Jia, Mo, Geornaras, Ifigenia, Martin, Jennifer Nicole, Belk, Keith, Yang, Hua, (2021) Comparative Whole Genome Analysis of Escherichia coli O157:H7 Isolates From Feedlot Cattle to Identify Genotypes Associated With the Presence and Absence of stx Genes FRONTIERS IN MICROBIOLOGY 12

Davis, Haley Elizabeth, Budde, Ashley Marie, Geornaras, Ifigenia, Lindstrom, Valerie Alissa, Chaparro, Jacqueline Michelle, Yang, Hua, Cross, H. Russell, Gehring, Kerri B., Belk, Keith, Engle, Terry E, Prenni, Jessica E, (2021) Effects of dietary tallow containing trace amounts of ractopamine on beef cattle performance and tissue residue levels and the effect of withdrawal time on ractopamine residues in the gastrointestinal-tract digesta APPLIED ANIMAL SCIENCE 37 4 460-469

Davis, Haley Elizabeth, Budde, Ashley Marie, Geornaras, Gina, Lindstrom, Valerie Alissa, Chaparro, Jacqueline Michelle, Yang, Hua, Cross, H Russell, Gehring, Kerri B, Belk, Keith, Engle, Terry E, Prenni, Jessica E, (2021) Effects of dietary tallow containing trace amounts of ractopamine on beef cattle performance and tissue residue levels and the effect of withdrawal time on ractopamine residues in the gastrointestinal tract digesta Applied Animal Science 37 460-469

Jia, Mo, Geornaras, Gina, Martin, Jennifer Nicole, Belk, Keith, Yang, Hua, (2021) Comparative whole genome analysis of Escherichia coli O157:H7 isolates from feedlot cattle to identify genotypes associated with the presence and absence of stx genes Frontiers in Microbiology

Liu, Tianqing, Bosilevac, Joseph M, Wheeler, Tommy, Arthur, Terrance, Jia, Mo, Geornaras, Ifigenia, Dutta, Vikrant, Belk, Keith E, Yang, Hua, (2020) "Evaluation of GENE-UP® New Markers EHEC for detection of Shiga toxin-producing Escherichia coli in MicroTally sheets collected from beef carcasses" Journal of Food Protection 83 Supplement A 157

Thomas, K.M., Weinroth, Margaret Dorothy, Doster, Enrique, Parker, J., Vikram, A., Arthur, Tori O, Schmidt, J., Metcalf, Jess Lynne, Nair, M., Delmore, R., Yang, Hua, Wheeler, T., Morley, P.S., Belk, K.E., (2018) "Comparison of the resistome and microbiome of conventional and natural ground beef products" Proc. 99th Ann. Confer. Res. Workers Anim

Doster, Enrique, Thomas, K.M., Weinroth, Margaret Dorothy, Parker, J., Vikram, A., Arthur, Tori O, Schmidt, J., Metcalf, Jess Lynne, Nair, M., Delmore, R., Yang, Hua, Wheeler, T., Belk, K.E., Morley, P.S., (2018) "Metagenomic characterization of the microbiome and resistome in ground beef" Proc. 99th Ann. Confer. Res. Workers Anim

Jia, Mo, Yang, Hua, Geornaras, Gina, Belk, Keith, (2018) "Sequence-specific removal of STECs via CRISPR-Cas9 system" The National Provisioner 232 2 12-13

Thomas, K.M., Weinroth, Margaret Dorothy, Vikram, A., Schmidt, J., Arthur, Tori O, Wheeler, T., Parker, J.K., Metcalf, Jess Lynne, Woerner, Dale Ray, Delmore, R., Yang, Hua, Morley, P.S., Belk, K.E., (2018) "A comparison of the prevalence of antibiotic resistant bacteria found in ground beef from conventionally and naturally raised cattle" Intl. Assoc. Food Prot. Ann. Meeting

Kiel, Rinara Cely, Martin, Jennifer Nicole, Woerner, Dale Ray, Murphy, Rachel Lynn, Geornaras, Gina, Levey, Jennifer Rose, Yang, Hua, Delmore, Bob J, Belk, Keith, (2018) Influence of Storage Temperature, Moisture Content, and Physical Impurities on the Distribution and Survival of Salmonella enterica in Poultry Fat Intended for Pet Food Use JOURNAL OF FOOD PROTECTION 81 8 1364-1372

Jia, Mo, Geornaras, I., Belk, K.E., Yang, Hua, (2017) "Sequence-specific removal of shiga toxin-producing Escherichia coli using the CRISPR-Cas9 system" Proc. 70th Recip. Meat Conf

