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Lucas Paoli
Lucas Paoli
School of Life Sciences, École Polytechnique Fédérale de Lausanne (EPFL)
Verified email at epfl.ch
Title
Cited by
Cited by
Year
Microbial abundance, activity and population genomic profiling with mOTUs2
A Milanese, DR Mende, L Paoli, G Salazar, HJ Ruscheweyh, M Cuenca, ...
Nature communications 10 (1), 1014, 2019
3742019
Gene expression changes and community turnover differentially shape the global ocean metatranscriptome
G Salazar*, L Paoli*, A Alberti, J Huerta-Cepas, HJ Ruscheweyh, ...
Cell 179 (5), 1068-1083. e21, 2019
2952019
Critical assessment of metagenome interpretation: the second round of challenges
F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ...
Nature methods 19 (4), 429-440, 2022
2122022
Biosynthetic potential of the global ocean microbiome
L Paoli, HJ Ruscheweyh, CC Forneris, F Hubrich, S Kautsar, A Bhushan, ...
Nature 607 (7917), 111–118, 2022
1842022
Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities
SG Acinas, P Sánchez, G Salazar, FM Cornejo-Castillo, M Sebastián, ...
Communications Biology 4 (1), 604, 2021
136*2021
metaSNV: a tool for metagenomic strain level analysis
PI Costea, R Munch, LP Coelho, L Paoli, S Sunagawa, P Bork
PloS one 12 (7), e0182392, 2017
1082017
proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes
DR Mende, I Letunic, OM Maistrenko, TSB Schmidt, A Milanese, L Paoli, ...
Nucleic acids research 48 (D1), D621-D625, 2020
922020
Principles of plastid reductive evolution illuminated by nonphotosynthetic chrysophytes
RG Dorrell, T Azuma, M Nomura, G Audren de Kerdrel, L Paoli, S Yang, ...
Proceedings of the National Academy of Sciences 116 (14), 6914-6923, 2019
872019
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean
M Royo-Llonch, P Sánchez, C Ruiz-González, G Salazar, C Pedrós-Alió, ...
Nature Microbiology 6 (12), 1561-1574, 2021
80*2021
Functional and evolutionary significance of unknown genes from uncultivated taxa
Á Rodríguez del Río, J Giner-Lamia, CP Cantalapiedra, J Botas, Z Deng, ...
Nature 626 (7998), 377-384, 2024
302024
Cultivation-independent genomes greatly expand taxonomic-profiling capabilities of mOTUs across various environments
HJ Ruscheweyh, A Milanese, L Paoli, N Karcher, Q Clayssen, MI Keller, ...
Microbiome 10 (1), 212, 2022
30*2022
Plastid transcript editing across dinoflagellate lineages shows lineage-specific application but conserved trends
CM Klinger, L Paoli, RJ Newby, MYW Wang, HD Carroll, JD Leblond, ...
Genome biology and evolution 10 (4), 1019-1038, 2018
252018
Phylogenetic estimation of community composition and novel eukaryotic lineages in Base Mine Lake: an oil sands tailings reclamation site in Northern Alberta
E Richardson, D Bass, A Smirnova, L Paoli, P Dunfield, JB Dacks
journal of eukaryotic microbiology 67 (1), 86-99, 2020
212020
Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean
C Hochart, L Paoli, HJ Ruscheweyh, G Salazar, E Boissin, S Romac, ...
Nature Communications 14 (1), 3037, 2023
192023
mOTUs: profiling taxonomic composition, transcriptional activity and strain populations of microbial communities
HJ Ruscheweyh, A Milanese, L Paoli, A Sintsova, DR Mende, G Zeller, ...
Current Protocols 1 (8), e218, 2021
172021
metaSNV v2: detection of SNVs and subspecies in prokaryotic metagenomes
T Van Rossum, PI Costea, L Paoli, R Alves, R Thielemann, S Sunagawa, ...
Bioinformatics 38 (4), 1162-1164, 2022
112022
The defensome of complex bacterial communities
A Beavogui, A Lacroix, N Wiart, J Poulain, TO Delmont, L Paoli, P Wincker, ...
Nature Communications 15 (1), 2146, 2024
32024
Metagenome-assembled genomes reveal greatly expanded taxonomic and functional diversification of the abundant marine Roseobacter RCA cluster
Y Liu, T Brinkhoff, M Berger, A Poehlein, S Voget, L Paoli, S Sunagawa, ...
Microbiome 11 (1), 265, 2023
32023
Space, time and microdiversity: towards a resolution revolution in microbiomics
L Paoli, S Sunagawa
Environmental microbiology reports 13 (1), 31, 2021
22021
Animal-associated marine Acidobacteria with a rich natural-product repertoire
S Leopold-Messer, C Chepkirui, MFJ Mabesoone, J Meyer, L Paoli, ...
Chem 9 (12), 3696-3713, 2023
2023
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