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Draft Genome Sequences of 43 Enterococcus faecalis and Enterococcus faecium Isolates from a Commercial Beef Processing Plant and Retail Ground Beef.

Holman DB, Gzyl KE, Zaheer R, Jones TH, McAllister TA.

Microbiol Resour Announc. 2019 Oct 17;8(42). pii: e00974-19. doi: 10.1128/MRA.00974-19.


A Pine Enhanced Biochar Does Not Decrease Enteric CH4 Emissions, but Alters the Rumen Microbiota.

Terry SA, Ribeiro GO, Gruninger RJ, Chaves AV, Beauchemin KA, Okine E, McAllister TA.

Front Vet Sci. 2019 Sep 17;6:308. doi: 10.3389/fvets.2019.00308. eCollection 2019.


Antibiofilm activity and modes of action of a novel β-sheet peptide against multidrug-resistant Salmonella enterica.

Ma Z, Zhang R, Hai D, Lu Z, Lv F, Zhao H, Zhang C, McAllister TA, Stanford K, Bie X.

Food Res Int. 2019 Nov;125:108520. doi: 10.1016/j.foodres.2019.108520. Epub 2019 Jun 24.


Presence and Diversity of Extended-Spectrum Cephalosporin Resistance Among Escherichia coli from Urban Wastewater and Feedlot Cattle, in Alberta, Canada.

Cormier AC, Chalmers G, Cook SR, Zaheer R, Hannon SJ, Booker CW, Read RR, Gow SP, McAllister TA, Boerlin P.

Microb Drug Resist. 2019 Sep 25. doi: 10.1089/mdr.2019.0112. [Epub ahead of print]


Plasmid Distribution among Escherichia coli from Livestock and Associated Wastewater: Unraveling Factors That Shape the Presence of Genes Conferring Third-Generation Cephalosporin Resistance.

Tymensen L, Booker CW, Hannon SJ, Cook SR, Jokinen CC, Zaheer R, Read R, Boerlin P, McAllister TA.

Environ Sci Technol. 2019 Oct 15;53(20):11666-11674. doi: 10.1021/acs.est.9b03486. Epub 2019 Oct 1.


Comparative diversity of microbiomes and Resistomes in beef feedlots, downstream environments and urban sewage influent.

Zaheer R, Lakin SM, Polo RO, Cook SR, Larney FJ, Morley PS, Booker CW, Hannon SJ, Van Domselaar G, Read RR, McAllister TA.

BMC Microbiol. 2019 Aug 27;19(1):197. doi: 10.1186/s12866-019-1548-x.


Bacteriocin Occurrence and Activity in Escherichia coli Isolated from Bovines and Wastewater.

Cameron A, Zaheer R, Adator EH, Barbieri R, Reuter T, McAllister TA.

Toxins (Basel). 2019 Aug 15;11(8). pii: E475. doi: 10.3390/toxins11080475.


Characterization of Non-O157 Escherichia coli from Cattle Faecal Samples in the North-West Province of South Africa.

Bumunang EW, McAllister TA, Zaheer R, Ortega Polo R, Stanford K, King R, Niu YD, Ateba CN.

Microorganisms. 2019 Aug 20;7(8). pii: E272. doi: 10.3390/microorganisms7080272.


Ruminally protected and unprotected Saccharomyces cerevisiae fermentation products as alternatives to antibiotics in finishing beef steers1.

Shen Y, Davedow T, Ran T, Saleem AM, Yoon I, Narvaez C, Mcallister TA, Yang W.

J Anim Sci. 2019 Oct 3;97(10):4323-4333. doi: 10.1093/jas/skz270.


Effect of exogenous fibrolytic enzymes and ammonia fiber expansion on the fermentation of wheat straw in an artificial rumen system (RUSITEC)1.

Saleem AM, Ribeiro GO, Sanderson H, Alipour D, Brand T, Hünerberg M, Yang WZ, Santos LV, McAllister TA.

J Anim Sci. 2019 Jul 30;97(8):3535-3549. doi: 10.1093/jas/skz224.


Effects of a recombinant fibrolytic enzyme on fiber digestion, ruminal fermentation, nitrogen balance, and total tract digestibility of heifers fed a high forage diet1.

Ran T, Saleem AM, Shen Y, Ribeiro GO, Beauchemin KA, Tsang A, Yang W, McAllister TA.

J Anim Sci. 2019 Jul 30;97(8):3578-3587. doi: 10.1093/jas/skz216.


Invited review: Application of meta-omics to understand the dynamic nature of the rumen microbiome and how it responds to diet in ruminants.

Gruninger RJ, Ribeiro GO, Cameron A, McAllister TA.

Animal. 2019 Sep;13(9):1843-1854. doi: 10.1017/S1751731119000752. Epub 2019 May 7.


