Publications

2018

Thissen JB, Isshiki M, Jaing C, Nagao Y, Aldea DL, Allen JE, Izui M, Slezak TR, Ishida T, Sano T. A novel variant of torque teno virus 7 identified in patients with Kawasaki Disease. (2018) A novel variant of torque teno virus 7 identified in patients with Kawasaki disease. PLOS ONE 13(12): e0209683. https://doi.org/10.1371/journal.pone.0209683

Smith DJ, Ravichandar D, Jain S, Griffin DW, Yu H, Tan Q, Thissen J, Lusby T, Nicoll P, Shedler S, Martinez P, Osorio A, Lechniak J, Choi S, Sabino K, Iverson K, Chan L,Jaing C and McGrath J (2018) Airborne Bacteria in Earth’s Lower Stratosphere Resemble Taxa Detected in the Troposphere: Results From a New NASA Aircraft Bioaerosol Collector (ABC). Front. Microbiol. 9:1752.
https://doi.org/10.3389/fmicb.2018.01752

Guo R, Shang P, Carrillo CA, Sun Z, Lakshmanappa YS, Yan X, Renukaradhya GJ, McGill J, Jaing CJ, Niederwerder MC, Rowland RRR, Fang Y. 2018. Double-stranded viral RNA persists in vitro and in vivo during prolonged infection of porcine reproductive and respiratory syndrome virus. Virology 524:78-89. https://doi.org/10.1016/j.virol.2018.08.006

Urbaniak C, Checinska A, Frey KG, Redden CL, Allen JE, Singh N, Jaing C, Wheeler K, Venkateswaran K. 2018. Detection of antimicrobial resistance genes associated with the International Space Station environmental surfaces. Scientific Reports, 8:814. DOI:10.1038/s41598-017-18506-4.

Li Y, Shang P, Shyu D, Carrillo C, Naraghi-Arani P, Jaing CJ, Renukaradhya GJ, Firth AE, Snijder EJ, Fang Y. 2018. Nonstructural proteins nsp2TF and nsp2N of porcine reproductive and respiratory syndrome virus (PRRSV) play important roles in suppressing host innate immune responses. Virology https://doi.org/10.1016/j.virol.2017.12.017.

2017

Jaing C, Rowland RRR, Allen JE, Certoma A, Thissen JB, Bingham J, Rowe B, White JR, Wynne JW, Johnson D, Gaudreault NN, Williams DT. 2017. Gene expression analysis of whole blood RNA from pigs infected with low and high pathogenic African swine fever viruses. Scientific Reports 7:10115. DOI: 10.1038/s41598-017-10186-4

Venkateswaran K, Checinska Sielaff A, Ratnayake S, Pope RK, Blank TE, Stepanov VG, Fox GE, van Tongeren SP, Torres C, Allen J,Jaing C, Pierson D, Perry J, Koren S, Phillippy A, Klubnik J, Treangen TJ, Rosovitz MJ, Bergman NH. 2017. Draft Genome Sequences from a Novel Clade of Bacillus cereus Sensu Lato Strains, Isolated from the International Space Station. Genome Announcements 5:e00680-00617. DOI: 10.1128/genomeA.00680-17.

Ober RA, Thissen JB, Jaing CJ, Cino-Ozuna AG, Rowland RRR, Niederwerder MC. 2017. Increased microbiome diversity at the time of infection is associated with improved growth rates of pigs after co-infection with porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2). Veterinary Microbiology 208:203-211. https://doi.org/10.1016/j.vetmic.2017.06.023

Be NA, Avila-Herrera A, Allen JE, Singh N, Checinska Sielaff A, Jaing C, Venkateswaran K. 2017. Whole metagenome profiles of particulates collected from the International Space Station. Microbiome 5:81. DOI: 10.1186/s40168-017-0292-4

2016

Checinska Sielaff A, Singh NK, Allen JE, Thissen J, Jaing C, Venkateswaran K. 2016. Draft genome sequences of biosafety level 2 opportunistic pathogens isolated from the environmental surfaces of the International Space Station. Genome Announc 4(6):e01263-16. doi:10.1128/genomeA.01263-16.

Högfeldt, T., Jaing, C., Loughlin, K.M., Thissen, J., Gardner, S., Bahnassy, A.A., Gharizadeh, B., Lundahl, J., Österborg, A., Porwit, A., Zekri, A.-R.N., Khaled, H.M., Mellstedt, H., Moshfegh, A., 2016. Differential expression of viral agents in lymphoma tissues of patients with ABC diffuse large B-cell lymphoma from high and low endemic infectious disease regions. Oncology Letters 12, 2782-2788.doi: 10.3892/ol.2016.5012.

