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Genome-centric analyses of 165 metagenomes show that mobile genetic elements are crucial for the transmission of antimicrobial resistance genes to pathogens in activated sludge and wastewater.
Abdulkadir N, Saraiva JP, Zhang J, Stolte S, Gillor O, Harms H, Rocha U. Abdulkadir N, et al. Among authors: saraiva jp. Microbiol Spectr. 2024 Mar 5;12(3):e0291823. doi: 10.1128/spectrum.02918-23. Epub 2024 Jan 30. Microbiol Spectr. 2024. PMID: 38289113 Free PMC article.
MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy.
Rocha U, Coelho Kasmanas J, Kallies R, Saraiva JP, Toscan RB, Štefanič P, Bicalho MF, Borim Correa F, Baştürk MN, Fousekis E, Viana Barbosa LM, Plewka J, Probst AJ, Baldrian P, Stadler PF; CLUE-TERRA Consortium. Rocha U, et al. Among authors: saraiva jp. Mol Ecol Resour. 2024 Feb;24(2):e13904. doi: 10.1111/1755-0998.13904. Epub 2023 Nov 23. Mol Ecol Resour. 2024. PMID: 37994269
The AnimalAssociatedMetagenomeDB reveals a bias towards livestock and developed countries and blind spots in functional-potential studies of animal-associated microbiomes.
Avila Santos AP, Kabiru Nata'ala M, Kasmanas JC, Bartholomäus A, Keller-Costa T, Jurburg SD, Tal T, Camarinha-Silva A, Saraiva JP, Ponce de Leon Ferreira de Carvalho AC, Stadler PF, Sipoli Sanches D, Rocha U. Avila Santos AP, et al. Among authors: saraiva jp. Anim Microbiome. 2023 Oct 5;5(1):48. doi: 10.1186/s42523-023-00267-3. Anim Microbiome. 2023. PMID: 37798675 Free PMC article.
Metagenome-assembled genomes indicate that antimicrobial resistance genes are highly prevalent among urban bacteria and multidrug and glycopeptide resistances are ubiquitous in most taxa.
Magnúsdóttir S, Saraiva JP, Bartholomäus A, Soheili M, Toscan RB, Zhang J, Nunes da Rocha U; CLUE-TERRA consortium. Magnúsdóttir S, et al. Among authors: saraiva jp. Front Microbiol. 2023 Jan 25;14:1037845. doi: 10.3389/fmicb.2023.1037845. eCollection 2023. Front Microbiol. 2023. PMID: 36760505 Free PMC article.
MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes.
Nata'ala MK, Avila Santos AP, Coelho Kasmanas J, Bartholomäus A, Saraiva JP, Godinho Silva S, Keller-Costa T, Costa R, Gomes NCM, Ponce de Leon Ferreira de Carvalho AC, Stadler PF, Sipoli Sanches D, Nunes da Rocha U. Nata'ala MK, et al. Among authors: saraiva jp. Environ Microbiome. 2022 Nov 18;17(1):57. doi: 10.1186/s40793-022-00449-7. Environ Microbiome. 2022. PMID: 36401317 Free PMC article.
16 results