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Cited In for PMID: 39283083

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Clearing the plate: a strategic approach to mitigate well-to-well contamination in large-scale microbiome studies.
Brennan C, Belda-Ferre P, Zuffa S, Charron-Lamoureux V, Mohanty I, Ackermann G, Allaband C, Ambre M, Boyer T, Bryant M, Cantrell K, Gonzalez A, McDonald D, Salido RA, Song SJ, Wright G, Dorrestein PC, Knight R. Brennan C, et al. mSystems. 2024 Oct 22;9(10):e0098524. doi: 10.1128/msystems.00985-24. Epub 2024 Sep 16. mSystems. 2024. PMID: 39283083 Free PMC article.
MS/MS Mass Spectrometry Filtering Tree for Bile Acid Isomer Annotation.
Mohanty I, Xing S, Castillo V, Agongo J, Patan A, Abiead YE, Mannochio-Russo H, Zuffa S, Zemlin J, Tronel A, Gouellec AL, Soranzo T, Wang CX, Iudicello JE, Andalibi MS, Ellis RJ, Moore DJ, Franklin DR Jr, Sala-Climent M, Guma M, Voigt RM, Kaddaruh-Dauok R, Siegel D, Wang M, Hagey LR, Dorrestein PC. Mohanty I, et al. bioRxiv [Preprint]. 2025 Mar 9:2025.03.04.641505. doi: 10.1101/2025.03.04.641505. bioRxiv. 2025. Update in: Anal Chem. 2026 Feb 17;98(6):4571-4584. doi: 10.1021/acs.analchem.5c05677. PMID: 41659560 Free PMC article. Updated. Preprint.
A resource to empirically establish drug exposure records directly from untargeted metabolomics data.
Zhao HN, Kvitne KE, Brungs C, Mohan S, Charron-Lamoureux V, Bittremieux W, Tang R, Schmid R, Lamichhane S, Xing S, El Abiead Y, Andalibi MS, Mannochio-Russo H, Ambre M, Avalon NE, Bryant M, Burnett LA, Caraballo-Rodríguez AM, Maya MC, Chin L, Corominas L, Ellis RJ, Franklin D, Girod S, Gomes PWP, Hansen L, Heaton RK, Iudicello JE, Jarmusch AK, Khatib L, Letendre S, Magyari S, McDonald D, Mohanty I, Cumsille A, Moore DJ, Rajkumar P, Ross DH, Sapre H, Shahneh MRZ, Gil-Solsona R, Thomas SP, Tribelhorn C, Tubb HM, Walker C, Wang CX, Zemlin J, Zuffa S, Wishart DS, Gago-Ferrero P, Kaddurah-Daouk R, Wang M, Raffatellu M, Zengler K, Pluskal T, Xu L, Knight R, Tsunoda SM, Dorrestein PC. Zhao HN, et al. Nat Commun. 2025 Dec 9;16(1):10600. doi: 10.1038/s41467-025-65993-5. Nat Commun. 2025. PMID: 41366203 Free PMC article.
Environmental and maternal imprints on infant gut metabolic development.
Kvitne KE, Allaband C, Onuora JC, Perry D, Zuffa S, Patel L, Charron-Lamoureux V, Mohanty I, Sejane K, Patan A, Mahmud AA, Ahmed T, Bassani DG, González A, Hamer DH, Haque R, Ho B, Hossain MI, Islam MS, McDonald D, Pell LG, Qamar H, Roth DE, Saha S, Shah PS, Siddiqui MM, Sarker SA, Sultana S, Thomas S, Burnett LA, Tsunoda SM, Bode L, Dorrestein PC, Knight R. Kvitne KE, et al. Cell Host Microbe. 2025 Dec 10;33(12):2130-2147.e7. doi: 10.1016/j.chom.2025.11.002. Epub 2025 Nov 26. Cell Host Microbe. 2025. PMID: 41308639 Free PMC article.
Streamlined extraction of nucleic acids and metabolites from low- and high-biomass samples using isopropanol and matrix tubes.
Brennan C, Shaffer JP, Belda-Ferre P, Mohanty I, Weng Y, Cantrell K, Ackermann G, Allaband C, Bryant M, Farmer S, González A, McDonald D, Martino C, Meehan MJ, Rahman G, Salido RA, Schwartz T, Song SJ, Tribelhorn C, Tubb HM, Dorrestein PC, Knight R. Brennan C, et al. Microbiol Spectr. 2025 Nov 4;13(11):e0191225. doi: 10.1128/spectrum.01912-25. Epub 2025 Oct 10. Microbiol Spectr. 2025. PMID: 41070991 Free PMC article.
Versatile wastewater monitoring of pathogens and antimicrobial resistance enabled by metatranscriptomics and long-read metagenomics.
Knight R, Din MO, Salido R, Wright G, Brennan C, Ambre M, Hansen L, Boyer T, Cao J, Oles R, Patel L, Weng Y, McDonald D, Bhute S, Solini G, Karthikeyan S, Humphrey G, DeHoff P, Kralicek S, Levy J, Zeller M, Hecht G, Laurent L, Yeo G, Andersen K, Bartko A. Knight R, et al. Res Sq [Preprint]. 2025 Sep 10:rs.3.rs-7492978. doi: 10.21203/rs.3.rs-7492978/v1. Res Sq. 2025. PMID: 40964040 Free PMC article. Preprint.
Environmental and Maternal Imprints on Infant Gut Metabolic Programming.
Kvitne KE, Allaband C, Onuora JC, Perry D, Zuffa S, Patel L, Charron-Lamoureux V, Mohanty I, Sejane K, Patan A, Al Mahmud A, Ahmed T, Bassani DG, González A, Hamer DH, Haque R, Ho B, Hossain MI, Islam MS, McDonald D, Pell LG, Qamar H, Roth DE, Saha S, Shah PS, Siddiqui MM, Sarker SA, Sultana S, Thomas S, Burnett LA, Tsunoda SM, Bode L, Dorrestein PC, Knight R. Kvitne KE, et al. bioRxiv [Preprint]. 2025 Jul 24:2025.07.24.666662. doi: 10.1101/2025.07.24.666662. bioRxiv. 2025. Update in: Cell Host Microbe. 2025 Dec 10;33(12):2130-2147.e7. doi: 10.1016/j.chom.2025.11.002. PMID: 40777448 Free PMC article. Updated. Preprint.
The microbiome diversifies long- to short-chain fatty acid-derived N-acyl lipids.
Mannochio-Russo H, Charron-Lamoureux V, van Faassen M, Lamichhane S, Gonçalves Nunes WD, Deleray V, Ayala AV, Tanaka Y, Patan A, Vittali K, Rajkumar P, El Abiead Y, Zhao HN, Gomes PWP, Mohanty I, Lee C, Sund A, Sharma M, Liu Y, Pattynama D, Walker GT, Norton GJ, Khatib L, Andalibi MS, Wang CX, Ellis RJ, Moore DJ, Iudicello JE, Franklin D Jr, Letendre S, Chin L, Walker C, Renwick S, Zemlin J, Meehan MJ, Song X, Kasper D, Burcham Z, Kim JJ, Kadakia S, Raffatellu M, Bode L, Chu H, Zengler K, Wang M, Siegel D, Knight R, Dorrestein PC. Mannochio-Russo H, et al. Cell. 2025 Jul 24;188(15):4154-4169.e19. doi: 10.1016/j.cell.2025.05.015. Epub 2025 Jun 10. Cell. 2025. PMID: 40499541 Free PMC article.
13 results