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Urinary lead concentration and composition of the adult gut microbiota in a cross-sectional population-based sample.

Eggers S, Safdar N, Sethi AK, Suen G, Peppard PE, Kates AE, Skarlupka JH, Kanarek M, Malecki KMC.

Environ Int. 2019 Sep 10;133(Pt A):105122. doi: 10.1016/j.envint.2019.105122. [Epub ahead of print]


The ruminal bacterial community in lactating dairy cows has limited variation on a day-to-day basis.

Skarlupka JH, Kamenetsky ME, Jewell KA, Suen G.

J Anim Sci Biotechnol. 2019 Aug 19;10:66. doi: 10.1186/s40104-019-0375-0. eCollection 2019.


Characterising the gut microbiome in veterans with Gulf War Illness: a protocol for a longitudinal, prospective cohort study.

Keating JA, Shaughnessy C, Baubie K, Kates AE, Putman-Buehler N, Watson L, Dominguez N, Watson K, Cook DB, Rabago D, Suen G, Gangnon R, Safdar N.

BMJ Open. 2019 Aug 19;9(8):e031114. doi: 10.1136/bmjopen-2019-031114.


Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation.

Bickhart DM, Watson M, Koren S, Panke-Buisse K, Cersosimo LM, Press MO, Van Tassell CP, Van Kessel JAS, Haley BJ, Kim SW, Heiner C, Suen G, Bakshy K, Liachko I, Sullivan ST, Myer PR, Ghurye J, Pop M, Weimer PJ, Phillippy AM, Smith TPL.

Genome Biol. 2019 Aug 2;20(1):153. doi: 10.1186/s13059-019-1760-x.


The Bacterial and Fungal Microbiota of Nelore Steers Is Dynamic Across the Gastrointestinal Tract and Its Fecal-Associated Microbiota Is Correlated to Feed Efficiency.

Lopes DRG, La Reau AJ, Duarte MS, Detmann E, Bento CBP, Mercadante MEZ, Bonilha SFM, Suen G, Mantovani HC.

Front Microbiol. 2019 Jun 25;10:1263. doi: 10.3389/fmicb.2019.01263. eCollection 2019.


Author Correction: Transcriptomics analysis of host liver and meta-transcriptome analysis of rumen epimural microbial community in young calves treated with artificial dosing of rumen content from adult donor cow.

Li W, Edwards A, Riehle C, Cox MS, Raabis S, Skarlupka JH, Steinberger AJ, Walling J, Bickhart D, Suen G.

Sci Rep. 2019 May 28;9(1):8116. doi: 10.1038/s41598-019-44428-4.


Response of Beef Cattle Fecal Microbiota to Grazing on Toxic Tall Fescue.

Mote RS, Hill NS, Skarlupka JH, Turner ZB, Sanders ZP, Jones DP, Suen G, Filipov NM.

Appl Environ Microbiol. 2019 Jul 18;85(15). pii: e00032-19. doi: 10.1128/AEM.00032-19. Print 2019 Aug 1.


Laryngotracheal Microbiota in Adult Laryngotracheal Stenosis.

Hillel AT, Tang SS, Carlos C, Skarlupka JH, Gowda M, Yin LX, Motz K, Currie CR, Suen G, Thibeault SL.

mSphere. 2019 May 1;4(3). pii: e00211-19. doi: 10.1128/mSphereDirect.00211-19.


Feeding modes shape the acquisition and structure of the initial gut microbiota in newborn lambs.

Bi Y, Cox MS, Zhang F, Suen G, Zhang N, Tu Y, Diao Q.

Environ Microbiol. 2019 Jul;21(7):2333-2346. doi: 10.1111/1462-2920.14614. Epub 2019 Apr 11.


Effects of corn silage inclusion in preweaning calf diets.

Kehoe SI, Dill-McFarland KA, Breaker JD, Suen G.

