Home • Raphidocelis subcapitata NIES-35
Raphidocelis subcapitata micrograph
Micrograph of Raphidocelis subcapitata SAG 61.81. By M. Lorenz [CC BY-SA 4.0], from the SAG Culture Collection of Algae at Gottingen University.

The genome sequence and gene models of Raphidocelis subcapitata NIES-35 were not determined by the JGI, but were downloaded from NCBI, on November 14, 2019. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds and 5) unsupported short models. This resulted in the removal of 295 models and the generation of the FilteredModels1 (GeneCatalog) gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated. In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to this genome.

The following text is from NCBI Bioproject PRJDB5653:

Raphidocelis subcapitata strain:NIES-35

Raphidocelis subcapitata (Pseudokirchneriella subcapitata) NIES-35 is a green alga, which was formerly known as 'Selenastrum capricornutum NIVA-CHL1'. This strain is identical to the strain ATCC22662, which is broadly used for bioassays in toxicological risk assessment worldwide. The Organization for Economic Cooperation and Development (OECD) protocol recommends the use of this green alga as TG 201. Raphidocelis subcapitata is suitable for these bioassays because of its high reproduction efficiency, sensitivity to various substances, and good reproducibility. To determine the genetic background of R. subcapitata, the nuclear, mitochondrial, and plastid genomes were sequenced. These genomes will be useful for evaluating genome evolution of green algae, predicting toxicity, and revealing toxicological background in risk assessments.

Genome Reference(s)