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Xiangyu Deng

Assistant Professor
  • Center for Food Safety
Mailing Address:
Griffin, CAES Campus
Shipping Address:
Griffin, CAES Campus

Description of Research Interests

Genomics and molecular biology of foodborne pathogens; pathogen subtyping and genomic epidemiology; bioinformatics; microbial phylogenetics and evolution; food microbiology.

SeqSero: A cloud-based software tool for whole genome sequencing based Salmonella serotype determination.

Selected Recent Publications

Deng X, Shariat N, Driebe E, Roe C, Tolar B, Trees E, Keim PS, Zhang W, Dudley EG, Fields PI, Engelthaler DM. 2015. Comparative analysis of subtyping methods against a whole genome sequencing standard in Salmonella enterica serotype Enteritidis. Journal of Clinical Microbiology; 53(1):212-218.

Deng X, Desai PT, den Bakker HC, Mikoleit M, Tolar B, Trees E, Hendriksen RS, Frye, JG, Porwolik S, Weimer BC, Wiedmann M, Weinstock GM, Fields PI, McClelland. 2014. Genomic epidemiology of Salmonella enterica serotype Enteritidis based on population structure of prevalent lineages. Emerging Infectious Diseases 2014 Sep; 20(9):1481-9.

Deng X, Salazar JK, Frezet S, MacCannell D, Ribot EM, Fields PI, Fricke WF, Zhang W: Genome sequence of Salmonella enterica Serotype Tennessee strain CDC07-0191, implicated in the 2006-2007 multistate food-borne outbreak linked to peanut butter in the United States. Genome Announcements. 2013 May/June; 1(3): e00260-13.

Deng X, Allen KJ, Zhang W: Pathogen identification using high-density microarrays. In Encyclopedia of Biotechnology in Agriculture and Food. CRC Press. 2012.

Deng X, Li X, Zhang W: Transcriptome sequencing of Salmonella enterica serovar Enteritidis under desiccation and starvation stress in peanut oil. Food Microbiology. 2012 May; 30(1): 311-315.

Wen J, Deng X, Li Z, Dudley EG, Anantheswaran RC, Knabel SJ, Zhang W: Transcriptomic response of Listeria monocytogenes during transition to long-survival-phase. Applied and Environmental Microbiology. 2011 Sep; 77(17): 5966-5972.     

Deng X, Phillippy AM, Li Z, Salzberg SL, Zhang W: Probing the pan-genome of Listeria monocytogenes: New insights into intraspecific niche expansion and genomic diversification.  BMC Genomics. 2010 Sep 16;11(1):500.

Wang S, Deng K, Zaremba S, Deng X, Lin C, Wang Q, Tortorello ML, Zhang W: Transcriptomic response of Escherichia coli O157:H7 to oxidative stress. Applied and Environmental Microbiology. 2009 Oct 75(19):6110-6123.

Phillippy AM, Deng X, Zhang W, Salzberg SL: Efficient oligonucleotide probe selection for pan-genomic tiling microarrays.  BMC Bioinformatics. 2009 Sep 16;10:293.