J Dairy Sci. 2019 May;102(5):4131-4137. doi: 10.3168/jds.2018-15799. Epub 2019 Mar 14.


Bacterial Communities in the Alpaca Gastrointestinal Tract Vary With Diet and Body Site.

Carroll C, Olsen KD, Ricks NJ, Dill-McFarland KA, Suen G, Robinson TF, Chaston JM.

Front Microbiol. 2019 Jan 18;9:3334. doi: 10.3389/fmicb.2018.03334. eCollection 2018.


Transcriptomics analysis of host liver and meta-transcriptome analysis of rumen epimural microbial community in young calves treated with artificial dosing of rumen content from adult donor cow.

Li W, Edwards A, Riehle C, Cox MS, Raabis S, Skarlupka JH, Steinberger AJ, Walling J, Bickhart D, Suen G.

Sci Rep. 2019 Jan 28;9(1):790. doi: 10.1038/s41598-018-37033-4. Erratum in: Sci Rep. 2019 May 28;9(1):8116.


The Phylogenomic Diversity of Herbivore-Associated Fibrobacter spp. Is Correlated to Lignocellulose-Degrading Potential.

Neumann AP, Suen G.

mSphere. 2018 Dec 12;3(6). pii: e00593-18. doi: 10.1128/mSphere.00593-18.


A global analysis of gene expression in Fibrobacter succinogenes S85 grown on cellulose and soluble sugars at different growth rates.

Neumann AP, Weimer PJ, Suen G.

Biotechnol Biofuels. 2018 Oct 27;11:295. doi: 10.1186/s13068-018-1290-x. eCollection 2018.


Diet Influences Early Microbiota Development in Dairy Calves without Long-Term Impacts on Milk Production.

Dill-McFarland KA, Weimer PJ, Breaker JD, Suen G.

Appl Environ Microbiol. 2019 Jan 9;85(2). pii: e02141-18. doi: 10.1128/AEM.02141-18. Print 2019 Jan 15.


A Cohort Study of the Milk Microbiota of Healthy and Inflamed Bovine Mammary Glands From Dryoff Through 150 Days in Milk.

Metzger SA, Hernandez LL, Skarlupka JH, Walker TM, Suen G, Ruegg PL.

Front Vet Sci. 2018 Oct 9;5:247. doi: 10.3389/fvets.2018.00247. eCollection 2018.


Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future.

Huws SA, Creevey CJ, Oyama LB, Mizrahi I, Denman SE, Popova M, Muñoz-Tamayo R, Forano E, Waters SM, Hess M, Tapio I, Smidt H, Krizsan SJ, Yáñez-Ruiz DR, Belanche A, Guan L, Gruninger RJ, McAllister TA, Newbold CJ, Roehe R, Dewhurst RJ, Snelling TJ, Watson M, Suen G, Hart EH, Kingston-Smith AH, Scollan ND, do Prado RM, Pilau EJ, Mantovani HC, Attwood GT, Edwards JE, McEwan NR, Morrisson S, Mayorga OL, Elliott C, Morgavi DP.

Front Microbiol. 2018 Sep 25;9:2161. doi: 10.3389/fmicb.2018.02161. eCollection 2018. Review.


Understanding the Milk Microbiota.

Metzger SA, Hernandez LL, Suen G, Ruegg PL.

Vet Clin North Am Food Anim Pract. 2018 Nov;34(3):427-438. doi: 10.1016/j.cvfa.2018.06.003. Review.


Oral probiotic combination of Lactobacillus and Bifidobacterium alters the gastrointestinal microbiota during antibiotic treatment for Clostridium difficile infection.

De Wolfe TJ, Eggers S, Barker AK, Kates AE, Dill-McFarland KA, Suen G, Safdar N.

PLoS One. 2018 Sep 28;13(9):e0204253. doi: 10.1371/journal.pone.0204253. eCollection 2018.


Compositional and structural dynamics of the ruminal microbiota in dairy heifers and its relationship to methane production.

