2025

Xiong R, Aiken E, Caldwell R, Vernon SD, Gunter C, Gong M, Bateman L, Li S, Unutmaz D, Oh, J. Al-driven multi-omics modeling of myalgic encephalomyelitis / chronic fatigue syndrome. Nature Medicine. 2025 July 25.

Oh, J, Voigt, A. The human skin microbiome: from metagenomes to therapeutics. Nature Reviews Microbiology. In press.

Zhou W, Ring N, Caldwell R, Milstone LM, Oh, J. Genotype, phenotype, and covariables shape the ichthyotic skin microbiome. J of Investigative Dermatology. 2025 Jun 25:S0022-202X(25)02149-9. PMID: 40571157 PMCID: PMC12221215

Durack J, Piceno Y, Vuong H, Fanelli B, Good DA, Hasan NA, Dadlani M, Weiss L, Oh J, Kostic AD, Dawson TL, Caballero-Arias H, Colwell RR. Yanomami skin microbiome complexity challenges prevailing concepts of healthy skin. Nature Communications. 2025 June 1; 16: 5542.

Hajjar J, Voigt AY, Conner ME, Swennes AG, Fowler S, Calarge C, Mendonca DD, Armstrong D, Chang CY, Walter JE, Butte MJ, Savidge T, Oh J, Kheradmand F, Petrosino JF. Gut dysbiosis patterns in CVID patients with noninfectious complications observed in a germ-free mouse model through fecal microbiota transplantation. Journal of Human Immunity. 2025 May 5;1(1):e20250040.

Doing G, Shanbhag P, Bell I, Cassidy S, Motakis E, Aiken E, Oh, J, Adams MD. TEAL-seq: Targeted Expression Analysis Sequencing. mSphere. 2025 Apr 22:€0098424. PMID: 40261045

Bindels LB, Watts JEM, Theis KR, Carrion VJ, Ossowicki A, Seifert J, Oh J, Shao Y, Hilty M, Kumar P, Hildebrand F, Lovejoy C, Wigley P, Yu K, Zhang M, Zhang T, Walter J, Desai MS, Huws SA, Schrimi LM, Ravel J, Fricke WF, Eloe-Fadrosh EA, Lee CK, Clavel T. A blueprint for contemporary studies of microbiomes. Microbiome. 2025 Apr 8;13(1):95, S40168-025-02091-0.

Horvath M, Yang R, Castaneda DC, Callender M, Aiken ES, Voigt AY, Caldwell R, Fachi J, Di Luccia B, Scholar Z, Yu P, Sainer A, Colonna M, Palucka K, Oh J. Species- and strain-specific microbial modulation of interferon, innate immunity, and epithelial barrier in 2D air- liquid interface respiratory epithelial cultures. BMC Biol. 2025 Jan 29;23(1):28. PMID: 39875977 PMCID: PMC11776145

Cardones AR, Emiola A, Hall R, Sung AD, Zhang JY, Petty AJ, Puza C, Bohannon LM, Bush AT, Lew MV, Fleming E, Jin YJ, Nichols KR, Jain V, Gregory SG, Sullivan KM, Chao NJ, Oh J. Cutaneous dysbiosis characterizes the post-allogeneic hematopoietic stem cell transplantation period. Blood Advances. 2025 Jan 24;bloodadvances.2021004792. PMID: 39853270

2024

Xiao S, Zhou W, Caldwell R, Decker S, Oh J, Milstone AM. Association of neonatal and maternal nasal microbiome among neonates in the intensive care unit. Open Forum Infectious Diseases. 2024 Oct 28;11(11):ofae644. doi: 10.1093/ofid/ofae644. PMID: 39544492; PMCID: PMC11561572

Sonnert ND, Rosen CE, Ghazi AR, Franzosa EA, Duncan-Lowey B, González-Hernández JA, Huck JD, Yang Y, Dai Y, Rice TA, Nguyen MT, Song D, Cao Y, Martin AL, Bielecka AA, Fischer S, Guan C, Oh J, Huttenhower C, Ring AM, Palm NW. A host-microbiota interactome reveals extensive transkingdom connectivity. Nature. 2024 Apr;628(8006):171–179. PMID: 38509360