Biofilm Formation by Shiga Toxin-Producing Escherichia coli on Stainless Steel Coupons as Affected by Temperature and Incubation Time.

Ma Z, Bumunang EW, Stanford K, Bie X, Niu YD, McAllister TA.

Microorganisms. 2019 Mar 31;7(4). pii: E95. doi: 10.3390/microorganisms7040095.


Lower Respiratory Tract Microbiome and Resistome of Bovine Respiratory Disease Mortalities.

Klima CL, Holman DB, Ralston BJ, Stanford K, Zaheer R, Alexander TW, McAllister TA.

Microb Ecol. 2019 Aug;78(2):446-456. doi: 10.1007/s00248-019-01361-3. Epub 2019 Mar 27.


Characterization of the rumen and fecal microbiome in bloated and non-bloated cattle grazing alfalfa pastures and subjected to bloat prevention strategies.

Azad E, Derakhshani H, Forster RJ, Gruninger RJ, Acharya S, McAllister TA, Khafipour E.

Sci Rep. 2019 Mar 12;9(1):4272. doi: 10.1038/s41598-019-41017-3.


Serotyping and antimicrobial resistance of Mannheimia haemolytica strains from European cattle with bovine respiratory disease.

Andrés-Lasheras S, Zaheer R, Klima C, Sanderson H, Ortega Polo R, Milani MRM, Vertenten G, McAllister TA.

Res Vet Sci. 2019 Jun;124:10-12. doi: 10.1016/j.rvsc.2018.12.021. Epub 2019 Feb 12.


Impact of Saccharomyces cerevisiae and Lactobacillus buchneri on microbial communities during ensiling and aerobic spoilage of corn silage1.

Xu S, Yang J, Qi M, Smiley B, Rutherford W, Wang Y, McAllister TA.

J Anim Sci. 2019 Mar 1;97(3):1273-1285. doi: 10.1093/jas/skz021.


Functional screening for triclosan resistance in a wastewater metagenome and isolates of Escherichia coli and Enterococcus spp. from a large Canadian healthcare region.

Cameron A, Barbieri R, Read R, Church D, Adator EH, Zaheer R, McAllister TA.

PLoS One. 2019 Jan 24;14(1):e0211144. doi: 10.1371/journal.pone.0211144. eCollection 2019.


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.


Evaluation of compost, vegetable and food waste as amendments to improve the composting of NaOH/NaClO-contaminated poultry manure.

Liu Y, Wang W, Xu J, Xue H, Stanford K, McAllister TA, Xu W.

PLoS One. 2018 Oct 11;13(10):e0205112. doi: 10.1371/journal.pone.0205112. eCollection 2018.


Humic substances reduce ruminal methane production and increase the efficiency of microbial protein synthesis in vitro.

Sheng P, Ribeiro GO, Wang Y, McAllister TA.

J Sci Food Agric. 2019 Mar 30;99(5):2152-2157. doi: 10.1002/jsfa.9407. Epub 2018 Nov 15.


Effect of humic substances on rumen fermentation, nutrient digestibility, methane emissions, and rumen microbiota in beef heifers.

Terry SA, Ribeiro GO, Gruninger RJ, Hunerberg M, Ping S, Chaves AV, Burlet J, Beauchemin KA, McAllister TA.

J Anim Sci. 2018 Aug 29. doi: 10.1093/jas/sky265. [Epub ahead of print]


Effects of Feeding a Mycotoxin Binder on Nutrient Digestibility, Alkaloid Recovery in Feces, and Performance of Lambs Fed Diets Contaminated with Cereal Ergot.

Stanford K, Swift ML, Wang Y, McAllister TA, McKinnon J, Blakley B, Chaves AV.

Toxins (Basel). 2018 Aug 1;10(8). pii: E312. doi: 10.3390/toxins10080312.


New recombinant fibrolytic enzymes for improved in vitro ruminal fiber degradability of barley straw.

Ribeiro GO, Badhan A, Huang J, Beauchemin KA, Yang W, Wang Y, Tsang A, McAllister TA.

J Anim Sci. 2018 Jul 20. doi: 10.1093/jas/sky251. [Epub ahead of print]


Variability in Characterizing Escherichia coli from Cattle Feces: A Cautionary Tale.

Stanford K, Reuter T, Hallewell J, Tostes R, Alexander TW, McAllister TA.

Microorganisms. 2018 Jul 21;6(3). pii: E74. doi: 10.3390/microorganisms6030074.


Humic Substances Alter Ammonia Production and the Microbial Populations Within a RUSITEC Fed a Mixed Hay - Concentrate Diet.

Terry SA, Ramos AFO, Holman DB, McAllister TA, Breves G, Chaves AV.

