TMC-GCID Publications

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2024
Lewis MA, Patil K, Ettayebi K, Estes MK, Atmar RL, Ramani S. Divergent responses of human intestinal organoid monolayers using commercial in vitro cytotoxicity assays. PLoS One. 2024 ;19(6):e0304526.
Adeniyi-Ipadeola GO, Hankins JD, Kambal A, Zeng X-L, Patil K, Poplaski V, et al.. Infant and adult human intestinal enteroids are morphologically and functionally distinct. mBio. 2024 ;15(8):e0131624.
Xing Y, Clark JR, Chang JD, Zulk JJ, Chirman DM, Piedra F-A, et al.. Progress toward a vaccine for extraintestinal pathogenic (ExPEC) II: efficacy of a toxin-autotransporter dual antigen approach. Infect Immun. 2024 ;92(5):e0044023.
Qiu L, Chirman D, Clark JR, Xing Y, Santos HHernandez, Vaughan EE, et al.. Vaccines against extraintestinal pathogenic (ExPEC): progress and challenges. Gut Microbes. 2024 ;16(1):2359691.
2023
Xing Y, Clark JR, Chang JD, Chirman DM, Green S, Zulk JJ, et al.. Broad protective vaccination against systemic Escherichia coli with autotransporter antigens. PLoS Pathog. 2023 ;19(2):e1011082.
B Ayyar V, Ettayebi K, Salmen W, Karandikar UC, Neill FH, Tenge VR, et al.. CLIC and membrane wound repair pathways enable pandemic norovirus entry and infection. Nat Commun. 2023 ;14(1):1148.
Lewis MA, Cortés-Penfield NW, Ettayebi K, Patil K, Kaur G, Neill FH, et al.. Standardization of an antiviral pipeline for human norovirus in human intestinal enteroids demonstrates nitazoxanide has no to weak antiviral activity. Antimicrob Agents Chemother. 2023 ;67(10):e0063623.
Tisza M, Cregeen SJavornik, Avadhanula V, Zhang P, Ayvaz T, Feliz K, et al.. Wastewater sequencing reveals community and variant dynamics of the collective human virome. Nat Commun. 2023 ;14(1):6878.
2022
Menon VK, Okhuysen PC, Chappell CL, Mahmoud M, Mahmoud M, Meng Q, et al.. Fully resolved assembly of Cryptosporidium parvum. Gigascience. 2022 ;11.
DiNardo AR, Gandhi T, Heyckendorf J, Grimm SL, Rajapakshe K, Nishiguchi T, et al.. Gene expression signatures identify biologically and clinically distinct tuberculosis endotypes. Eur Respir J. 2022 ;60(3).
Lin S-C, Haga K, Zeng X-L, Estes MK. Generation of CRISPR-Cas9-mediated genetic knockout human intestinal tissue-derived enteroid lines by lentivirus transduction and single-cell cloning. Nat Protoc. 2022 ;17(4):1004-1027.
Martins FH, Rajan A, Carter HE, Baniasadi HR, Maresso AW, Sperandio V. Interactions between Enterohemorrhagic Escherichia coli (EHEC) and Gut Commensals at the Interface of Human Colonoids. mBio. 2022 ;13(3):e0132122.
Rajan A, Piedra F-A, Aideyan L, McBride T, Robertson M, Johnson HL, et al.. Multiple Respiratory Syncytial Virus (RSV) Strains Infecting HEp-2 and A549 Cells Reveal Cell Line-Dependent Differences in Resistance to RSV Infection. J Virol. 2022 ;96(7):e0190421.
Chen J, Qiu X, Avadhanula V, Shepard SS, Kim D-K, Hixson J, et al.. Novel and extendable genotyping system for human respiratory syncytial virus based on whole-genome sequence analysis. Influenza Other Respir Viruses. 2022 ;16(3):492-500.
Blutt SE, Estes MK. Organoid Models for Infectious Disease. Annu Rev Med. 2022 ;73:167-182.
Liu Y, Kearney J, Mahmoud M, Kille B, Sedlazeck FJ, Treangen TJ. Rescuing low frequency variants within intra-host viral populations directly from Oxford Nanopore sequencing data. Nat Commun. 2022 ;13(1):1321.
2021
Clark JR, Maresso AM. Comparative Pathogenomics of : Polyvalent Vaccine Target Identification through Virulome Analysis. Infect Immun. 2021 ;89(8):e0011521.
Criss ZK, Bhasin N, Di Rienzi SC, Rajan A, Deans-Fielder K, Swaminathan G, et al.. Drivers of transcriptional variance in human intestinal epithelial organoids. Physiol Genomics. 2021 ;53(11):486-508.
Swaminathan G, Kamyabi N, Carter HE, Rajan A, Karandikar U, Criss ZK, et al.. Effect of substrate stiffness on human intestinal enteroids' infectivity by enteroaggregative Escherichia coli. Acta Biomater. 2021 ;132:245-259.
Olvera A, Carter H, Rajan A, Carlin LG, Yu X, Zeng X-L, et al.. Enteropathogenic Escherichia coli Infection in Cancer and Immunosuppressed Patients. Clin Infect Dis. 2021 ;72(10):e620-e629.
Rajan A, Weaver AMorgan, Aloisio GMarie, Jelinski J, Johnson HL, Venable SF, et al.. The Human Nose Organoid Respiratory Virus Model: an Human Challenge Model To Study Respiratory Syncytial Virus (RSV) and Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Pathogenesis and Evaluate Therapeutics. mBio. 2021 ;13(1):e0351121.
Chen F, Zhang Y, Sucgang R, Ramani S, Corry D, Kheradmand F, et al.. Meta-analysis of host transcriptional responses to SARS-CoV-2 infection reveals their manifestation in human tumors. Sci Rep. 2021 ;11(1):2459.
Wilson RL, Hewes SA, Rajan A, Lin S-C, Bomidi C, Iida T, et al.. A Millifluidic Perfusion Cassette for Studying the Pathogenesis of Enteric Infections Using Ex-Vivo Organoids. Ann Biomed Eng. 2021 ;49(4):1233-1244.
Doddapaneni H, Cregeen SJavornik, Sucgang R, Meng Q, Qin X, Avadhanula V, et al.. Oligonucleotide capture sequencing of the SARS-CoV-2 genome and subgenomic fragments from COVID-19 individuals. PLoS One. 2021 ;16(8):e0244468.
Sapoval N, Mahmoud M, Jochum MD, Liu Y, Elworth RALeo, Wang Q, et al.. SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission. Genome Res. 2021 ;31(4):635-644.