Jaing CJ, McLoughlin KS, Thissen JB, Zemla A, Gardner SN, Vergez LM, Bourguet F, Mabery S, Fofanov VY, Koshinsky H, Jackson PJ: Identification of Genome-Wide Mutations in Ciprofloxacin-Resistant F. tularensis LVS Using Whole Genome Tiling Arrays and Next Generation Sequencing. PLoS ONE 2016, DOI: 10.1371/journal.pone.0163458.

Robinson, L.A., Jaing, C.J., Campbell, C.P., Magliocco, A., Xiong, Y., Magliocco, G., Thissen, J.B. and Antonia, S. (2016) Molecular evidence of viral DNA in non-small cell lung cancer and non-neoplastic lung. Br J Cancer. DOI: 10.1038/bjc.2016.213

Gardner, S.N., McLoughlin, K., Be, N., Allen, J., Weaver, S., Forrester, N., Guerbois, M. and Jaing, C. Characterization of genetic variability of Venezuelan equine encephalitis viruses PLoS ONE, 2016, 11, e0152604. http://dx.doi.org/10.1371/journal.pone.0152604

Niederwerder M, Jaing CJ, Thissen JB, Cino-Ozuna AG, McLoughlin KS, Rowland RR (2016) Microbiome associations in pigs with the best and worst clinical outcomes following co-infection with porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2). Veterinary Microbiology. 2016. 188:1-11. doi:10.1016/j.vetmic.2016.03.008

2015

Jaing, C., Thissen, J.B., Gardner, S., McLoughlin, K., Slezak, T., Bossart, G.D. and Fair, P.A. Pathogen Surveillance in Wild Bottlenose Dolphins (Tursiops truncatus). Diseases of Aquatic Organisms. 2015, 116(2):83-91. DOI: 10.3354/dao02917.

Jaing CJ, Thissen JB, Gardner SN, McLoughlin KS, Hullinger PJ, Monday NA, Niederwerder MC, Rowland RRR. Application of a pathogen microarray for the analysis of viruses and bacteria in clinical diagnostic samples from pigs, J Vet Diagn Invest, 2015, 27(3): 313-325. DOI: 10.1177/1040638715578484.

2014

Be N, Thissen J, Fofanov V, Allen J, Rojas M, Golovko G, Fofanov Y, Koshinsky H, Jaing C. Metagenomic Analysis of the Airborne Environment in Urban Spaces. 2014. Microbial Ecology:1-10.  http://link.springer.com/article/10.1007/s00248-014-0517-z

Thissen JB, McLoughlin K, Gardner S, Gu P, Mabery S, Slezak T, Jaing C Analysis of sensitivity and rapid hybridization of a multiplexed Microbial Detection Microarray.J Virol Methods. 2014 Jun;201:73-8. doi: 10.1016/j.jviromet.2014.01.024. Epub 2014 Mar 3.

Be N, Allen J, Brown T, Chromy B, Eldridge A, Luciw P, Forsberg J, Kirkup B, Elster E, and Jaing C. Molecular profiling of combat wound infection through microbial detection microarray and next-generation sequencing. Journal of Clinical Microbiology.2014.  http://jcm.asm.org/content/early/2014/05/08/JCM.00556-14.abstract.

Wolfe DN, Heppner DG, Gardner SN, Jaing C, Dupuy LC, Schmaljohn CS, Carlton K: Current Strategic Thinking for the Development of a Trivalent Alphavirus Vaccine for Human Use. The American Journal of Tropical Medicine and Hygiene 2014. DOI: 10.4269/ajtmh.14-0055

Gardner SN, Jaing CJ, Elsheikh MM, Pena J, Hysom DA, Borucki MK. Multiplex degenerate primer design for targeted whole genome amplification of many viral genomes, Advances in Bioinformatics, 2014, http://dx.doi.org/10.1155/2014/101894

Devault, A.M., McLoughlin, K., Jaing, C., Gardner, S., Porter, T.M., Enk, J., Thissen, J., Allen, J., Borucki, M., DeWitte, S.N., Dhody, A.N., Poinar, H.N. 2014. Ancient pathogen DNA in archaeological samples detected with a Microbial Detection Array. Scientific Reports. doi:10.1038/srep04245

Peña, J., Plante, J., Carillo, A., Roberts, K., Smith, J., Juelich, T., Beasley, D., Freiberg, A., Labute, M., Naraghi-Arani, P. 2014. Multiplexed Digital mRNA Profiling of the Inflammatory Response in the West Nile Swiss Webster Mouse Model. PLoS Neglected Tropical Diseases. doi:10.1371/journal.pntd.0003216

