Bathycoccus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1148741 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Uncultured Bathycoccus Metagenomic Assembly
| PRJNA68167 | ENA
Project description:Bathycoccus sp. UST710 (RCC11004) genome sequencing and assembly
| PRJNA1080260 | ENA
Project description:Bathycoccus prasinos RCC1105 Genome sequencing
| PRJEA71363 | ENA
Project description:Bathycoccus prasinos strain:RCC4222 Raw sequence reads
| PRJNA715163 | ENA
Project description:Identification of Bathycoccus strains from the South China Sea using ITS1-5.8S-ITS2 sequences
| PRJNA1080467 | ENA
Project description:Bathycoccus prasinos strains sequencing for the detection of INDEL variations
| PRJEB76454 | ENA
Project description:Among small photosynthetic eukaryotes that play a key role in oceanic food webs, picoplanktonic Mamiellophyceae such as Bathycoccus, Micromonas, and Ostreococcus are particularly important in coastal regions. By using a combination of cell sorting by flow cytometry, whole genome amplification (WGA), and 454 pyrosequencing, we obtained metagenomic data for two natural picophytoplankton populations from the coastal upwelling waters off central Chile. About 60% of the reads of each sample could be mapped to the genome of Bathycoccus strain from the Mediterranean Sea (RCC1105), representing a total of 9 Mbp (sample T142) and 13 Mbp (sample T149) of non-redundant Bathycoccus genome sequences. WGA did not amplify all regions uniformly, resulting in unequal coverage along a given chromosome and between chromosomes. The identity at the DNA level between the metagenomes and the cultured genome was very high (96.3% identical bases for the three larger chromosomes over a 360 kbp alignment). At least two to three different genotypes seemed to be present in each natural sample based on read mapping to Bathycoccus RCC1105 genome.
| S-EPMC3382182 | biostudies-literature
Project description:Bathycoccus is a cosmopolitan green micro-alga belonging to the Mamiellophyceae, a class of picophytoplankton that contains important contributors to oceanic primary production. A single species of Bathycoccus has been described while the existence of two ecotypes has been proposed based on metagenomic data. A genome is available for one strain corresponding to the described phenotype. We report a second genome assembly obtained by a single cell genomics approach corresponding to the second ecotype. The two Bathycoccus genomes are divergent enough to be unambiguously distinguishable in whole DNA metagenomic data although they possess identical sequence of the 18S rRNA gene including in the V9 region. Analysis of 122 global ocean whole DNA metagenome samples from the Tara-Oceans expedition reveals that populations of Bathycoccus that were previously identified by 18S rRNA V9 metabarcodes are only composed of these two genomes. Bathycoccus is relatively abundant and widely distributed in nutrient rich waters. The two genomes rarely co-occur and occupy distinct oceanic niches in particular with respect to depth. Metatranscriptomic data provide evidence for gain or loss of highly expressed genes in some samples, suggesting that the gene repertoire is modulated by environmental conditions.
| S-EPMC5128809 | biostudies-literature