Stephen Obol Opiyo, PhD

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Research Scientist, Molecular & Cellular Imaging Center, Columbus

opiyo.1@osu.edu

Office:

475B Kottman Hall, Columbus

Professional Information

Biography:

Publications are under the Works tab.
My research is focused on pathogen effector bioinformatics. Pathogen effector bioinformatics include identification of pathogen effector proteins from pathogen genomes (bacteria, fungi, oomycetes, and nematodes), and their effector targets from host genomes (Arabidopsis, soybean, rice, maize, etc.) using alignment-free multivariate statistics, alignment-based methods, and machine learning approaches.

MCIC-Columbus

The Molecular and Cellular Imaging Center-Columbus (MCIC-Columbus) is a section of the Molecular and Cellular Imaging Center at the Ohio Agriculture Research Development Center (OARDC). The MCIC-Columbus houses analytical and molecular biology equipment for the Departments of Plant Pathology and Horticulture and Crop Science.

Website > MCIC-Columbus

Responsibilities

• Bioinformatics, metabolomics, proteomics and genomics research.
• Coordinates all MCIC-Columbus core laboratory activities, including the use and maintenance of equipment; trains and assists users.
• Conducts bioinformatics research to support genomics, proteomics, and metabolomics research.
• Conducts collaborative research with the faculty from the two departments.
• Provides bioinformatics, metabolomics, genomics, proteomics, and statistical support to faculty, staff, and students from the Department of Plant Pathology and Horticulture and Crop Science.