Cunha CS, Marcondes MI, Veloso CM, Mantovani HC, Pereira LGR, Tomich TR, Dill-McFarland KA, Suen G.

J Sci Food Agric. 2019 Jan 15;99(1):210-218. doi: 10.1002/jsfa.9162. Epub 2018 Jul 11.


Influence of sampling technique and bedding type on the milk microbiota: Results of a pilot study.

Metzger SA, Hernandez LL, Skarlupka JH, Suen G, Walker TM, Ruegg PL.

J Dairy Sci. 2018 Jul;101(7):6346-6356. doi: 10.3168/jds.2017-14212. Epub 2018 Apr 19.


Wisconsin microbiome study, a cross-sectional investigation of dietary fibre, microbiome composition and antibiotic-resistant organisms: rationale and methods.

Eggers S, Malecki KM, Peppard P, Mares J, Shirley D, Shukla SK, Poulsen K, Gangnon R, Duster M, Kates A, Suen G, Sethi AK, Safdar N.

BMJ Open. 2018 Mar 27;8(3):e019450. doi: 10.1136/bmjopen-2017-019450.


The Ruminococci: key symbionts of the gut ecosystem.

La Reau AJ, Suen G.

J Microbiol. 2018 Mar;56(3):199-208. doi: 10.1007/s12275-018-8024-4. Epub 2018 Feb 28. Review.


Bacterial Community Dynamics across the Gastrointestinal Tracts of Dairy Calves during Preweaning Development.

Dias J, Marcondes MI, Motta de Souza S, Cardoso da Mata E Silva B, Fontes Noronha M, Tassinari Resende R, Machado FS, Cuquetto Mantovani H, Dill-McFarland KA, Suen G.

Appl Environ Microbiol. 2018 Apr 16;84(9). pii: e02675-17. doi: 10.1128/AEM.02675-17. Print 2018 May 1.


Dietary changes during weaning shape the gut microbiota of red pandas (Ailurus fulgens).

Williams CL, Dill-McFarland KA, Sparks DL, Kouba AJ, Willard ST, Suen G, Brown AE.

Conserv Physiol. 2018 Jan 6;6(1):cox075. doi: 10.1093/conphys/cox075. eCollection 2018.


Camelina Seed Supplementation at Two Dietary Fat Levels Change Ruminal Bacterial Community Composition in a Dual-Flow Continuous Culture System.

Dai X, Weimer PJ, Dill-McFarland KA, Brandao VLN, Suen G, Faciola AP.

Front Microbiol. 2017 Nov 3;8:2147. doi: 10.3389/fmicb.2017.02147. eCollection 2017.


Assessing the impact of rumen microbial communities on methane emissions and production traits in Holstein cows in a tropical climate.

Cunha CS, Veloso CM, Marcondes MI, Mantovani HC, Tomich TR, Pereira LGR, Ferreira MFL, Dill-McFarland KA, Suen G.

Syst Appl Microbiol. 2017 Dec;40(8):492-499. doi: 10.1016/j.syapm.2017.07.008. Epub 2017 Oct 16.


Effect of Pre-weaning Diet on the Ruminal Archaeal, Bacterial, and Fungal Communities of Dairy Calves.

Dias J, Marcondes MI, Noronha MF, Resende RT, Machado FS, Mantovani HC, Dill-McFarland KA, Suen G.

Front Microbiol. 2017 Aug 15;8:1553. doi: 10.3389/fmicb.2017.01553. eCollection 2017.


Fibrobacter communities in the gastrointestinal tracts of diverse hindgut-fermenting herbivores are distinct from those of the rumen.

Neumann AP, McCormick CA, Suen G.

Environ Microbiol. 2017 Sep;19(9):3768-3783. doi: 10.1111/1462-2920.13878. Epub 2017 Aug 24.


Transient changes in milk production efficiency and bacterial community composition resulting from near-total exchange of ruminal contents between high- and low-efficiency Holstein cows.