Tian H, Wang L, Hardy R, Kozhaya L, Placek L, Fleming E, Oh J, Unutmaz D, Yao X. Bioassay-Driven, Fractionation-Empowered, Focused Metabolomics for Discovering Bacterial Activators of Aryl Hydrocarbon Receptor. J Am Soc Mass Spectrom. 2024 Mar 6;35(3):518–526. PMID: 38308645

2023

Derman ID, Yeo M, Cadena-Castaneda D, Callendar M, Horvath M, Mo Z, Xiong R, Fleming E, Chen P, Peeples ME, Palucka K, Oh, J, Ozbolat IT. High throughput bioprinting of the nasal epithelium using patient-derived nasal epithelial cells. Biofabrication. 2023 Aug 14;15(4):044103. PMID: 37536321 PMCID: PMC10424246

Voigt AY, Walter A, Young T, Graham J, Bittencourt BMB, P AM, Sarmiento KMP, Tsai, KY, Sundberg JP, Oh, J. Microbiome modulates immunotherapy response in cutaneous squamous cell carcinoma. Experimental Dermatology. 2023 Oct;32(10):1624-1632. PMID: 37350109 PMCID: PMC10592435

Zhou W, Fleming, E, Forestier S, Gendronneau G, Roux L, Oh J. Skin microbiome attributes associate with biophysical skin ageing. Experimental Dermatology. 2023 Sep;32(9):1546-1556. PMID: 37350224

Xiong, R, Fleming E, Gunter C, Bateman, L, Unutmaz D, Oh, J. Multi-‘omics of host-microbiome interactions in short- and long-term Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS). Cell Host & Microbe. 2023 Feb; 31, 273-287.e5. 10.1016/j.chom.2023.01.001. PMID: 36758521

2022

Guan, C, Larson PJ, Fleming E, Tikhonov, AP, Mootien S, Grossman TH, Golino C, Oh, J. Engineering a “Detect and Destroy” skin probiotic to combat methicillin-resistant Staphylococcus aureus. PLoS One. 2022 Dec 15;17(12):e0276795. doi: 10.1371/journal.pone.0276795. PMID: 36520793 PMCID: PMC9754240

Spoto, M, Riera, J, Guan, C, Fleming E, Oh J. Large-scale CRISPRi and transcriptomics of Staphylococcus epidermidis identify genetic factors implicated in lifestyle versatility. mBio 2022 Nov 11; 0, e02632-22. 10.1128/mbio.02632-22. PMID: 36409086 PMCID: PMC9765180

Larson, PJ, Zhou, W, Santiago, A, Driscoll, S, Fleming, E, Voigt, AY, Chun, OK, Grady, JJ, Kuchel, GA, Robison, JT, Oh, J. (2022). Associations of the skin, oral and gut microbiome with aging, frailty and infection risk reservoirs in older adults. Nature Aging. 2022 Oct 12; 2, 941–955. PMID: 36398033 PMCID: PMC9667708

Voigt, AY, Emiola A, Johnson JS, Fleming ES, Nguyen H, Zhou W, Tsai KY, Fink C, Oh, J. Skin microbiome variation with cancer progression in human cutaneous squamous cell carcinoma. J Investigative Dermatology. 2022 Apr 4:S0022-202X(22)00261-5. doi: 10.1016/j.jid.2022.03.017. PMID: 35390349.

2021

Kong H,. Oh J. State of residency: microbial strain diversity in the skin. J Investigative Dermatology. 2021 Oct 21;S0022-202X(21)02351-4. PMID: 34688614.

Fleming E, Pabst V, Scholar Z, Xiong R, Voigt AY, Zhou W, Hoyt A, Hardy R, Peterson A, Beach R, Ondouah-Nzutchi Y, Dong J, Bateman L, Vernon SD, Oh J. Cultivation of common bacterial species and strains from human skin, oral, and gut microbiota. BMC Microbiology. 2021 Oct 14;21(1):278. PMID: 34649516

Behsaz B, Bode E, Gurevich A, Shi Y-N, Grundmann F, Acharya D, Caraballo-Rodríguez AM, Bouslimani A, Panitchpakdi M, Linck A, Guan C, Oh J, Dorrestein PC, Bode HB, Pevzner PA, Mohimani H. Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery. Nature Communications. 2021 May 28;12(1):3225. PMID: 34238936

