List of MCIC staff publications


Bhandari M, Poelstra JW, Kauffman M, Varghese B, Helmy YA, Scaria J, Rajashekara G. 2023. Genomic diversity, antimicrobial resistance, plasmidome, and virulence profiles of Salmonella isolated from small specialty crop farms revealed by whole-genome sequencing. Antibiotics 12(11):1637.

Hebb LM, Poelstra JW, Dorrance AE. Genome resource announcement for two isolates of Phytophthora sansomeana with varying levels of pathogenicity on soybean. 2023. Phytofrontiers.

Paden H, Kurbatfinski N, Poelstra JW, Ormiston K, Orchard T, Ilic S. 2023. Dietary impacts on changes in diversity and abundance of the murine microbiome during progression and treatment of cancer. Nutrients 15 (3): 724.

Rawal R, Poelstra JW, Scheerens JC, Benitez MS. Inoculation of Trichoderma asperelloides NT33 causes minor transcriptional changes in tomato plants under water deficit stress conditions. 2023. AgriRxiv preprint.

Deblais L, Jang H, Kauffman M, Gangiredla J, Sawyer M, Basa S, Poelstra JW, Babu US, Harrison LM, Hiett KL, Balan KV, Rajashekara G. 2023. Whole genome characterization of thermophilic Campylobacter species isolated from dairy manure in small specialty crop farms of Northeast Ohio. Frontiers in Microbiology 14: 1074548.

Valles-Ramirez SM, Altland JE, Poelstra JW, Michel FC. 2023. In situ microbial community analysis of container soilless substrates. Acta Hortic. 1377, 725-730.

Valles-Ramirez SM, Altland JE, Testen AL, Poelstra JW, Michel FC. 2023. Microbial community structure in soilless substrates used for nursery crops. HortScience58(11): 1348-1357.

Nanfack-Minkeu F, Delong A, Luri M, Poelstra JW. 2023. Invasive Aedes japonicus mosquitoes dominate the Aedes fauna collected with gravid traps in Wooster, Northeastern Ohio, USA. Insects 14: 56.

Bernardo P, Barriball K, Frey TS, Meulia T, Wangai A, Heuchelin SA, Paul P, G. Redinbaugh MG, Ohlson EW. 2023. Transmission, localization, and infectivity of seedborne maize chlorotic mottle virus. PLoS ONE 18(2): e0281484.


D'Amico-Willman KM, Ouma WZ, Meulia T, Sideli GM, Gradziel TM, Fresnedo-Ramírez J. 2022. Whole-genome sequence and methylome profiling of the almond cultivar 'Nonpareil'. G3 12(5): jkac065. doi:10.1093/g3journal/jkac065.

Zhao Z, Fan J, Gao YG, Wang Z, Yang P, Liang Y, Opiyo SO, Xia Y. 2022. Arabidopsis plasma membrane ATPase AHA5 is negatively involved in PAMP triggered immunity. International Journal of Molecular Sciences. DOI: 10.3390/ijms23073857.

Zhao Z, Fan J, Yang P, Wang Z, Opiyo SO, Mackey D, Xia Y. 2022. Involvement of Arabidopsis acyl carrier protein 1 in PAMP-triggered immunity. Molecular Plant-Microbe Interactions (Editor's Pick). DOI: 10.1094/MPMI-02-22-0049-R.


Park T, Wijeratne S, Meulia T, Firkins JL, Yu Z. 2021. The macronuclear genome of anaerobic cilia Entodinium caudatum reveals its biological features adapted to the distinct rumen environment. Genomics 113(3): 1416-1427. doi: 10.1016/j.ygeno.2021.03.014.