Front Microbiol. 2018 Jul 2;9:1410. doi: 10.3389/fmicb.2018.01410. eCollection 2018.


Zoonotic Fecal Pathogens and Antimicrobial Resistance in Canadian Petting Zoos.

Conrad CC, Stanford K, Narvaez-Bravo C, Neumann NF, Munns K, Tymensen L, Jokinen C, McAllister TA.

Microorganisms. 2018 Jul 16;6(3). pii: E70. doi: 10.3390/microorganisms6030070.


Effect of fibrolytic enzymes on lactational performance, feeding behavior, and digestibility in high-producing dairy cows fed a barley silage-based diet.

Refat B, Christensen DA, McKinnon JJ, Yang W, Beattie AD, McAllister TA, Eun JS, Abdel-Rahman GA, Yu P.

J Dairy Sci. 2018 Sep;101(9):7971-7979. doi: 10.3168/jds.2017-14203. Epub 2018 Jun 28.


Effects of the inclusion of Moringa oleifera seed on rumen fermentation and methane production in a beef cattle diet using the rumen simulation technique (Rusitec).

Lins TOJD, Terry SA, Silva RR, Pereira LGR, Jancewicz LJ, He ML, Wang Y, McAllister TA, Chaves AV.

Animal. 2019 Feb;13(2):283-291. doi: 10.1017/S1751731118001428. Epub 2018 Jun 29.


Effect of engineered biocarbon on rumen fermentation, microbial protein synthesis, and methane production in an artificial rumen (RUSITEC) fed a high forage diet.

Saleem AM, Ribeiro GO Jr, Yang WZ, Ran T, Beauchemin KA, McGeough EJ, Ominski KH, Okine EK, McAllister TA.

J Anim Sci. 2018 Jul 28;96(8):3121-3130. doi: 10.1093/jas/sky204.


Changes in Rumen Microbial Profiles and Subcutaneous Fat Composition When Feeding Extruded Flaxseed Mixed With or Before Hay.

Petri RM, Vahmani P, Yang HE, Dugan MER, McAllister TA.

Front Microbiol. 2018 May 25;9:1055. doi: 10.3389/fmicb.2018.01055. eCollection 2018.


Isolation of High Quality RNA for Metatranscriptomic Analysis of Lignocellulose Digestion in the Rumen.

Gruninger RJ, Forster RJ, McAllister TA.

Methods Mol Biol. 2018;1775:75-82. doi: 10.1007/978-1-4939-7804-5_7.


Clonal expansion of environmentally-adapted Escherichia coli contributes to propagation of antibiotic resistance genes in beef cattle feedlots.

Tymensen L, Zaheer R, Cook SR, Amoako KK, Goji N, Read R, Booker CW, Hannon SJ, Neumann N, McAllister TA.

Sci Total Environ. 2018 Oct 1;637-638:657-664. doi: 10.1016/j.scitotenv.2018.05.021. Epub 2018 May 11.


Water use intensity of Canadian beef production in 1981 as compared to 2011.

Legesse G, Cordeiro MRC, Ominski KH, Beauchemin KA, Kroebel R, McGeough EJ, Pogue S, McAllister TA.

Sci Total Environ. 2018 Apr 1;619-620:1030-1039. doi: 10.1016/j.scitotenv.2017.11.194. Epub 2017 Nov 29.


Lactobacilli Are Prominent Members of the Microbiota Involved in the Ruminal Digestion of Barley and Corn.

Yang HE, Zotti CA, McKinnon JJ, McAllister TA.

Front Microbiol. 2018 Apr 10;9:718. doi: 10.3389/fmicb.2018.00718. eCollection 2018.


Silage review: Using molecular approaches to define the microbial ecology of silage.

McAllister TA, Dunière L, Drouin P, Xu S, Wang Y, Munns K, Zaheer R.

J Dairy Sci. 2018 May;101(5):4060-4074. doi: 10.3168/jds.2017-13704. Review.


Silage review: Unique challenges of silages made in hot and cold regions.

Bernardes TF, Daniel JLP, Adesogan AT, McAllister TA, Drouin P, Nussio LG, Huhtanen P, Tremblay GF, Bélanger G, Cai Y.

J Dairy Sci. 2018 May;101(5):4001-4019. doi: 10.3168/jds.2017-13703. Review.


Silage review: Recent advances and future uses of silage additives.

Muck RE, Nadeau EMG, McAllister TA, Contreras-Govea FE, Santos MC, Kung L Jr.

J Dairy Sci. 2018 May;101(5):3980-4000. doi: 10.3168/jds.2017-13839. Review.


Impact of sequencing depth on the characterization of the microbiome and resistome.

Zaheer R, Noyes N, Ortega Polo R, Cook SR, Marinier E, Van Domselaar G, Belk KE, Morley PS, McAllister TA.

