Works by Paoli, Lucas

Results: 12

metaSNV v2: detection of SNVs and subspecies in prokaryotic metagenomes.

Published in:

Bioinformatics, 2022, v. 38, n. 4, p. 1162, doi. 10.1093/bioinformatics/btab789

By:

Rossum, Thea Van;
Costea, Paul I;
Paoli, Lucas;
Alves, Renato;
Thielemann, Roman;
Sunagawa, Shinichi;
Bork, Peer

Publication type:

Article

Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities.

Published in:

Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02112-2

By:

Acinas, Silvia G.;
Sánchez, Pablo;
Salazar, Guillem;
Cornejo-Castillo, Francisco M.;
Sebastián, Marta;
Logares, Ramiro;
Royo-Llonch, Marta;
Paoli, Lucas;
Sunagawa, Shinichi;
Hingamp, Pascal;
Ogata, Hiroyuki;
Lima-Mendez, Gipsi;
Roux, Simon;
González, José M.;
Arrieta, Jesús M.;
Alam, Intikhab S.;
Kamau, Allan;
Bowler, Chris;
Raes, Jeroen;
Pesant, Stéphane

Publication type:

Article

Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage-Specific Application but Conserved Trends.

Published in:

Genome Biology & Evolution, 2018, v. 10, n. 4, p. 1019, doi. 10.1093/gbe/evy057

By:

Klinger, Christen M.;
Paoli, Lucas;
Newby, Robert J.;
Yu-Wei Wang, Matthew;
Carroll, Hyrum D.;
Leblond, Jeffrey D.;
Howe, Christopher J.;
Dacks, Joel B.;
Bowler, Chris;
Cahoon, Aubery Bruce;
Dorrell, Richard G.;
Richardson, Elisabeth

Publication type:

Article

Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-38502-9

By:

Hochart, Corentin;
Paoli, Lucas;
Ruscheweyh, Hans-Joachim;
Salazar, Guillem;
Boissin, Emilie;
Romac, Sarah;
Poulain, Julie;
Bourdin, Guillaume;
Iwankow, Guillaume;
Moulin, Clémentine;
Ziegler, Maren;
Porro, Barbara;
Armstrong, Eric J.;
Hume, Benjamin C. C.;
Aury, Jean-Marc;
Pogoreutz, Claudia;
Paz-García, David A.;
Nugues, Maggy M.;
Agostini, Sylvain;
Banaigs, Bernard

Publication type:

Article

metaSNV: A tool for metagenomic strain level analysis.

Published in:

PLoS ONE, 2017, v. 12, n. 7, p. 1, doi. 10.1371/journal.pone.0182392

By:

Costea, Paul Igor;
Munch, Robin;
Pedro Coelho, Luis;
Paoli, Lucas;
Sunagawa, Shinichi;
Bork, Peer

Publication type:

Article

Space, time and microdiversity: towards a resolution revolution in microbiomics.

Published in:

Environmental Microbiology Reports, 2021, v. 13, n. 1, p. 31, doi. 10.1111/1758-2229.12897

By:

Paoli, Lucas;
Sunagawa, Shinichi

Publication type:

Article

Metagenome-assembled genomes reveal greatly expanded taxonomic and functional diversification of the abundant marine Roseobacter RCA cluster.

Published in:

Microbiome, 2023, v. 11, n. 1, p. 1, doi. 10.1186/s40168-023-01644-5

By:

Liu, Yanting;
Brinkhoff, Thorsten;
Berger, Martine;
Poehlein, Anja;
Voget, Sonja;
Paoli, Lucas;
Sunagawa, Shinichi;
Amann, Rudolf;
Simon, Meinhard

Publication type:

Article

Cultivation-independent genomes greatly expand taxonomic-profiling capabilities of mOTUs across various environments.

Published in:

Microbiome, 2022, v. 10, n. 1, p. 1, doi. 10.1186/s40168-022-01410-z

By:

Ruscheweyh, Hans-Joachim;
Milanese, Alessio;
Paoli, Lucas;
Karcher, Nicolai;
Clayssen, Quentin;
Keller, Marisa Isabell;
Wirbel, Jakob;
Bork, Peer;
Mende, Daniel R.;
Zeller, Georg;
Sunagawa, Shinichi

Publication type:

Article

proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes.

Published in:

Nucleic Acids Research, 2020, v. 48, n. D1, p. D621, doi. 10.1093/nar/gkz1002

By:

Mende, Daniel R;
Letunic, Ivica;
Maistrenko, Oleksandr M;
Schmidt, Thomas S B;
Milanese, Alessio;
Paoli, Lucas;
Hernández-Plaza, Ana;
Orakov, Askarbek N;
Forslund, Sofia K;
Sunagawa, Shinichi;
Zeller, Georg;
Huerta-Cepas, Jaime;
Coelho, Luis Pedro;
Bork, Peer

Publication type:

Article

mOTUs: Profiling Taxonomic Composition, Transcriptional Activity and Strain Populations of Microbial Communities.

Published in:

Current Protocols, 2021, v. 1, n. 8, p. 1, doi. 10.1002/cpz1.218

By:

Ruscheweyh, Hans-Joachim;
Milanese, Alessio;
Paoli, Lucas;
Sintsova, Anna;
Mende, Daniel R.;
Zeller, Georg;
Sunagawa, Shinichi

Publication type:

Article

Phylogenetic Estimation of Community Composition and Novel Eukaryotic Lineages in Base Mine Lake: An Oil Sands Tailings Reclamation Site in Northern Alberta.

Published in:

Journal of Eukaryotic Microbiology, 2020, v. 67, n. 1, p. 86, doi. 10.1111/jeu.12757

By:

Richardson, Elisabeth;
Bass, David;
Smirnova, Angela;
Paoli, Lucas;
Dunfield, Peter;
Dacks, Joel B.

Publication type:

Article

Microbial abundance, activity and population genomic profiling with mOTUs2.

Published in:

Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-019-08844-4

By:

Milanese, Alessio;
Mende, Daniel R;
Paoli, Lucas;
Salazar, Guillem;
Ruscheweyh, Hans-Joachim;
Cuenca, Miguelangel;
Hingamp, Pascal;
Alves, Renato;
Costea, Paul I;
Coelho, Luis Pedro;
Schmidt, Thomas S. B.;
Almeida, Alexandre;
Mitchell, Alex L;
Finn, Robert D.;
Huerta-Cepas, Jaime;
Bork, Peer;
Zeller, Georg;
Sunagawa, Shinichi

Publication type:

Article