September 24, 2012


“Our interest is in de novo sequencing and metagenomics for syndromic diseases and pathogen discovery. TAGS and TVMDL collaborative highlights include our pH1N1 publication, novel Okapi Adenovirus de novo sequencing, and Babesia de novo sequencing.  The TAGS team has the expertise to support our NGS applications ” 
Mangkey Bounpheng, PhD
Molecular Diagnostics Section Head TVMDL

Identification and Analysis of the First 2009 Pandemic H1N1 Influenza Virus from U.S. Feral Swine.

Zoonoses Public Health. 2012 Sep 17. doi: 10.1111/zph.12006.
Clavijo A, Nikooienejad A, Esfahani MS, Metz RP, Schwartz S, Atashpaz-Gargari E, Deliberto TJ, Lutman MW, Pedersen K, Bazan LR, Koster LG, Jenkins-Moore M, Swenson SL, Zhang M, Beckham T, Johnson CD, Bounpheng M.
Texas Veterinary Medical Diagnostic Laboratory, College Station, TX, USA  Texas AgriLife Research, College Station, TX, USA  United States Department of Agriculture, Fort Collins, CO, USA  United States Department of Agriculture, San Diego, TX, USA  National Veterinary Services Laboratories, Ames, IA, USA.

The first case of pandemic H1N1 influenza (pH1N1) virus in feral swine in the United States was identified in Texas through the United States Department of Agriculture (USDA) Wildlife Services’ surveillance program. Two samples were identified as pandemic influenza by reverse transcriptase quantitative PCR (RT-qPCR). Full-genome Sanger sequencing of all eight influenza segments was performed. In addition, Illumina deep sequencing of the original diagnostic samples and their respective virus isolation cultures were performed to assess the feasibility of using an unbiased whole-genome linear target amplification method and multiple sample sequencing in a single Illumina GAIIx lane. Identical sequences were obtained using both techniques. Phylogenetic analysis indicated that all gene segments belonged to the pH1N1 (2009) lineage. In conclusion, we have identified the first pH1N1 isolate in feral swine in the United States and have demonstrated the use of an easy unbiased linear amplification method for deep sequencing of multiple samples.


Protecting animal and human health through diagnostics

By testing hundreds of specimens from around the world every business day, TVMDL contributes significantly to protecting the health of livestock, poultry, companion animals, exotic animals, racing animals, livestock show animals and wildlife.

TVMDL offers a wide range of state-of-the-art diagnostic tests that deliver accurate results promptly and affordably. Veterinarians, owners, industries and government agencies depend on our globally recognized expertise to help preserve animal and public health.

TVMDL is accredited by the American Association of Veterinary Laboratory Diagnosticians and is a core member of the National Animal Health Laboratory Network.