D'Amico-Willman K, Chad Niederhuth C, Matthew R. Willman MR, Gradziel TM, Ouma WZ, Meulia T and Fresnedo Ramirez J. 2021. Integrated analysis of the methylome and transcriptome of twin almonds (Prunus dulcis [Mill.] D.A.Webb) reveals genomic features associated with non-infectious bud failure. bioRxiv preprint doi:

Lee DY, Jeon J, Kim KT, Cheong K, Song H, Choi G, Ko J, Opiyo SO, Correll JC, Zuo S, Madhav S, Wang GL, Lee YH. 2021. Comparative genome analyses of four rice-infecting Rhizoctonia solani isolates reveal extensive enrichment of homogalacturonan modification genes. BMC Genomics 22(1): 242. doi: 10.1186/s12864-021-07549-7

Muturi SM, Muthui LW, Njogu PM, Onguso JM, Wachira FN, Opiyo SO, Pelle R. 2021. Metagenomics survey unravels diversity of biogas microbiomes with potential to enhance productivity in Kenya. PLoS One. 2021 Jan 4;16(1):e0244755. doi: 10.1371/journal.pone.0244755.

Navarro KA, Wijeratne S, Culman S, Benitez MS, and Dorrance AE. 2021. Comparison of the species communities of Phytophthora, Pythium, and Phytopythium associated with soybean genotypes in high disease environments in Ohio. Phytobiomes Journal 5: 301.

Navarro KA, Wijeratne S, Culman S, Benitez MS, and Dorrance AE. 2021. The effect of incubation temperature on the species composition of Phytophthora, Phytopythium, and Pythium communities associated with soybean. Phytobiomes Journal 5: 228.


Zhao Z, Yang X, Lü S, Fan J, Opiyo S, Yang P, Mangold J, Mackey D, Xia Y. 2020. Deciphering the Novel Role of AtMIN7 in Cuticle Formation and Defense against the Bacterial Pathogen Infection. Int J Mol Sci. 21(15):5547. doi: 10.3390/ijms21155547.PMID: 32756392.

Schuchovski C, Meulia T, Sant'Anna-Santos BF, Fresnedo-Ramírez. 2020. Inflorescence Development and Floral Organogenesis in Taraxacum kok-saghyz. J.Plants (Basel). 2020 Sep 24;9(10):1258. doi: 10.3390/plants9101258.

Fan G, Zheng H, Zhang K, Devi Ganeshan V, Opiyo SO, Liu D, Li M, Li G, Mitchell TK, Yun Y, Wang Z, Lu GD. 2020. FgHtf1 regulates global gene expression towards aerial mycelium and conidiophore formation in the cereal fungal pathogen Fusarium graminearum. Appl Environ Microbiol. 17: 86(9): e03024-19. doi: 10.1128/AEM.03024-19.


Pavinato V, Margarido G, Wijeratne A, Wijeratne S, Meulia T, Souza A, Michel A and Zucchi M. 2016. RAD (Restriction site Associated DNA) for de novo sequencing and marker discovery in sugarcane borer, Diatraea saccharalis Fab. (Lepidoptera: Crambidae). Molecular Ecology Resources. doi: 10.1111/1755-0998.12583.

Mgonja EM, Balimponya EG, Kang H, Bellizzi M, Park CH, Li Y, Mabagala R, Sneller C, Correll J, Opiyo S, Talbot NJ, Mitchell T, Wang GL. 2016. Genome-wide association mapping of rice resistance genes against Magnaporthe oryzae isolates from four African countries. Phytopathology 106(11):1359-1365.

Kang H, Zhu D, Lin R, Opiyo SO, Jiang N, Shiu S, and Wang G. 2016. ATEMD: a novel method for identifying active transposable elements via scanning of high-throughput short reads. DNA Research 23(3): 241-251. doi:10.1093/dnares/dsw011

Zhang XF, Guo J, Zhang X, Meulia T, Paul P, Madden LV, Li D, Qu F. 2015. Random plant viral variants attain temporal advantages during systemic infections and in turn resist other variants of the same Virus. Scientific Reports 5: 15346. doi:10.1038/srep15346

Sun, L., Rodriguez, GR, Clevenger, JP, Illa-Berenguer, E,  Lin, J, Blakeslee, JJ, Liu, W, Fei, Z, Wijeratne, A, Meulia, T, and Van der Knaap, E. 2015. Candidate gene selection and detailed morphological evaluations of fs8.1, a quantitative 3 trait locus controlling tomato fruit shape. Journal of Experimental Botany 66(20): 6471-82. doi: 10.1093/jxb/erv361

Kenyon, LJ., Meulia, T. and Sabree, ZL. 2015. Habitat visualization and genomic analysis of Candidatus Pantoea carbekii, the primary symbiont of the brown marmorated stink bug. 2015. Genome Biol Evolution. Vol. pii: evv006: 1.