Weimer PJ, Cox MS, Vieira de Paula T, Lin M, Hall MB, Suen G.

J Dairy Sci. 2017 Sep;100(9):7165-7182. doi: 10.3168/jds.2017-12746. Epub 2017 Jul 6.


Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association.

La Reau AJ, Meier-Kolthoff JP, Suen G.

Microb Genom. 2016 Dec 12;2(12):e000099. doi: 10.1099/mgen.0.000099. eCollection 2016 Dec.


Microbial succession in the gastrointestinal tract of dairy cows from 2 weeks to first lactation.

Dill-McFarland KA, Breaker JD, Suen G.

Sci Rep. 2017 Jan 18;7:40864. doi: 10.1038/srep40864.


The human laryngeal microbiome: effects of cigarette smoke and reflux.

Jetté ME, Dill-McFarland KA, Hanshew AS, Suen G, Thibeault SL.

Sci Rep. 2016 Oct 24;6:35882. doi: 10.1038/srep35882.


Dietary Shifts May Trigger Dysbiosis and Mucous Stools in Giant Pandas (Ailuropoda melanoleuca).

Williams CL, Dill-McFarland KA, Vandewege MW, Sparks DL, Willard ST, Kouba AJ, Suen G, Brown AE.

Front Microbiol. 2016 May 6;7:661. doi: 10.3389/fmicb.2016.00661. eCollection 2016.


Small genome of the fungus Escovopsis weberi, a specialized disease agent of ant agriculture.

de Man TJ, Stajich JE, Kubicek CP, Teiling C, Chenthamara K, Atanasova L, Druzhinina IS, Levenkova N, Birnbaum SS, Barribeau SM, Bozick BA, Suen G, Currie CR, Gerardo NM.

Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):3567-72. doi: 10.1073/pnas.1518501113. Epub 2016 Mar 14.


Bears Arouse Interest in Microbiota's Role in Health.

Dill-McFarland KA, Suen G, Carey HV.

Trends Microbiol. 2016 Apr;24(4):245-246. doi: 10.1016/j.tim.2016.01.011. Epub 2016 Feb 10.


Evaluating Models of Cellulose Degradation by Fibrobacter succinogenes S85.

Burnet MC, Dohnalkova AC, Neumann AP, Lipton MS, Smith RD, Suen G, Callister SJ.

PLoS One. 2015 Dec 2;10(12):e0143809. doi: 10.1371/journal.pone.0143809. eCollection 2015.


Differences in major bacterial populations in the intestines of mature broilers after feeding virginiamycin or bacitracin methylene disalicylate.

Neumann AP, Suen G.

J Appl Microbiol. 2015 Dec;119(6):1515-26. doi: 10.1111/jam.12960. Epub 2015 Nov 9.


Phylogenetic and amino acid conservation analyses of bacterial L-aspartate-α-decarboxylase and of its zymogen-maturation protein reveal a putative interaction domain.

Stuecker TN, Bramhacharya S, Hodge-Hanson KM, Suen G, Escalante-Semerena JC.

BMC Res Notes. 2015 Aug 15;8:354. doi: 10.1186/s13104-015-1314-6.


Diet specialization selects for an unusual and simplified gut microbiota in two- and three-toed sloths.

Dill-McFarland KA, Weimer PJ, Pauli JN, Peery MZ, Suen G.

Environ Microbiol. 2016 May;18(5):1391-402. doi: 10.1111/1462-2920.13022. Epub 2015 Sep 10.


Ruminal Bacterial Community Composition in Dairy Cows Is Dynamic over the Course of Two Lactations and Correlates with Feed Efficiency.

Jewell KA, McCormick CA, Odt CL, Weimer PJ, Suen G.

Appl Environ Microbiol. 2015 Jul;81(14):4697-710. doi: 10.1128/AEM.00720-15. Epub 2015 May 1.