Sci Rep. 2018 Apr 12;8(1):5890. doi: 10.1038/s41598-018-24280-8.


Identification of novel enzymes to enhance the ruminal digestion of barley straw.

Badhan A, Ribeiro GO Jr, Jones DR, Wang Y, Abbott DW, Di Falco M, Tsang A, McAllister TA.

Bioresour Technol. 2018 Jul;260:76-84. doi: 10.1016/j.biortech.2018.03.086. Epub 2018 Mar 28.


Characterization of Condensed Tannins from Purple Prairie Clover (Dalea purpurea Vent.) Conserved as either Freeze-Dried Forage, Sun-Cured Hay or Silage.

Peng K, Huang Q, Xu Z, McAllister TA, Acharya S, Mueller-Harvey I, Drake C, Cao J, Huang Y, Sun Y, Wang S, Wang Y.

Molecules. 2018 Mar 6;23(3). pii: E586. doi: 10.3390/molecules23030586.


A Novel aadA Aminoglycoside Resistance Gene in Bovine and Porcine Pathogens.

Cameron A, Klima CL, Ha R, Gruninger RJ, Zaheer R, McAllister TA.

mSphere. 2018 Feb 28;3(1). pii: e00568-17. doi: 10.1128/mSphere.00568-17. eCollection 2018 Jan-Feb.


Effects of Condensed and Hydrolyzable Tannins on Rumen Metabolism with Emphasis on the Biohydrogenation of Unsaturated Fatty Acids.

Costa M, Alves SP, Cappucci A, Cook SR, Duarte A, Caldeira RM, McAllister TA, Bessa RJB.

J Agric Food Chem. 2018 Apr 4;66(13):3367-3377. doi: 10.1021/acs.jafc.7b04770. Epub 2018 Mar 20.


Air-Dried Brown Seaweed, Ascophyllum nodosum, Alters the Rumen Microbiome in a Manner That Changes Rumen Fermentation Profiles and Lowers the Prevalence of Foodborne Pathogens.

Zhou M, Hünerberg M, Chen Y, Reuter T, McAllister TA, Evans F, Critchley AT, Guan LL.

mSphere. 2018 Jan 31;3(1). pii: e00017-18. doi: 10.1128/mSphere.00017-18. eCollection 2018 Jan-Feb.


Comparison of antimicrobial resistance genes in feedlots and urban wastewater.

Beukers AG, Zaheer R, Cook SR, Chaves AV, Ward MP, Tymensen L, Morley PS, Hannon S, Booker CW, Read RR, McAllister TA.

Can J Vet Res. 2018 Jan;82(1):24-38.


In silico identification and high throughput screening of antigenic proteins as candidates for a Mannheimia haemolytica vaccine.

Klima CL, Zaheer R, Cook SR, Rasmussen J, Alexander TW, Potter A, Hendrick S, McAllister TA.

Vet Immunol Immunopathol. 2018 Jan;195:19-24. doi: 10.1016/j.vetimm.2017.11.004. Epub 2017 Nov 7.


Condensed Tannins Affect Bacterial and Fungal Microbiomes and Mycotoxin Production during Ensiling and upon Aerobic Exposure.

Peng K, Jin L, Niu YD, Huang Q, McAllister TA, Yang HE, Denise H, Xu Z, Acharya S, Wang S, Wang Y.

Appl Environ Microbiol. 2018 Feb 14;84(5). pii: e02274-17. doi: 10.1128/AEM.02274-17. Print 2018 Mar 1.


Dissipation of antimicrobial resistance genes in compost originating from cattle manure after direct oral administration or post-excretion fortification of antimicrobials.

Xu S, Amarakoon ID, Zaheer R, Smith A, Sura S, Wang G, Reuter T, Zvomuya F, Cessna AJ, Larney FJ, McAllister TA.

J Environ Sci Health A Tox Hazard Subst Environ Eng. 2018 Mar 21;53(4):373-384. doi: 10.1080/10934529.2017.1404337. Epub 2017 Dec 7.


Interactions of the Hindgut Mucosa-Associated Microbiome with Its Host Regulate Shedding of Escherichia coli O157:H7 by Cattle.

Wang O, McAllister TA, Plastow G, Stanford K, Selinger B, Guan LL.

Appl Environ Microbiol. 2017 Dec 15;84(1). pii: e01738-17. doi: 10.1128/AEM.01738-17. Print 2018 Jan 1.


Monensin and a blend of castor oil and cashew nut shell liquid used in a high-concentrate diet abruptly fed to Nellore cattle.

Zotti CA, Silva AP, Carvalho R, Marino CT, Rodrigues PHM, Silva LFP, McAllister TA, Leme PR.

J Anim Sci. 2017 Sep;95(9):4124-4138. doi: 10.2527/jas2017.1580.


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