Your browser doesn't support javascript.
loading
Coassembly and binning of a twenty-year metagenomic time-series from Lake Mendota.
Oliver, Tiffany; Varghese, Neha; Roux, Simon; Schulz, Frederik; Huntemann, Marcel; Clum, Alicia; Foster, Brian; Foster, Bryce; Riley, Robert; LaButti, Kurt; Egan, Robert; Hajek, Patrick; Mukherjee, Supratim; Ovchinnikova, Galina; Reddy, T B K; Calhoun, Sara; Hayes, Richard D; Rohwer, Robin R; Zhou, Zhichao; Daum, Chris; Copeland, Alex; Chen, I-Min A; Ivanova, Natalia N; Kyrpides, Nikos C; Mouncey, Nigel J; Del Rio, Tijana Glavina; Grigoriev, Igor V; Hofmeyr, Steven; Oliker, Leonid; Yelick, Katherine; Anantharaman, Karthik; McMahon, Katherine D; Woyke, Tanja; Eloe-Fadrosh, Emiley A.
Afiliação
  • Oliver T; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA. toliver4@spelman.edu.
  • Varghese N; Department of Biology, Spelman College, Atlanta, GA, 30314, USA. toliver4@spelman.edu.
  • Roux S; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Schulz F; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Huntemann M; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Clum A; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Foster B; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Foster B; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Riley R; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • LaButti K; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Egan R; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Hajek P; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Mukherjee S; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Ovchinnikova G; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Reddy TBK; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Calhoun S; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Hayes RD; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Rohwer RR; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Zhou Z; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Daum C; Department of Integrative Biology, The University of Texas at Austin, Austin, TX, 78712, USA.
  • Copeland A; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, 53706, USA.
  • Chen IA; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Ivanova NN; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Kyrpides NC; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Mouncey NJ; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Del Rio TG; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Grigoriev IV; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Hofmeyr S; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Oliker L; DOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Yelick K; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Anantharaman K; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, 94720, USA.
  • McMahon KD; Applied Math and Computational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Woyke T; Applied Math and Computational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
  • Eloe-Fadrosh EA; Applied Math and Computational Research Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Sci Data ; 11(1): 966, 2024 Sep 04.
Article em En | MEDLINE | ID: mdl-39231974
ABSTRACT
The North Temperate Lakes Long-Term Ecological Research (NTL-LTER) program has been extensively used to improve understanding of how aquatic ecosystems respond to environmental stressors, climate fluctuations, and human activities. Here, we report on the metagenomes of samples collected between 2000 and 2019 from Lake Mendota, a freshwater eutrophic lake within the NTL-LTER site. We utilized the distributed metagenome assembler MetaHipMer to coassemble over 10 terabases (Tbp) of data from 471 individual Illumina-sequenced metagenomes. A total of 95,523,664 contigs were assembled and binned to generate 1,894 non-redundant metagenome-assembled genomes (MAGs) with ≥50% completeness and ≤10% contamination. Phylogenomic analysis revealed that the MAGs were nearly exclusively bacterial, dominated by Pseudomonadota (Proteobacteria, N = 623) and Bacteroidota (N = 321). Nine eukaryotic MAGs were identified by eukCC with six assigned to the phylum Chlorophyta. Additionally, 6,350 high-quality viral sequences were identified by geNomad with the majority classified in the phylum Uroviricota. This expansive coassembled metagenomic dataset provides an unprecedented foundation to advance understanding of microbial communities in freshwater ecosystems and explore temporal ecosystem dynamics.
Assuntos
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Lagos / Metagenoma Idioma: En Revista: Sci Data Ano de publicação: 2024 Tipo de documento: Article País de afiliação: Estados Unidos País de publicação: Reino Unido
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Lagos / Metagenoma Idioma: En Revista: Sci Data Ano de publicação: 2024 Tipo de documento: Article País de afiliação: Estados Unidos País de publicação: Reino Unido