Asselin, J A., Lin, J. Perez-Quintero1, A, L., Gentzel, I., Majerczak1, D, Opiyo, SO, Zhao, W., Paek, S., Kim,G, M., Coplin, L, D., Blakeslee, J.J, Mackey, D. 2015. Perturbation of Maize Phenylpropanoid Metabolism by an AvrE-family Type III Effector from Pantoea stewartii. Plant Physiology 167(3):1117-35

Cassone BJ, Wijeratne S, Michel AP, Stewart LR, Chen Y, et al. (2014) Virus-independent and common transcriptome responses of leafhopper vectors feeding on maize infected with semi-persistently and persistent propagatively transmitted viruses. BMC Genomics 15:133. doi: 10.1186/1471-2164-15-133

Bautista, M., Anita, M., Bhandary, B., Wijeratne, A. J., Michel, A. P., Hoy, C. W., & Mittapalli, O. 2014. Evidence for tradeoffs in detoxification and chemosensation gene signatures in Plutella xylostella. Pest Management Science (DOI: 10.1002/ps.3822).

Broderick, S. R., Wijeratne, S., Wijeratne, A. J., Chapin, L. J., Meulia, T., & Jones, M. L. 2014. RNA-sequencing reveals early, dynamic transcriptome changes in the corollas of pollinated petunias. BMC Plant Biology, 14 (1), 307.

Nimmakayala, P., Abburi, V. L., Bhandary, A., Abburi, L., Vajja, V. G., Reddy, R., Wijeratne, A. J.… Tomason, Y. R. (n.d.). (2014)  Use of VeraCode 384-plex assays for watermelon diversity analysis and integrated genetic map of watermelon with single nucleotide polymorphisms and simple sequence repeats. Molecular Breeding, 1–12.

Stewart, L. R., Teplier, R., Todd, J., Jones, M., Cassone, B. J., Wijeratne, S., Wijeratne, A. J., … Redinbaugh, M. (2014). Viruses in Maize and Johnsongrass in Southern Ohio. Phytopathology, 104 (12), 1360–1369.

Chakraborty, S., Hill, A. L., Opiyo, SO, Whitehill, J. G. A., Conrad, A., and Bonello, P. 2014 Effects of Water Availability on Emerald Ash Borer Larval Performance and Phloem Phenolics of Manchurian and Black. Plant, Cell and Environment 37:1009-1021.
Ashley, A., Shrivastav, M., Nie, J., Amerin, C., Troksa, K., Glanzer, J., Liu, S, Opiyo, SO, Dimitrova, D., Le, P., Sishc, B., Bailey, S., Oakley, G., and Nickoloff, J. 2014. DNA-PK Phosphorylation of RPA32 Ser4/Ser8 Regulates Replication Stress Checkpoint Activation, Fork Restart, Homologous Recombination and Mitotic Catastrophe. DNA Repair: S1568-7864(14)00121-9.

McPherson, B.A, Mori, S. R, Opiyo, SO, Conrad, A.O., Wood, D.L., Bonello, P. 2014. Association between resistance to an introduced invasive pathogen and phenolic compounds that may serve as biomarkers in native oaks. Forest Ecology and Management. 312:154-160

Jiang, L.*, Wijeratne, A. J.*, Wijeratne, S., Fraga, M., Meulia, T., Doohan, D., … Qu, F. 2013. Profiling mRNAs of Two Cuscuta Species Reveals Possible Candidate Transcripts Shared by Parasitic Plants. PloS One, 8(11), e81389. (* Equal contributions)

Mamidala, P., Wijeratne, A. J., Wijeratne, S., Poland, T., Qazi, S. S., Doucet, D., … Mittapalli, O. 2013. Identification of Odor-Processing Genes in the Emerald Ash Borer, Agrilus planipennis. PloS One, 8(2), e56555.

