Amy Biddle

Photo of Amy Biddle
Department of Animal and Food Sciences

Amy Biddle

Assistant Professor of Animal Science

Office location:
531 S. College Avenue
034 Townsend Hall
Newark, DE 19716


  • Ph.D. Microbiology, University of Massachusetts, Amherst
  • M.Ed. Education, Antioch New England
  • B.S. Biological Sciences, University of New Hampshire

Current courses

  • Equine Science


The equine microbiome in health and disease. Current projects include: correlating bacterial community profiles with blood markers in lean and obese horses, identifying differences related to age and metabolic diseases, and identifying bacteria associated with small strongyle parasites.

Petit E, Coppi MV, Hayes JC, Tolonen AC, Warnick T, Latouf WG, Amisano D, Biddle A, Mukherjee S, Ivanova N, Lykidis A, Land M, Hauser L, Kyrpides N, Henrissat B, Lau J, SchnellDJ, Church GM, Leschine SB, Blanchard JL. 2015. Genome and transcriptome of Clostridium phytofermentans, catalyst for the direct conversion of plant feedstocks to fuels. PLoS ONE. 10(6): e0118285. doi: 10.1371/journal.pone.0118285.

Biddle AS, Leschine S, Huntemann M, Han J, Chen A, Krypides N, Markowitz V, Palaniappan K, Ivanova N, Mikhailova N, Ovchinnikova G, Schaumberg A, Pati A, Stamatis D, Reddy T, Lobos E, Goodwin L, Nordberg HP, Cantor MN, Hua SX, Woyke T, Blanchard JL. 2013. The complete genome sequence of Clostridium indolis DSM 755. Standards in Genomic Sciences. 9(3). doi:10.4056/sigs.5281010.

Biddle AS, Black SJ, Blanchard JL. 2013. An in vitro model of the horse gut microbiome enables identification of lactate-utilizing bacteria that differentially respond to starch induction. PLoS ONE. 8(10): e77599. doi:10.1371/journal.pone.0077599.

Biddle AS, Stewart L, Blanchard JL, Leschine S. 2013. Untangling the Genetic Basis of Fibrolytic Specialization by Lachnospiraceae and Ruminococcaceae in Diverse Gut Communities. Diversity. 5(3), 627-640; doi:10.3390/d5030627.


2015: Congress on Gastrointestinal Function, Chicago, IL

Presentation: Gene expression of Streptococcus bovis JB1 in response to monensin
Poster: Gene expression of Streptococcus bovis JB1 in batch and continuous culture at high and low growth rates

2014:   MidAtlantic Nutrition Conference, Timonium, MD

Identifying lactic acid utilizing bacteria in the equine gut associated with starch induced laminitis and colic

2013:   Keystone Symposia: The Gut Microbiome: The Effector and Regulatory Immune Network, Taos, NM

Poster: Fermentation gone awry: How microbial communities in the horse gut respond to starch overload associated with laminitis

2011: Gordon Research Conference: Applied and Environmental Microbiology, Holyoke, MA

Poster: Diversity is maintained in plant degrading communities adapted for growth on plant biomass

2010:   Argonne Soils Workshop, Argonne National Laboratory, Argonne, IL

Poster: Adaptation of simplified microbial communities involved in the cycling of plant biomass

2010:   STEM Summer Workshop Series, University of Massachusetts, Amherst, MA

Digital camera for data collection and analysis for secondary school teachers

2009:   American Society of Microbiologists, General Meeting, Philadelphia, PA

Poster: Characterization of the microbiome of flour beetles under various perturbations