Bacterial communities in the rumen of Holstein heifers differ when fed orchardgrass as pasture vs. hay.

Mohammed R, Brink GE, Stevenson DM, Neumann AP, Beauchemin KA, Suen G, Weimer PJ.

Front Microbiol. 2014 Dec 9;5:689. doi: 10.3389/fmicb.2014.00689. eCollection 2014.


Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis.

Christopherson MR, Dawson JA, Stevenson DM, Cunningham AC, Bramhacharya S, Weimer PJ, Kendziorski C, Suen G.

BMC Genomics. 2014 Dec 4;15:1066. doi: 10.1186/1471-2164-15-1066.


Convergent bacterial microbiotas in the fungal agricultural systems of insects.

Aylward FO, Suen G, Biedermann PH, Adams AS, Scott JJ, Malfatti SA, Glavina del Rio T, Tringe SG, Poulsen M, Raffa KF, Klepzig KD, Currie CR.

MBio. 2014 Nov 18;5(6):e02077. doi: 10.1128/mBio.02077-14.


Hibernation alters the diversity and composition of mucosa-associated bacteria while enhancing antimicrobial defence in the gut of 13-lined ground squirrels.

Dill-McFarland KA, Neil KL, Zeng A, Sprenger RJ, Kurtz CC, Suen G, Carey HV.

Mol Ecol. 2014 Sep;23(18):4658-69. doi: 10.1111/mec.12884. Epub 2014 Sep 3.


An analysis of the ruminal bacterial microbiota in West African Dwarf sheep fed grass- and tree-based diets.

Omoniyi LA, Jewell KA, Isah OA, Neumann AP, Onwuka CF, Onagbesan OM, Suen G.

J Appl Microbiol. 2014 May;116(5):1094-105. doi: 10.1111/jam.12450. Epub 2014 Feb 13.


A phylogenetic analysis of the phylum Fibrobacteres.

Jewell KA, Scott JJ, Adams SM, Suen G.

Syst Appl Microbiol. 2013 Sep;36(6):376-82. doi: 10.1016/j.syapm.2013.04.002. Epub 2013 Jun 5.


Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality.

Simola DF, Wissler L, Donahue G, Waterhouse RM, Helmkampf M, Roux J, Nygaard S, Glastad KM, Hagen DE, Viljakainen L, Reese JT, Hunt BG, Graur D, Elhaik E, Kriventseva EV, Wen J, Parker BJ, Cash E, Privman E, Childers CP, Muñoz-Torres MC, Boomsma JJ, Bornberg-Bauer E, Currie CR, Elsik CG, Suen G, Goodisman MA, Keller L, Liebig J, Rawls A, Reinberg D, Smith CD, Smith CR, Tsutsui N, Wurm Y, Zdobnov EM, Berger SL, Gadau J.

Genome Res. 2013 Aug;23(8):1235-47. doi: 10.1101/gr.155408.113. Epub 2013 May 1.


Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens.

Aylward FO, Burnum-Johnson KE, Tringe SG, Teiling C, Tremmel DM, Moeller JA, Scott JJ, Barry KW, Piehowski PD, Nicora CD, Malfatti SA, Monroe ME, Purvine SO, Goodwin LA, Smith RD, Weinstock GM, Gerardo NM, Suen G, Lipton MS, Currie CR.

Appl Environ Microbiol. 2013 Jun;79(12):3770-8. doi: 10.1128/AEM.03833-12. Epub 2013 Apr 12.


Comparison of 26 sphingomonad genomes reveals diverse environmental adaptations and biodegradative capabilities.

Aylward FO, McDonald BR, Adams SM, Valenzuela A, Schmidt RA, Goodwin LA, Woyke T, Currie CR, Suen G, Poulsen M.

Appl Environ Microbiol. 2013 Jun;79(12):3724-33. doi: 10.1128/AEM.00518-13. Epub 2013 Apr 5.

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