayyedi P, Panaccione R, Huynh H, Steinhart H, Aumais G, Shestopaloff K, Dieleman LA, Turner D, Paterson AD, Croitoru K.

Gut Microbes. 2018 Jul 4;9(4):357-368. doi: 10.1080/19490976.2018.1445956. Epub 2018 Apr 27.

PMID:
29533703
17.

Roles of Birth Mode and Infant Gut Microbiota in Intergenerational Transmission of Overweight and Obesity From Mother to Offspring.

Tun HM, Bridgman SL, Chari R, Field CJ, Guttman DS, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR, Scott JA, Kozyrskyj AL; Canadian Healthy Infant Longitudinal Development (CHILD) Study Investigators.

JAMA Pediatr. 2018 Apr 1;172(4):368-377. doi: 10.1001/jamapediatrics.2017.5535.

18.

Diversification of Pseudomonas aeruginosa within the cystic fibrosis lung and its effects on antibiotic resistance.

Clark ST, Guttman DS, Hwang DM.

FEMS Microbiol Lett. 2018 Mar 1;365(6). doi: 10.1093/femsle/fny026.

PMID:
29401362
19.

Assembly and ecological function of the root microbiome across angiosperm plant species.

Fitzpatrick CR, Copeland J, Wang PW, Guttman DS, Kotanen PM, Johnson MTJ.

Proc Natl Acad Sci U S A. 2018 Feb 6;115(6):E1157-E1165. doi: 10.1073/pnas.1717617115. Epub 2018 Jan 22.

20.

An extracellular network of Arabidopsis leucine-rich repeat receptor kinases.

Smakowska-Luzan E, Mott GA, Parys K, Stegmann M, Howton TC, Layeghifard M, Neuhold J, Lehner A, Kong J, Grünwald K, Weinberger N, Satbhai SB, Mayer D, Busch W, Madalinski M, Stolt-Bergner P, Provart NJ, Mukhtar MS, Zipfel C, Desveaux D, Guttman DS, Belkhadir Y.

Nature. 2018 Jan 18;553(7688):342-346. doi: 10.1038/nature25184. Epub 2018 Jan 10. Erratum in: Nature. 2018 Sep;561(7722):E8.

PMID:
29320478
21.

A High-Sensitivity, Microtiter-Based Plate Assay for Plant Pattern-Triggered Immunity.

Mott GA, Desveaux D, Guttman DS.

Mol Plant Microbe Interact. 2018 May;31(5):499-504. doi: 10.1094/MPMI-11-17-0279-TA. Epub 2018 Feb 28.

PMID:
29199888
22.

Identification and analysis of seven effector protein families with different adaptive and evolutionary histories in plant-associated members of the Xanthomonadaceae.

Assis RAB, Polloni LC, Patané JSL, Thakur S, Felestrino ÉB, Diaz-Caballero J, Digiampietri LA, Goulart LR, Almeida NF, Nascimento R, Dandekar AM, Zaini PA, Setubal JC, Guttman DS, Moreira LM.

Sci Rep. 2017 Nov 23;7(1):16133. doi: 10.1038/s41598-017-16325-1.

23.

Sex-specific impact of asthma during pregnancy on infant gut microbiota.

Koleva PT, Tun HM, Konya T, Guttman DS, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR, Scott JA, Kozyrskyj AL; CHILD Study Investigators.

Eur Respir J. 2017 Nov 22;50(5). pii: 1700280. doi: 10.1183/13993003.00280-2017. Print 2017 Nov.

24.

Staphylococcus aureus interaction with Pseudomonas aeruginosa biofilm enhances tobramycin resistance.

Beaudoin T, Yau YCW, Stapleton PJ, Gong Y, Wang PW, Guttman DS, Waters V.

NPJ Biofilms Microbiomes. 2017 Oct 19;3:25. doi: 10.1038/s41522-017-0035-0. eCollection 2017.

25.

Cesarean Section, Formula Feeding, and Infant Antibiotic Exposure: Separate and Combined Impacts on Gut Microbial Changes in Later Infancy.

Yasmin F, Tun HM, Konya TB, Guttman DS, Chari RS, Field CJ, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR; CHILD Study Investigators, Scott JA, Dinu I, Kozyrskyj AL.

Front Pediatr. 2017 Sep 26;5:200. doi: 10.3389/fped.2017.00200. eCollection 2017.

26.

Impact of Immunosuppression on the Metagenomic Composition of the Intestinal Microbiome: a Systems Biology Approach to Post-Transplant Diabetes.

