title: Metagenomes of the picoalga Bathycoccus from the Chile coastal upwelling.
abstract: 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.
authors: UPMC (Paris-06) and CNRS, UMR 7144, Station Biologique, Place G. Tessier, Roscoff, France. vaulot@sb-roscoff.fr
authors: Daniel
authors: D
authors: Vaulot
authors: Cécile
authors: C
authors: Lepère
authors: Eve
authors: E
authors: Toulza
authors: Rodrigo
authors: R
authors: De la Iglesia
authors: Julie
authors: J
authors: Poulain
authors: Frédéric
authors: F
authors: Gaboyer
authors: Hervé
authors: H
authors: Moreau
authors: Klaas
authors: K
authors: Vandepoele
authors: Osvaldo
authors: O
authors: Ulloa
authors: Frederick
authors: F
authors: Gavory
authors: Gwenael
authors: G
authors: Piganeau
mesh_terms: D002677:Chile; D000460:Chlorophyta / Q000235:genetics*; D056186:Metagenomics / Q000379:methods*; D008969:Molecular Sequence Data; D009792:Oceans and Seas; D017422:Sequence Analysis, DNA