Single cell genomes of Prochlorococcus, Synechococcus, and sympatric microbes from diverse marine environments
By P. Berube, S. Biller, Thomas Hackl, S. Hogle, B. Satinsky, J. Becker, Rogier Braakman, Sara B. Collins, Libusha Kelly, Jessie W. Berta-Thompson and 15 more. 2018
85 citations recorded by the source corpus.
Prochlorococcus and Synechococcus are the dominant primary producers in marine ecosystems and perform a significant fraction of ocean carbon fixation. These cyanobacteria interact with a diverse microbial community that coexists with them. Comparative genomics of cultivated isolates has helped address questions regarding patterns of evolution and diversity among microbes, but the fraction that can be cultivated is miniscule compared to the diversity in the wild. To further probe the diversity of these groups and extend the utility of reference sequence databases, we report a data set of single cell genomes for 489 Prochlorococcus, 50 Synechococcus, 9 extracellular virus particles, and 190 additional microorganisms from a diverse range of bacterial, archaeal, and viral groups. Many of these uncultivated single cell genomes are derived from samples obtained on GEOTRACES cruises and at well-studied oceanographic stations, each with extensive suites of physical, chemical, and biological measurements. The genomic data reported here greatly increases the number of available Prochlorococcus genomes and will facilitate studies on evolutionary biology, microbial ecology, and biological oceanography. Design Type(s) biodiversity assessment objective • sequence-based phylogenetic tree analysis objective • species comparison design Measurement Type(s) DNA sequencing • Molecular Genetic Variation Technology Type(s) real time polymerase chain reaction assay • computational phylogenetic analysis Factor Type(s) trophic quality • Microbial Taxonomy Sample Characteristic(s) Pacific Ocean • Atlantic Ocean • ocean biome Design Type(s) biodiversity assessment objective • sequence-based phylogenetic tree analysis objective • species comparison design Measurement Type(s) DNA sequencing • Molecular Genetic Variation Technology Type(s) real time polymerase chain reaction assay • computational phylogenetic analysis Factor Type(s) trophic quality • Microbial Taxonomy Sample Characteristic(s) Pacific Ocean • Atlantic Ocean • ocean biome Machine-accessible metadata file describing the reported data (ISA-Tab format)
Subfields: Ecology, Molecular Biology
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Citations in the corpus
- GToTree: a user-friendly workflow for phylogenomics (2019, background): “2017) and through the generation of single-cell amplified genomes (SAGs) (e.g. Kashtan et al. 2014; Berube et al. 2018).”