Thomas, K.M., Weinroth, Margaret Dorothy, Doster, Enrique, Huebner, K.L., Parker, J.K., Metcalf, Jess Lynne, Woerner, Dale Ray, Delmore, R., Yang, Hua, Arthur, Tori O, Schmidt, J., Wheeler, T., Morley, P.S., Belk, K.E., (2017) "The characterization of retail ground beef microbiome" Proc. 98th Ann. Conf. Res. Workers in Animal Diseases

Noyes, Noelle Robertson, Yang, Xiang, Linke, Lyndsey M, Magnuson, Roberta J, Cook, Shaun R, Zaheer, Rahat, Yang, Hua, Woerner, Dale Ray, Geornaras, Gina, McArt, Jessica Anne Allerton, Gow, Sheryl P, Ruiz, Jaime, Jones, Kenneth L, Boucher, Christina A, McAllister, Tim A, Belk, Keith, Morley, Paul S, (2016) Characterization of the resistome in manure, soil and wastewater from dairy and beef production systems Scientific reports 6 24645

Murphy, R.L., Woerner, D.R., Geornaras, I., Martin, J.N., Yang, Hua, Sofos, J.N., Delmore, R.J., Belk, K.E., (2016) "Determining process lethality of escherichia coli o157:h7 and Salmonella in heat treated, rendered oil" 69th Reciprocal Meat Conference

Yang, Hua, Carlson, Brandon, Geornaras, Gina, Woerner, Dale Ray, Sofos, John N, Belk, Keith, (2016) Draft genome sequence of Shiga toxin-negative Escherichia coli O157: H7 strain C1-057, isolated from feedlot cattle Genome announcements 4 2 e00049–16

Davis, H.E., Adler, J.M., Delmore, R.J., Geornaras, I., Martin, J.N., Woerner, D.R., Yang, Hua, Belk, K.E., (2016) "Electrostatic antimicrobial application to beef trim and poultry parts" 14th Beef Industry Safety Summit, Beef Industry Food Safety Council 1–3,

Noyes, Noelle Robertson, Yang, Xiang, Linke, Lyndsey M, Magnuson, Roberta J, Dettenwanger, Adam, Cook, Shaun, Geornaras, Gina, Woerner, Dale Ray, Gow, Sheryl P, McAllister, Tim A, Yang, Hua, Ruiz, Jaime, Jones, Kenneth L, Boucher, Christina A, Morley, Paul S, Belk, Keith, (2016) Resistome diversity in cattle and the environment decreases during beef production ELife 5 e13195

Weissend, C.J., Woerner, D.R., Martin, J.N., Geornaras, Gina, Engle, Terry E, Yang, Hua, Delmore, R., Belk, Keith, (2016) "The effect of storage on the shelf life of two lean points of fresh ground beef displayed in 2 different packaging formats" 68th Reciprocal Meat Conference

Noyes, Noelle Robertson, Yang, Xiang, Linke, Lyndsey M, Magnuson, Roberta J, Dettenwanger, A, Cook, S, Geornaras, Gina, Woerner, Dale Ray, Gow, S, McAllister, T, Yang, Hua, Ruiz, Jaime G, Jones, K, Boucher, Christina Anne, Morley, Paul S, Belk, Keith, (2016) Use of metagenomic shotgun sequencing technology to detect foodborne pathogens within the microbiome of the beef production chain. eLife 5 e13195

Yang, Hua, Wei, H, Ma, G, Antunes, Mauricio S, Vogt, S, Cox, James M, Zhang, Xuan, Liu, Xiaoming, Bu, L, Gleber, S C, Carpita, N C, Makowski, L, Himmel, M E, Tucker, M P, McCann, M C, Murphy, A S, Peer, W A, (2016) Cell wall targeted in planta iron accumulation enhances biomass conversion and seed iron concentration in Arabidopsis and rice. Plant biotechnology journal 14 10 1998-2009

Yang, Xiang, Noyes, Noelle Robertson, Doster, E, Martin, Jennifer Nicole, Linke, Lyndsey M, Magnuson, Roberta J, Yang, Hua, Geornaras, Gina, Woerner, Dale Ray, Jones, Kevin, Ruiz, Jaime G, Boucher, Christina Anne, Morley, Paul S, Belk, Keith, (2016) Use of metagenomic shotgun sequencing technology to detect foodborne pathogens within their microbiome in beef production chain. Applied and environmental microbiology 82 2433-2443

N.R., Noyes, Yang, Xiang, Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) "Microbiome-resistome dynamics in beef production" 21st Annual Front Range Student Ecology Symposium