Lee, S., Mian, M. R., McHale, L. K., Wang, H., Wijeratne, A. J., Sneller, C. H., & Dorrance, A. E. 2013. Novel quantitative trait loci for partial resistance to Phytophthora sojae in soybean PI 398841. Theoretical and Applied Genetics, 126(4), 1121–1132.

Sim SC, Durstewitz G, Plieske J, Wieseke R, Ganal MW, Wijeratne, S., et al. 2012. Development of a large SNP genotyping array and generation of high-density genetic maps in tomato. PLoS ONE 7: e40563. doi: 10.1371/journal.pone.0040563

Oka, T., Saif, L.J., Marthaler, D., Esseilia, M.A., Meulia, T. Lin, C., Vlasova, A.N., Jung, K., Zhang, Y., Wang, Q. 2014. Cell culture isolation and sequence analysis of genetically diverse US porcine epidemic diarrhea virus strains including a novel strain with a large deletion in the spike gene. Veterinary Microbiology. 10.1016/j.vetmic.2014.08.012.

Klein, R.D., Chidawanyika, T., S. Timsa, H.S., Meulia, T., Bouchard, R.A. Virginia B. Pett, V.B. 2014. Chaperone function of two small heat shock proteins from maize. Plant Science. 221–222; 48–58.

Jiang, L., Wijeratne, A., Wijeratne, S., Fraga, M.S., Meulia, T., Doohan, D., Li, Z. and Qu, F. 2013. Insights of parasitic plant-host interactions revealed by profiling mRNAs of two Cuscuta species. PLOS ONE. Vol. 8: e81389: e81389.

Takanashi S, Saif LJ, Hughes JH, Meulia, T., Jung K, Scheuer KA, Wang Q. 2013. Failure of propagation of human norovirus in intestinal epithelial cells with microvilli grown in three-dimensional cultures. Archives in Virology. Vol. 10: 1007/s00705-013-1806-4.

Stewart, L.R., Bouchard, B., Redinbaugh, M.G. and Meulia, T. 2012. Complete sequence and development of a full-length infectious clone of an Ohio isolate of Maize dwarf mosaic virus (MDMV). Virus Research. 165:219-224

Mamidala, P., Wijeratne, A.J., Wijeratne, S., Kornacker, K., Suddamalla, B., Rivera Vega, L., Meulia, T., Jones, S.C., Mittapalli, O. 2012. RNA seq unveils multi-level pesticide resistance in the bed bug Cimex lectularius. BMC Genomics 13:6

Rong X, Gurel F.B., Meulia T, McSpadden Gardener BB. 2012. Draft Genome Sequences of the Pseudomonas fluorescens Biocontrol Strains Wayne1R and Wood1R. Journal Of Bacteriology. 194(3): 724-725. doi: 10.1128/JB.06338-11

Rong X; Gurel F.B; Meulia T; McSpadden Gardener BB. 2012. Draft Genome Sequences of the biocontrol bacterium Mitsuaria sp. strain H24L5A. Journal Of Bacteriology. 194(3):734-5. doi: 10.1128/JB.06537-11

Fraga, D., Meulia, T. and Fenster, S. Real-time PCR. 2012. Chapter 32 in ‘Current Protocols in Essential Laboratory Techniques.’ Second edition. John Wiley & Sons Publishing.

DeLay, B., Mamidala, P., Wijeratne, A. J., Wijeratne, S., Mittapalli, O., Wang, J., & Lamp, W. (2012). Transcriptome analysis of the salivary glands of potato leafhopper, Empoasca fabae. Journal of Insect Physiology, 58(12), 1626–1634.

Wang, H., Wijeratne, A. J., Wijeratne, S., Lee, S., Taylor, C. G., St Martin, S. K., … Dorrance, A. E. (2012). Dissection of two soybean QTL conferring partial resistance to Phytophthora sojae through sequence and gene expression analysis. BMC Genomics, 13(1), 428.