| Microbial species delineation using whole genome sequences NJ Varghese, S Mukherjee, N Ivanova, KT Konstantinidis, K Mavrommatis, ... Nucleic Acids Research, 2015 | 680 | 2015 |
| A genomic catalog of Earth’s microbiomes S Nayfach, S Roux, R Seshadri, D Udwary, N Varghese, F Schulz, D Wu, ... Nature biotechnology 39 (4), 499-509, 2021 | 565 | 2021 |
| 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life S Mukherjee, R Seshadri, NJ Varghese, EA Eloe-Fadrosh, ... Nature biotechnology 35 (7), 676-683, 2017 | 244 | 2017 |
| Genome-Based Taxonomic Classification of Bacteroidetes RL Hahnke, JP Meier-Kolthoff, M García-López, S Mukherjee, ... Frontiers in microbiology 7, 2003, 2016 | 218 | 2016 |
| Genomes OnLine database (GOLD) v. 7: updates and new features S Mukherjee, D Stamatis, J Bertsch, G Ovchinnikova, HY Katta, A Mojica, ... Nucleic acids research 47 (D1), D649-D659, 2019 | 216 | 2019 |
| Genomes OnLine Database (GOLD) v. 6: data updates and feature enhancements S Mukherjee, D Stamatis, J Bertsch, G Ovchinnikova, O Verezemska, ... Nucleic acids research, gkw992, 2016 | 193 | 2016 |
| Genomes OnLine Database (GOLD) v. 8: overview and updates S Mukherjee, D Stamatis, J Bertsch, G Ovchinnikova, JC Sundaramurthi, ... Nucleic acids research 49 (D1), D723-D733, 2021 | 170 | 2021 |
| Large-scale contamination of microbial isolate genomes by Illumina PhiX control S Mukherjee, M Huntemann, N Ivanova, NC Kyrpides, A Pati Standards in genomic sciences 10, 1-4, 2015 | 161 | 2015 |
| IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata AP Camargo, S Nayfach, IMA Chen, K Palaniappan, A Ratner, K Chu, ... Nucleic acids research 51 (D1), D733-D743, 2023 | 108 | 2023 |
| The IMG/M data management and analysis system v. 7: content updates and new features IMA Chen, K Chu, K Palaniappan, A Ratner, J Huang, M Huntemann, ... Nucleic acids research 51 (D1), D723-D732, 2023 | 90 | 2023 |
| DOE JGI metagenome workflow A Clum, M Huntemann, B Bushnell, B Foster, B Foster, S Roux, PP Hajek, ... Msystems 6 (3), 10.1128/msystems. 00804-20, 2021 | 61 | 2021 |
| Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom B Nowinski, CB Smith, CM Thomas, K Esson, R Marin III, CM Preston, ... Scientific data 6 (1), 129, 2019 | 44 | 2019 |
| Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v. 9 S Mukherjee, D Stamatis, CT Li, G Ovchinnikova, J Bertsch, ... Nucleic acids research 51 (D1), D957-D963, 2023 | 42 | 2023 |
| The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole K Martin, K Schmidt, A Toseland, CA Boulton, K Barry, B Beszteri, ... Nature Communications 12 (1), 5483, 2021 | 34 | 2021 |
| The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections Boundy-Mills K, H M, B AR, R M, K S, N D, E JA, I P, S IR, T T, B DR, C J, ... Applied and Environmental Microbiology, 2015 | 28 | 2015 |
| Genome and transcriptome of Clostridium phytofermentans, catalyst for the direct conversion of plant feedstocks to fuels E Petit, MV Coppi, JC Hayes, AC Tolonen, T Warnick, WG Latouf, ... PLoS One 10 (6), e0118285, 2015 | 23 | 2015 |
| Plant microbiomes harbor potential to promote nutrient turnover in impoverished substrates of a Brazilian biodiversity hotspot AP Camargo, RSC de Souza, J Jose, IR Gerhardt, RA Dante, ... The ISME journal 17 (3), 354-370, 2023 | 21 | 2023 |
| Expanding the genomic encyclopedia of Actinobacteria with 824 isolate reference genomes R Seshadri, S Roux, KJ Huber, D Wu, S Yu, D Udwary, L Call, S Nayfach, ... Cell genomics 2 (12), 2022 | 19 | 2022 |
| Impact of soil salinity on the cowpea nodule-microbiome and the isolation of halotolerant PGPR strains to promote plant growth under salinity stress S Mukhtar, AM Hirsch, N Khan, KA Malik, EA Humm, M Pellegrini, B Shi, ... Phytobiomes Journal 4 (4), 364-374, 2020 | 19 | 2020 |
| The role of zinc in the adaptive evolution of polar phytoplankton N Ye, W Han, A Toseland, Y Wang, X Fan, D Xu, C van Oosterhout, ... Nature ecology & evolution 6 (7), 965-978, 2022 | 17 | 2022 |
Nikos C KyrpidesJoint Genome Institute, Lawrence Berkeley National LaboratoryVerified email at lbl.gov