N.R., Noyes, Yang, Xiang, Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) Shotgun metagenomic sequencing reveals lack of antimicrobial resistance in beef Beef Industry Safety Summit

N.R., Noyes, Yang, Xiang, Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) "The pre-retail beef resistome accessed using shotgun metaenomics" Annual Colorado State University Graduate Student Showcase 1st

R., Noyes N., Yang, Xiang, Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) "The pre-retail beef resistome accessed using shotgun metagenomics" 4th ASM Conf. Antimicrobial Resistance in Zoonotic Bacteria and Foodborne Pathogens

Yang, Xiang, Noyes, N.R., Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) "Use of metagenomic high-throughput sequencing technology and robust bioinformatics to detect foodborne pathogens of cattle, their environments, and beef products" The 13th Beef Industry Safety Summit, Beef Industry Food Safety Council 3–5,

Yang, Xiang, Noyes, N.R., Doster, Enrique, Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2015) "Use of metagenomic high-throughput sequencing to understand antimicrobial resistance and for pathogen detection in beef production" 6th Public Health Symposium, Microbial Ecology in a Changing World: Emerging Issue on Antimicrobial Resistance

R., Noyes N., Xiang, Y., McArt, J.A., Linke, L.M., Magnuson, R.J., Yang, Hua, Dettenwanger, A., Jones, K., Boucher, Christina Anne, Belk, K.E., Morley, P.S., (2015) "Using metagenomics to unlock the ecology of antimicrobial resistance in cattle production systems" 16th Ann. CVMBS Res. Day

Y., Xiang, Noyes, N.R., Linke, L.M., Magnuson, R.J., Dettenwanger, A.T., Boucher, C.A., Geornaras, I., Yang, Hua, Woerner, D.R., Jones, K.L., Morley, P.S., Belk, K.E., (2014) "Use of metagenomic high-throughput sequencing technology and robust bioinformatics to assess the microbiome of cattle, their environments, and beef products to determine the degree of antimicrobial resistance" AMSA Recip. Meat Conf. 23–24

N.R., Noyes, Xiang, Y., Linke, L.M., Magnuson, R.J., Geornaras, I., Yang, Hua, Woerner, D.R., Dettenwanger, A., Jones, K., Boucher, Christina Anne, Belk, K.E., Morley, P.S., (2014) "Using Metagenomics to Understand the Ecology of Antimicrobial Resistance in Beef Feedlot Production Systems" Nucleic Acids Summit, 4th Next-Generation Sequencing Conference

R., Noyes N., Y, Xiang, McArt, Jessica Anne Allerton, Linke, L.M., Magnuson, R.J., Yang, Hua, Dettenwanger, A., Jones, K.L., Boucher, Christina Anne, Belk, K.E., Morley, P.S., (2014) "Using metagenomics to unlock the ecology of antimicrobial resistance in cattle production systems" 95th Ann. Conf. Res. Workers in Animal Diseases

Belk, Keith, Woerner, Dale Ray, Delmore, Bob J, Tatum, Joseph Daryl, Yang, Hua, Sofos, John N, (2014) The meat industry: do we think and behave globally or locally? Meat science 98 3 556-60

Fouladkhah, Aliyar, Geornaras, Gina, Yang, Hua, Sofos, John N, (2013) Lactic acid resistance of Shiga toxin-producing Escherichia coli and multidrug-resistant and susceptible Salmonella Typhimurium and Salmonella Newport in meat homogenate Food Microbiol. 36 260-266

Yang, Hua, Kruh-Garcia, Nicole Ann, Dobos, Karen Marie, (2012) Purified protein derivatives of tuberculin--past, present, and future. FEMS immunology and medical microbiology 66 3 273-80

Castillo, E F, Dekonenko, A, Arko-Mensah, J, Mandell, M A, Dupont, N, Jiang, S, Delgado-Vargas, M, Timmins, G S, Bhattacharya, D, Yang, Hua, Hutt, J, Lyons, C R, Dobos, Karen Marie, Deretic, V, (2012) Autophagy protects against active tuberculosis by suppressing bacterial burden and inflammation. Proceedings of the National Academy of Sciences of the United States of America 109 46 E3168-76

Geornaras, Gina, Yang, Hua, Moschonas, G, Nunnelly, M C, Belk, Keith, Nightingale, K K, Woerner, Dale Ray, Smith, Gary C, Sofos, John N, (2012) Efficacy of chemical interventions against Escherichia coli O157:H7 and multidrug-resistant and antibiotic-susceptible Salmonella on inoculated beef trimmings. Journal of food protection 75 11 1960-7