Works

Publications

Lee et al. [Opiyo SO] 2021. Comparative genome analyses of four rice-infecting Rhizoctonia solani isolates reveal extensive enrichment of homogalacturonan modification genes. BMC Genomics. 2021; 22: 242.
Muturi et al. [Opiyo SO] 2021. Metagenomics survey unravels diversity of biogas microbiomes with potential to enhance productivity in Kenya. PLoS One. 4;16(1):e0244755.
Zhao et al. [Opiyo O.S] (2020). Deciphering the Novel Role of AtMIN7 in Cuticle Formation and Defense against the Bacterial Pathogen Infection. Int. J. Mol. Sci. 2020, 21(15), 5547; https://doi.org/10.3390/ijms21155547
Fan et al. [Opiyo O.S] (2020). FgHtf1 regulates global gene expression towards aerial mycelium and conidiophore formation in the cereal fungal pathogen Fusarium graminearum. 2020. Appl Environ Microbiol. Feb 21. pii: AEM.03024-19
Makombu et al. [Opiyo O.S] (2019). Morphological and molecular characterization of freshwater prawn of genus Macrobrachium in the coastal area of Cameroon.2019 Ecol Evol. 2019 Dec 8;9(24):14217-14233.
Olal et al. [Opiyo O.S] (2019). De Novo Genome Sequence of a Fusarium xylarioides Race Pathogenic to Robusta Coffee (Coffea canephora) in Uganda. 2019 Aug 1;8(31)
Silasta et al. [Opiyo O.S] (2019). A countrywide molecular survey leads to a seminal identification of invasive cattle tick Rhipicephalus (Boophilus) microplus in Cameroon, a decade after it was reported in Cote d’Ivoire. (2019). Ticks and Tick Borne Dis
Xia et al. [Opiyo, S.O] (2019). Cultural endophytic fungal communities associated with plants in organic and convectional farming systems and their effects on plant growth. Sci Rep.
Kim et al. [Opiyo, S.O] (2019). Gut oxidative responses by chronic exposure to pollutants enhance IgE production via PGE2-dependent mechanism. J Immunol May 1, 2019, 202 (1 Supplement) 55.4
Sserumaga et al [Opiyo, S. O] (2019). Genetic diversity among tropical provitamin a maize inbred lines and implications for a biofortification program. Cereal Research Communications 47 (1), 134-144
Ewane et al. [Opiyo, S. O]. Potential Biostimulant Effect of Clam Shells on Growth Promotion of Plantain PIF Seedlings (var. Big Ebanga & Batard) and Relation to Black Sigatoka Disease Susceptibility. American Journal of Plant Sciences. Vol.10 No.10, October 2019.
Munoz-Vargas et al. [Opiyo, S.O] (2018). Fecal microbiome of periparturient daily cattle and association with onset of Salmonella shedding PlosOne. 2018
Deb D. et al. Hill et al.[Opiyo, S.O] (2018). Applications of alignment-free bioinformatics methods to identify an oomycete protein with structural similarity to the bacterial AvrE effector protein. PlosOne. 2018
Fisseha et al. [Opiyo, S.O]. integrating phenotypic evaluations with a molecular diversity assessment of an ethiopian collection of common bean landraces. African Crop Science Journal, Vol. 26, No. 2, pp. 315 – 326.
Kim. E., Bonnegarde-Benard. A, Opiyo O.S., Attia. Z., Ahmer. H,B., Boyaka, C, E., and Boyaka, N. P. Chronic ingestion of subtoxic doses of cadmium promotes allergy by establishing a dysbiosis that stimulates IgE production. Science (submitted).
Mgonja et al. [Opiyo, S.O] (2017) Genotyping-By-Sequencing-Based Genetic Analysis of African Rice Cultivars and Association Mapping of Blast Resistance Genes Against Magnaporthe oryzae Populations in Africa. Phytopathology (In press).
Sieberts et al. Members of RAC Consortium [Opiyo, S.O] (2016). Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis. Nature Commun. 2016 Oct 10;7:13205
Federica Eduati et al. (The NIEHS-NCATS-UNC DREAM Toxicogenetics Collaboration [Opiyo, S.O]). Prediction of human population responses to toxic compounds by a collaborative competition. Nature Biotechnology 33, 933–940 (2015)
Asselin JA, Lin J, Perez-Quintero AL, Gentzel I, Majerczak D, Opiyo SO, Zhao W, Paek SM, Kim MG, Coplin DL, Blakeslee JJ, Mackey D. 2015. Perturbation of Maize Phenylpropanoid Metabolism by an AvrE Family Type III Effector from Pantoea stewartii. Plant Physiol. 167(3):1117-35. doi: 10.1104/pp.114.253120
Chakraborty S, Whitehill JG, Hill AL, Opiyo SO, Cipollini D, Herms DA, 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
McPherson, B. A., Mori, S. R., Opiyo, S. O., 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
Opiyo, S.O and Mackey, D 2013. Identification of proteins similar to AvrE type III effector proteins from Arabidopsidis thaliana genome with partial least squares. African Journal of Biotechnology 12 (39): 5804-5808
Hill, A.L, Whitehill, JGA, Opiyo, SO, Phelan, PL, and Bonello, P. 2012. Nutritional attributes of Ash (Fraxinus Spp.) outer bark and phloem and their relationships to resistance against the Emarald Ash borer. Tree Physiology 32 (12): 1522-1532
Shingqin, L., Opiyo, S. O., Manthey, K., Glanzer, J., Ashley, A., Courtney. T., Kyle, S., Shrivastav, M., Nickoloff, J., and Oakley, G. 2012. Distinct Roles for DNA-PK, ATM, and ATR in RPA Phosphorylation and Checkpoint Activation in Response to Replication Stress. Nucleic Acid Research. 40 (21): 10780-10794
Opiyo, S. O. 2012. Why we need health information technology for maintaining and accessing health care information. Journal of Health and Medical Informatics 3:e103.
Orshinsky, A. M., Hu, J., Opiyo, S. O., Reddyvari-Channarayappa, V., Mitchell, T. M., and Boehm, M.J. 2012. RNA-Seq analysis of the Sclerotinia homoeocarpa creeping bentgrass pathosystem. Plos ONE 7(8): e41150.
Whitehill, J. G. A, Opiyo, S. O, Koch, J. L, Herms, D. A, Cipollini, D. F, and Bonello, P. (2012) Interspecific Comparison of Constitutive Ash Phloem Phenolic Chemistry Reveals Compounds Unique to Manchurian Ash, a Species Resistant to Emerald Ash Borer Journal of Chemical Ecology 38:499-511.
Nagle, A. M., McPherson, B. A., Wood, D. L., Garbelotto, M., Conrad, A., Opiyo, S. O., and Bonello, P. (2011) Relationship Between Field Resistance to Phytophthora ramorum and Constitutive Phenolic Chemistry of Coast Live Oak. Proceedings of the 4th International Workshop on Genetics of Host-Parasite Interactions in Forestry.
Opiyo, S. O., Pardy, R. L., Moriyama, H., and Moriyama, E. N. (2010) Evolution of the Kdo2-lipid A biosynthesis in bacteria. BMC Evolutionary Biology 10:362.
Opiyo, S. O. and Moriyama, E. N. (2010) Mining Cytochrome b561 proteins from Plant Genomes. International Journal of Bioinformatics Research and Applications. 6: 209-221
Moriyama, E. N., and Opiyo, S. O. (2010) Bioinformatics of Seven-Transmembrane Receptors in Plant Genomes. Pp. 251-277 in Yalovsky, S., Baluska, F., and Jones, A. eds. Integrated G Proteins Signaling in Plants, Springer-Verlag, Berlin Heidelberg.
Oakley, G. G., Tillison, K., Opiyo, S., Glanzer, J., Horn, J. M., and Patrick, M. S. (2009) Physical Interaction between Replication Protein A (RPA) and MRN: Involvement of RPA2 Phosphorylation and the N-terminus of RPA1. Biochemistry. 48: 7473-7481
Opiyo, S. O. and Moriyama, E. N. (2009) Mining the Arabidopsis and rice genomes for cyclophlin protein families. International Journal of Bioinformatics Research and Applications. 5: 295-309.
Opiyo, S. O. and Moriyama, E. N. (2008) Mining Cytochrome b561 proteins from Plant Genomes. Proceedings for The 5th Annual Biotechnology and Bioinformatics Symposium: BIOT-08. pp 139-145
Karoline, C. M., Opiyo, S., Glanzer, J.G., Dimitrova, D., Elliott, J., and Oakley, G. (2007) Nbs1 mediates ATR-dependent RPA hyperphosphorylation following replication fork stall and collapse. J. Cell Sci. 120: 4221-4229
Opiyo, S. O. and Moriyama, E. N. (2007) Protein family classification with partial least squares. J. Proteome Res. 6: 846-853.
Moriyama, E. N., Strope, P. K., Opiyo, S. O., Chen, Z. and Jones, A. M. (2006) Mining the Arabidopsis thaliana genome for highly-divergent seven transmembrane receptors. Genome Biology 7: R96.

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