Thissen JB, McLoughlin K, Gardner S, Gu P, Mabery S, Slezak T, Jaing C. 2014. Analysis of sensitivity and rapid hybridization of a multiplexed Microbial Detection Microarray. J Virol Methods http://dx.doi.org/10.1016/j.jviromet.2014.01.024

Hewitson L, Thissen JB, Gardner SN, McLoughlin KS, Glausser MK, Jaing CJ. 2014. Screening of Viral Pathogens from Pediatric Ileal Tissue Samples after Vaccination. Advances in Virology 2014:10. http://dx.doi.org/10.1155/2014/720585

2013

Gardner SN, Thissen JB, McLoughlin KS, Slezak T, Jaing CJ. Optimizing SNP microarray probe design for high accuracy microbial genotyping.  2013. J Virol Methods 94:303-310. http://dx.doi.org/10.1016/j.mimet.2013.07.006

Paradžik M, Bučević-Popović V, Šitum M, Jaing C, Degoricija M, McLoughlin K, Ismail S, Punda-Polić V, Terzić J. Association of Kaposi’s sarcoma-associated herpesvirus (KSHV) with bladder cancer in Croatian patients. 2013. Tumor Biology: 1-6. http://dx.doi.org/10.1007/s13277-013-1079-2

Chromy BA, Eldridge A, Forsberg J, Brown TS, Kirkup BC, Jaing C, Be NA, Elster E, Luciw PA. 2013. Wound outcome in combat injuries is associated with a unique set of protein biomarkers. Journal of Translational Medicine 11(1):281. http://www.translational-medicine.com/content/11/1/281

Gardner SN, Jaing CJ. Bioinformatics for microbial genotyping of equine encephalitis viruses, orthopoxviruses, and hantaviruses. J Virol Methods. 2013. 193:112-120.http://dx.doi.org/10.1016/j.jviromet.2013.04.019

Corzett TH, Eldridge AM, Knaack JS, Corzett CH, McCutchen-Maloney SL, Chromy BA. (2013) Multivariate Statistical Analysis of Diverse Strains of Yersinia pestis by Comparative Proteomics. J Proteomics Bioinform., 6:202-208.     

2012

Eithon Cadag, Elizabeth Vitalis, ,Kristin P Lennox,, Carol L Ecale Zhou,. Adam T Zemla Computational analysis of pathogen-borne metallo β-lactamases reveals discriminating structural features between B1 types BMC Res Notes 2012 14;5:96. Epub 2012 Feb 14.

Dietrich Dehlinger, Lynn Suer, Maher Elsheikh, José Peña, Pejman Naraghi-Arani. Dye Free Automated Cell Counting and Analysis. (2012) Biotechnol Bioeng. doi: 10.1002/bit.24757.
 
D.A. Hysom, P. Naraghi-Arani, M. El Sheikh, A.C. Carrillo, P.L. Williams, S.N. Gardner. “Skip the Alignment: Degenerate, Multiplex Primer and Probe Design Using K-mer Matching Instead of Alignments., 2012 Journal  PLoS ONE.  PLoS ONE 7(4): e345600.

2011

Erlandsson L, Rosenstierne MW, McLoughlin K, Jaing C, Fomsgaard A. The Microbial Detection Array Combined with Random Phi29-Amplification Used as a Diagnostic Tool for Virus Detection in Clinical Samples.  PLoS ONE 6(8): e22631. doi:10.1371/journal.pone.0022631, 2011.

2010

Victoria JG, Wang C, Jones MS, Jaing C, McLoughlin K, Gardner S and Delwart EL. Viral nucleic acids in live-attenuated vaccines: detection of minority variants and an adventitious virus.  J. Virol. 84: 6033-40, http://jvi.asm.org/cgi/reprint/84/12/6033, 2010.

Gardner SN, Jaing CJ, McLoughlin KS, Slezak TR. A Microbial Detection Array (MDA) for Viral and Bacterial Detection, BMC Genomics  11:668doi:10.1186/1471-2164-11-668, http://www.biomedcentral.com/1471-2164/11/668, 2010.

Jaing C, Gardner S, McLoughlin K, Mulakken N, Alegria-Hartman M, Banda P, Williams P, Gu P, Wagner M, Manohar C, and Slezak T. A functional gene array for detection of bacterial virulence elements. PLoS ONE, http://www.plosone.org/doi/pone.0002163, 2008.