Fouladkhah, A, Geornaras, Gina, Yang, Hua, Belk, Keith, Nightingale, K K, Woerner, Dale Ray, Smith, Gary C, Sofos, John N, (2012) Sensitivity of Shiga toxin-producing Escherichia coli, multidrug-resistant Salmonella, and antibiotic-susceptible Salmonella to lactic acid on inoculated beef trimmings. Journal of food protection 75 10 1751-8

Geornaras, Gina, Yang, Hua, Manios, S, Andritsos, N, Belk, Keith, Nightingale, K K, Woerner, Dale Ray, Smith, Gary C, Sofos, John N, (2012) Comparison of decontamination efficacy of antimicrobial treatments for beef trimmings against Escherichia coli O157:H7 and 6 non-O157 Shiga toxin-producing E. coli serogroups. Journal of food science 77 9 M539-44

Cho, Y S, Dobos, Karen Marie, Prenni, J, Yang, Hua, Hess, Ann Marie, Rosenkrands, I, Andersen, P, Ryoo, S W, Bai, G H, Brennan, M J, Izzo, Angelo A, Bielefeldt-Ohmann, H, Belisle, John T, (2012) Deciphering the proteome of the in vivo diagnostic reagent "purified protein derivative" from Mycobacterium tuberculosis. Proteomics 12 7 979-91

Cho, Y S, Dobos, Karen Marie, Prenni, J, Yang, Hua, Hess, Ann Marie, Rosenkrands, I, Andersen, P, Ryoo, S W, Bai, G H, Brennan, M J, Izzo, Angelo A, Bielefeldt-Ohmann, H, Belisle, John T, (2012) Deciphering the proteome of the in vivo diagnostic reagent "purified protein derivative" from Mycobacterium tuberculosis. Proteomics 12 7 979-91

Yang, Hua, Troudt, JoLynn M, Grover, Ajay, Arnett, Kimberly A, Lucas, Megan C, Cho, Y., Bielefeldt-Ohmann, H., Taylor, Jennifer L, Izzo, Angelo A, Dobos, Karen Marie, (2011) "Three protein-cocktails mediate DTH responses indistinguishable from PPD in the guinea pig model of Mycobacterium" Infect Immuniology

Yang, Hua, Troudt, JoLynn M, Grover, Ajay, Arnett, Kimberly A, Lucas, Megan C, Cho, Y S, Bielefeldt-Ohmann, H, McLean, Jennifer Lynn, Izzo, Angelo A, Dobos, Karen Marie, (2011) Three protein cocktails mediate delayed-type hypersensitivity responses indistinguishable from that elicited by purified protein derivative in the guinea pig model of Mycobacterium tuberculosis infection. Infection and immunity 79 2 716-23

Yang, Hua, Byelashov, O A, Geornaras, Gina, Goodridge, Lawrence, Nightingale, K K, Belk, Keith, Smith, Gary C, Sofos, John N, (2010) Characterization and transferability of class 1 integrons in commensal bacteria isolated from farm and nonfarm environments. Foodborne pathogens and disease 7 12 1441-51

Yang, Hua, Byelashov, O A, Geornaras, Gina, Goodridge, Lawrence, Nightingale, K K, Belk, Keith, Smith, Gary C, Sofos, John N, (2010) Presence of antibiotic-resistant commensal bacteria in samples from agricultural, city, and national park environments evaluated by standard culture and real-time PCR methods. Canadian journal of microbiology 56 9 761-70

Deenadayalan, A, Heaslip, D, Rajendiran, A A, Velayudham, B V, Frederick, S, Yang, Hua, Dobos, Karen Marie, Belisle, John T, Raja, A, (2010) Immunoproteomic identification of human T cell antigens of Mycobacterium tuberculosis that differentiate healthy contacts from tuberculosis patients. Molecular & cellular proteomics : MCP 9 3 538-49

Byelashov, O.A., Yang, Hua, Belk, K.E., Smith, G.C., Goodridge, Lawrence, Nightingale, K.K., Sofos, J.N., (2009) "Prevalence of potentially antibiotic-resistant bacteria carrying class 1 integrons in water and fecal samples from farm, urban, and natural environments" 69th Annual Meeting of the Institute of Food Technologists

Yang, Hua, Byelashov, O.A., Geornaras, I., Goodridge, Lawrence, Nightingale, K.K., Belk, K.E., Smith, G.C., Sofos, J.N., (2009) "Screening for Antibiotic-Resistance Genes and Class 1 Integrons in Commensal Bacteria in Agricultural and Other Environments and Their Potential Transfer to Pathogenic Bacteria" Final Report to the National Cattlemen's Beef Association 1–57

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