2020

Larson P, Chong D, Fleming E, Oh J. Challenges Developing a Human Model System for Skin Microbiome Research. J Investigative Dermatology. 2020 June 6; PMID: 32522484

Dodds D, Bose JL, Deng M-D, Dubé GR, Grossman TH, Kaiser A, Kulkarni K, Leger R, Mootien-Boyd S, Munivar A, Oh J, Pestrak M, Rajpura K, Tikhonov AP, Turecek T, Whitfill T. Controlling the Growth of the Skin Commensal Staphylococcus epidermidis Using d-Alanine Auxotrophy. mSphere. American Society for Microbiology Journals; 2020 Jun 24;5(3). PMID: 32522780

Emiola, A, Zhou, W., Oh J. Metagenomic inferences of strain growth rate in situ. Science Advances. 2020; 6 : eaaz2299. 22 April 2020. PMID: 32494636

Spoto M, Guan C, Fleming E, Oh J. A Universal, Genomewide GuideFinder for CRISPR/Cas9 Targeting in Microbial Genomes. mSphere. American Society for Microbiology Journals; 2020 Feb 26;5(1). PMID: 32051236

Zhou W, Spoto M, Hardy R, Guan C, Fleming E, Larson PJ, Brown JS, Oh J. Host-Specific Evolutionary and Transmission Dynamics Shape the Functional Diversification of Staphylococcus epidermidis in Human Skin. Cell. 2020 Feb 6;180(3):454-470.e18. PMID: 32004459.

2019

Voigt, A, Michaud, M, Tsai, K, Oh, J*, Sundberg, J. Differential hairless mouse strain-specific susceptibility to skin cancer and sunburn. Journal of Investigative Dermatology. 2019 Aug; 139(8):1837-1840.e3. *Corresponding

Marko KI, Ganju N, Krapf JM, Gaba ND, Brown JA, Benham JJ, Oh J, Richards LM, Meltzer AC. A Mobile Prenatal Care App to Reduce In-Person Visits: Prospective Controlled Trial. JMIR Mhealth Uhealth. 2019 01;7(5):e10520. PMCID: PMC6658303

2018

Zhou, W, Chow, K, Fleming, E, Oh, J. Selective colonization ability of human fecal microbes in different mouse gut environments. The ISME Journal. 2018 Nov 15;1. Pubmed PMID: 30442907.

Emiola, A, Oh. J. In situ metagenomic measurement of bacterial replication at ultra-low sequencing coverage. Nature Communications. 2018 Nov 23;9(1):4956. Pubmed PMID: 30470746.

Tastan, C, Zhou, W, Voigt, AY, Horne, M, Fleming, E, Alpan, O, Placek, L, Karhan, E, Kozhaya, L, Oh, J*, Unutmaz, D*. Human mucosal associated invariant T (MAIT) cells discriminate microbial diversity by tunable MR1-restricted T cell receptor signals. Mucosal Immunology. 2018 Aug 16. PubMed PMID: 30115998. *Co-corresponding

Greathouse, L, White, J, Bliskovsky, V, Vargas, A, Polley, E, Bowman, E, Khan, M, Robles, A, Ryan, B, Dzutsev, A, Trinchieri, G, Pineda, M, Bilke, S, Meltzer, P, Deming, C, Conlan, S, Oh, J, Segre, JA, Harris, CC. Microbiome-TP53 Gene Interaction in Human Lung Cancer. Genome Biology. 2018 Aug 24;19(1):123. PMID: 30143034, PMCID: PMC6109311

Nakatsuji T, Chen TH, Butcher AM, Trzoss LL, Nam SJ, Shirakawa KT, Zhou W, Oh J,  Otto M, Fenical W, Gallo RL. A commensal strain of Staphylococcus epidermidis protects against skin neoplasia. Science Advances. 2018; 4(2):eaao4502. PMID: 29507878, PMCID: PMC5834004

Zhou W, Gay N, Oh J. ReprDB and panDB: minimalist databases with maximal microbial representation. Microbiome. 2018; 6(1):15. PMID: 29347966, PMCID: PMC5774170

2016 – 2000

Gay NR, Fleming E, Oh J. Draft Genome Sequence of Cloacibacterium normanense NRS-1 Isolated from Municipal Wastewater. Genome Announcements. 2016; 4(6). PMID: 27979947, PMCID: PMC5159580

