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Genome Sequence of a Recombinant SARS-CoV-2 Lineage XAM (BA.1.1/BA.2.9) Strain from a Clinical Sample in Santo Domingo, Dominican Republic.
Paulino-Ramírez R, Pham K, Breban MI, Peguero A, Jabier M, Sánchez N, Eustate I, Ruiz I, Grubaugh ND, Hahn AM. Paulino-Ramírez R, et al. Among authors: grubaugh nd. Microbiol Resour Announc. 2023 Jan 24;12(1):e0111322. doi: 10.1128/mra.01113-22. Epub 2022 Nov 30. Microbiol Resour Announc. 2023. PMID: 36448812 Free PMC article.
Quantifying the impact of immune history and variant on SARS-CoV-2 viral kinetics and infection rebound: A retrospective cohort study.
Hay JA, Kissler SM, Fauver JR, Mack C, Tai CG, Samant RM, Connolly S, Anderson DJ, Khullar G, MacKay M, Patel M, Kelly S, Manhertz A, Eiter I, Salgado D, Baker T, Howard B, Dudley JT, Mason CE, Nair M, Huang Y, DiFiori J, Ho DD, Grubaugh ND, Grad YH. Hay JA, et al. Among authors: grubaugh nd. Elife. 2022 Nov 16;11:e81849. doi: 10.7554/eLife.81849. Elife. 2022. PMID: 36383192 Free PMC article.
Host-microbe multiomic profiling identifies distinct COVID-19 immune dysregulation in solid organ transplant recipients.
Pickering H, Schaenman J, Phan HV, Maguire C, Tsitsiklis A, Rouphael N, Higuita NIA, Atkinson MA, Brakenridge S, Fung M, Messer W; IMPACC Network; Salehi-Rad R, Altman MC, Becker PM, Bosinger SE, Eckalbar W, Hoch A, Doni Jayavelu N, Kim-Schulze S, Jenkins M, Kleinstein SH, Krammer F, Maecker HT, Ozonoff A, Diray-Arce J, Shaw A, Baden L, Levy O, Reed EF, Langelier CR. Pickering H, et al. Nat Commun. 2025 Jan 10;16(1):586. doi: 10.1038/s41467-025-55823-z. Nat Commun. 2025. PMID: 39794319 Free PMC article.
Tiled Amplicon Sequencing Enables Culture-free Whole-Genome Sequencing of Pathogenic Bacteria From Clinical Specimens.
Kalinich CC, Gonzalez FL, Osmaston A, Breban MI, Distefano I, Leon C, Sheen P, Zimic M, Coronel J, Tan G, Crudu V, Ciobanu N, Codreanu A, Solano W, Ráez J, Allicock OM, Chaguza C, Wyllie AL, Brandt M, Weinberger DM, Sobkowiak B, Cohen T, Grandjean L, Grubaugh ND, Redmond SN. Kalinich CC, et al. Among authors: grubaugh nd. bioRxiv [Preprint]. 2024 Dec 20:2024.12.19.629550. doi: 10.1101/2024.12.19.629550. bioRxiv. 2024. PMID: 39763738 Free PMC article. Preprint.
Analysis of Powassan Virus Genome Sequences from Human Cases Reveals Substantial Genetic Diversity with Implications for Molecular Assay Development.
Klontz EH, Chowdhury N, Holbrook N, Solomon IH, Telford SR 3rd, Aliota MT, Vogels CBF, Grubaugh ND, Helgager J, Hughes HR, Velez J, Piantadosi A, Chiu CY, Lemieux J, Branda JA. Klontz EH, et al. Among authors: grubaugh nd. Viruses. 2024 Oct 23;16(11):1653. doi: 10.3390/v16111653. Viruses. 2024. PMID: 39599768 Free PMC article.
Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infections.
Li K, Chaguza C, Stamp J, Chew YT, Chen NFG, Ferguson D, Pandya S, Kerantzas N, Schulz W; Yale SARS-CoV-2 Genomic Surveillance Initiative; Hahn AM, Ogbunugafor CB, Pitzer VE, Crawford L, Weinberger DM, Grubaugh ND. Li K, et al. Among authors: grubaugh nd. PLoS Comput Biol. 2024 Sep 17;20(9):e1012469. doi: 10.1371/journal.pcbi.1012469. eCollection 2024 Sep. PLoS Comput Biol. 2024. PMID: 39288189 Free PMC article.
A new lineage nomenclature to aid genomic surveillance of dengue virus.
Hill V, Cleemput S, Pereira JS, Gifford RJ, Fonseca V, Tegally H, Brito AF, Ribeiro G, de Souza VC, Brcko IC, Ribeiro IS, De Lima ITT, Slavov SN, Sampaio SC, Elias MC, Tran VT, Kien DTH, Huynh T, Yacoub S, Dieng I, Salvato R, Wallau GL, Gregianini TS, Godinho FMS, Vogels CBF, Breban MI, Leguia M, Jagtap S, Roy R, Hapuarachchi C, Mwanyika G, Giovanetti M, Alcantara LCJ, Faria NR, Carrington CVF, Hanley KA, Holmes EC, Dumon W, Lima ARJ, Oliveira T, Grubaugh ND. Hill V, et al. Among authors: grubaugh nd. PLoS Biol. 2024 Sep 16;22(9):e3002834. doi: 10.1371/journal.pbio.3002834. eCollection 2024 Sep. PLoS Biol. 2024. PMID: 39283942 Free PMC article.
North-south pathways, emerging variants, and high climate suitability characterize the recent spread of dengue virus serotypes 2 and 3 in the Dominican Republic.
Miguel I, Feliz EP, Agramonte R, Martinez PV, Vergara C, Imbert Y, De la Cruz L, de Castro N, Cedano O, De la Paz Y, Fonseca V, Santiago GA, Muñoz-Jordán JL, Peguero A, Paulino-Ramírez R, Grubaugh ND, de Filippis AMB, Alcantara LCJ, Rico JM, Lourenço J, Franco L, Giovanetti M. Miguel I, et al. Among authors: grubaugh nd. BMC Infect Dis. 2024 Jul 29;24(1):751. doi: 10.1186/s12879-024-09658-6. BMC Infect Dis. 2024. PMID: 39075335 Free PMC article.
184 results