Bhat M, Pasini E, Copeland J, Angeli M, Husain S, Kumar D, Renner E, Teterina A, Allard J, Guttman DS, Humar A.

Sci Rep. 2017 Aug 31;7(1):10277. doi: 10.1038/s41598-017-10471-2.

27.

A Practical Guide to Quantitative Interactor Screening with Next-Generation Sequencing (QIS-Seq).

Gong Y, Desveaux D, Guttman DS, Lewis JD.

Methods Mol Biol. 2017;1613:1-20. doi: 10.1007/978-1-4939-7027-8_1.

PMID:
28849555
28.

Draft Genome Sequences of 10 Environmental Pseudomonas aeruginosa Strains Isolated from Soils, Sediments, and Waters.

Shrestha SD, Guttman DS, Perron GG.

Genome Announc. 2017 Aug 24;5(34). pii: e00804-17. doi: 10.1128/genomeA.00804-17.

29.

Topo-phylogeny: Visualizing evolutionary relationships on a topographic landscape.

Waese J, Provart NJ, Guttman DS.

PLoS One. 2017 May 1;12(5):e0175895. doi: 10.1371/journal.pone.0175895. eCollection 2017.

30.

Exposure to household furry pets influences the gut microbiota of infant at 3-4 months following various birth scenarios.

Tun HM, Konya T, Takaro TK, Brook JR, Chari R, Field CJ, Guttman DS, Becker AB, Mandhane PJ, Turvey SE, Subbarao P, Sears MR, Scott JA, Kozyrskyj AL; CHILD Study Investigators.

Microbiome. 2017 Apr 6;5(1):40. doi: 10.1186/s40168-017-0254-x.

31.

Expanded type III effector recognition by the ZAR1 NLR protein using ZED1-related kinases.

Seto D, Koulena N, Lo T, Menna A, Guttman DS, Desveaux D.

Nat Plants. 2017 Mar 13;3:17027. doi: 10.1038/nplants.2017.27.

PMID:
28288096
32.

Navigating social and ethical challenges of biobanking for human microbiome research.

Chuong KH, Hwang DM, Tullis DE, Waters VJ, Yau YC, Guttman DS, O'Doherty KC.

BMC Med Ethics. 2017 Jan 11;18(1):1. doi: 10.1186/s12910-016-0160-y.

33.

Oral Vancomycin Followed by Fecal Transplantation Versus Tapering Oral Vancomycin Treatment for Recurrent Clostridium difficile Infection: An Open-Label, Randomized Controlled Trial.

Hota SS, Sales V, Tomlinson G, Salpeter MJ, McGeer A, Coburn B, Guttman DS, Low DE, Poutanen SM.

Clin Infect Dis. 2017 Feb 1;64(3):265-271. doi: 10.1093/cid/ciw731. Epub 2016 Nov 9.

PMID:
28011612
34.

Image-Based Quantification of Plant Immunity and Disease.

Laflamme B, Middleton M, Lo T, Desveaux D, Guttman DS.

Mol Plant Microbe Interact. 2016 Dec;29(12):919-924. doi: 10.1094/MPMI-07-16-0129-TA. Epub 2016 Dec 20.

35.

Disentangling Interactions in the Microbiome: A Network Perspective.

Layeghifard M, Hwang DM, Guttman DS.

Trends Microbiol. 2017 Mar;25(3):217-228. doi: 10.1016/j.tim.2016.11.008. Epub 2016 Dec 2. Review.

PMID:
27916383
36.

NKT Cell-Deficient Mice Harbor an Altered Microbiota That Fuels Intestinal Inflammation during Chemically Induced Colitis.

Selvanantham T, Lin Q, Guo CX, Surendra A, Fieve S, Escalante NK, Guttman DS, Streutker CJ, Robertson SJ, Philpott DJ, Mallevaey T.

J Immunol. 2016 Dec 1;197(11):4464-4472. Epub 2016 Oct 31.

37.

Evolution, genomics and epidemiology of Pseudomonas syringae: Challenges in Bacterial Molecular Plant Pathology.

Baltrus DA, McCann HC, Guttman DS.

Mol Plant Pathol. 2017 Jan;18(1):152-168. doi: 10.1111/mpp.12506. Epub 2016 Nov 25. Review.

PMID:
27798954
38.

Association of host genome with intestinal microbial composition in a large healthy cohort.

Turpin W, Espin-Garcia O, Xu W, Silverberg MS, Kevans D, Smith MI, Guttman DS, Griffiths A, Panaccione R, Otley A, Xu L, Shestopaloff K, Moreno-Hagelsieb G; GEM Project Research Consortium, Paterson AD, Croitoru K.