Oh J, Byrd AL, Park M, Kong HH, Segre JA. Temporal Stability of the Human Skin Microbiome. Cell. 2016; 165(4):854-66. PMID: 27153496, PMCID: PMC4860256

Tsai YC, Conlan S, Deming C, Segre JA, Kong HH, Korlach J, Oh J. Resolving the Complexity of Human Skin Metagenomes Using Single-Molecule Sequencing. mBio. 2016; 7(1):e01948-15. PMID: 26861018, PMCID: PMC4752602

Marko KI, Krapf JM, Meltzer AC, Oh J, Ganju N, Martinez AG, Sheth SG, Gaba ND. Testing the Feasibility of Remote Patient Monitoring in Prenatal Care Using a Mobile App and Connected Devices: A Prospective Observational Trial. JMIR Res Protoc. 2016 Nov 18;5(4):e200. PMCID: PMC5135734

Oh J, Byrd AL, Deming C, Conlan S, Kong HH, Segre JA. Biogeography and individuality shape function in the human skin metagenome. Nature. 2014; 514(7520):59-64. PMID: 25279917, PMCID: PMC4185404

Oh J, Freeman AF, Park M, Sokolic R, Candotti F, Holland SM, Segre JA, Kong HH. The altered landscape of the human skin microbiome in patients with primary immunodeficiencies. Genome Research. 2013; 23(12):2103-14. PMID: 24170601, PMCID: PMC3847779

Findley K, Oh J, Yang J, Conlan S, Deming C, Meyer JA, Schoenfeld D, Nomicos E, Park M, Kong HH, Segre JA. Topographic diversity of fungal and bacterial communities in human skin. Nature. 2013; 498(7454):367-70. PMID: 23698366, PMCID: PMC3711185

Oh J, Conlan S, Polley EC, Segre JA, Kong HH. Shifts in human skin and nares microbiota of healthy children and adults. Genome Medicine. 2012; 4(10):77. PMID: 23050952, PMCID: PMC3580446

Kong HH, Oh J, Deming C, Conlan S, Grice EA, Beatson MA, Nomicos E, Polley EC, Komarow HD, Murray PR, Turner ML, Segre JA. Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis. Genome Research. 2012; 22(5):850-9. PMID: 22310478,  PMCID: PMC3337431

Oh J, Fung E, Schlecht U, Davis RW, Giaever G, St Onge RP, Deutschbauer A, Nislow C. Gene annotation and drug target discovery in Candida albicans with a tagged transposon mutant collection. PLoS Pathogens. 2010; 6(10):e1001140. PMID: 20949076, PMCID: PMC2951378

Oh J, Fung E, Price MN, Dehal PS, Davis RW, Giaever G, Nislow C, Arkin AP, Deutschbauer A. A universal TagModule collection for parallel genetic analysis of microorganisms. Nucleic Acids Research. 2010; 38(14):e146. PMID: 20494978, PMCID: PMC2919733

St Onge RP, Mani R, Oh J, Proctor M, Fung E, Davis RW, Nislow C, Roth FP, Giaever G. Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions. Nature Genetics. 2007; 39(2):199-206. PMID: 17206143, PMCID: PMC2716756

Landry CR, Oh J, Hartl DL, Cavalieri D. Genome-wide scan reveals that genetic variation for transcriptional plasticity in yeast is biased towards multi-copy and dispensable genes. Gene. 2006; 366(2):343-51. PMID: 16427747

Cavalieri D., Oh, J., Queitsch C., Landry, C. Transcriptional analysis of coexisting genomes in interspecific hybrids of Saccharomyces cerevisiae and Saccharomyces bayanus. Yeast 2005 Aug; 22 (S1): S116-S118.

Oh, J., Cavalieri, D. Everything you always wanted to know about wine yeasts but were afraid to ask. Yeast 2005 Aug; 22 (S1): S30-S36

Grzesik WJ, Cheng H, Oh JS, Kuznetsov SA, Mankani MH, Uzawa K, Robey PG, Yamauchi M. Cementum-forming cells are phenotypically distinct from bone-forming cells. Journal of Bone and Mineral Research 2000; 15(1):52-9. PMID: 10646114