Nat Genet. 2016 Nov;48(11):1413-1417. doi: 10.1038/ng.3693. Epub 2016 Oct 3.

PMID:
27694960
39.

Gene Slider: sequence logo interactive data-visualization for education and research.

Waese J, Pasha A, Wang TT, van Weringh A, Guttman DS, Provart NJ.

Bioinformatics. 2016 Dec 1;32(23):3670-3672. Epub 2016 Aug 13.

PMID:
27522081
40.

A De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies.

Thakur S, Guttman DS.

BMC Bioinformatics. 2016 Jun 30;17(1):260. doi: 10.1186/s12859-016-1142-2.

41.

Prophages mediate defense against phage infection through diverse mechanisms.

Bondy-Denomy J, Qian J, Westra ER, Buckling A, Guttman DS, Davidson AR, Maxwell KL.

ISME J. 2016 Dec;10(12):2854-2866. doi: 10.1038/ismej.2016.79. Epub 2016 Jun 3.

42.

High fecal IgA is associated with reduced Clostridium difficile colonization in infants.

Bridgman SL, Konya T, Azad MB, Guttman DS, Sears MR, Becker AB, Turvey SE, Mandhane PJ, Subbarao P; CHILD Study Investigators, Scott JA, Field CJ, Kozyrskyj AL.

Microbes Infect. 2016 Sep;18(9):543-9. doi: 10.1016/j.micinf.2016.05.001. Epub 2016 May 24.

PMID:
27235197
43.

Genomic screens identify a new phytobacterial microbe-associated molecular pattern and the cognate Arabidopsis receptor-like kinase that mediates its immune elicitation.

Mott GA, Thakur S, Smakowska E, Wang PW, Belkhadir Y, Desveaux D, Guttman DS.

Genome Biol. 2016 May 9;17:98. doi: 10.1186/s13059-016-0955-7.

44.

The HopF family of Pseudomonas syringae type III secreted effectors.

Lo T, Koulena N, Seto D, Guttman DS, Desveaux D.

Mol Plant Pathol. 2017 Apr;18(3):457-468. doi: 10.1111/mpp.12412. Epub 2016 Jun 9. Review.

PMID:
27061875
45.

Metabolic Reprogramming by Hexosamine Biosynthetic and Golgi N-Glycan Branching Pathways.

Ryczko MC, Pawling J, Chen R, Abdel Rahman AM, Yau K, Copeland JK, Zhang C, Surendra A, Guttman DS, Figeys D, Dennis JW.

Sci Rep. 2016 Mar 14;6:23043. doi: 10.1038/srep23043.

46.

Phytopathogen Genome Announcement: Draft Genome Sequences of 62 Pseudomonas syringae Type and Pathotype Strains.

Thakur S, Weir BS, Guttman DS.

Mol Plant Microbe Interact. 2016 Apr;29(4):243-6. doi: 10.1094/MPMI-01-16-0013-TA. Epub 2016 Mar 17.

47.

Genomic and Gene-Expression Comparisons among Phage-Resistant Type-IV Pilus Mutants of Pseudomonas syringae pathovar phaseolicola.

Sistrom M, Park D, O'Brien HE, Wang Z, Guttman DS, Townsend JP, Turner PE.

PLoS One. 2015 Dec 15;10(12):e0144514. doi: 10.1371/journal.pone.0144514. eCollection 2015.

48.

Elevated Temperature Differentially Influences Effector-Triggered Immunity Outputs in Arabidopsis.

Menna A, Nguyen D, Guttman DS, Desveaux D.

Front Plant Sci. 2015 Nov 9;6:995. doi: 10.3389/fpls.2015.00995. eCollection 2015.

49.

Global Analysis of the Fungal Microbiome in Cystic Fibrosis Patients Reveals Loss of Function of the Transcriptional Repressor Nrg1 as a Mechanism of Pathogen Adaptation.

Kim SH, Clark ST, Surendra A, Copeland JK, Wang PW, Ammar R, Collins C, Tullis DE, Nislow C, Hwang DM, Guttman DS, Cowen LE.

PLoS Pathog. 2015 Nov 20;11(11):e1005308. doi: 10.1371/journal.ppat.1005308. eCollection 2015 Nov.

50.

Chronic infection phenotypes of Pseudomonas aeruginosa are associated with failure of eradication in children with cystic fibrosis.

Vidya P, Smith L, Beaudoin T, Yau YC, Clark S, Coburn B, Guttman DS, Hwang DM, Waters V.

Eur J Clin Microbiol Infect Dis. 2016 Jan;35(1):67-74.

PMID:
26492874

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