Cyanidioschyzon merolae (ASM9120v1)

Cyanidioschyzon merolae Assembly and Gene Annotation

About Cyanidioschyzon merolae

Cyanidioschyzon merolae is a unicellular red alga from the phylum Rhodophyta and is one of the most primitive red algae. Rhodophyta is an evolutionarily interesting group that falls in Archaeplastida along with green plants but has also given rise to highly diverse groups of protists, including the photosynthetic and non-photosynthetic Chromalveolata. C. merolae can live in acidic hot springs, with pH below 2 and at 45°C.


The nuclear genome is compact (16 Mb), comprising 20 chromosomes with 5,331 predicted genes. Interestingly, only 26 of the predicted genes have introns. The genome was assembled by the Cyanidioschyzon merolae Genome Project.


The genome annotation for Cyanidioschyzon merolae has been imported from Cyanidioschyzon merolae Genome project by mapping cDNA clones using BLAST and ab initio prediction of ORFs by searching known motifs and domains.

Additional analysis was carried out in house: non coding RNA genes have been annotated using tRNAScan-SE, Rfam, and RNAmmer.

Repeated sequences were called with the Repeat Detector, which is part of the Ensembl Genomes repeat feature pipelines. Repeats length: 4384488 - Repeats content: 26.2%


  1. Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D.
    Matsuzaki M, Misumi O, Shin-I T, Maruyama S, Takahara M, Miyagishima SY, Mori T, Nishida K, Yagisawa F, Nishida K et al. 2004. Nature. 428:653-657.
  2. Image credit: NEON (Own work) CC-BY-SA-3.0

More information

General information about this species can be found in Wikipedia.



AssemblyASM9120v1, INSDC Assembly GCA_000091205.1, Jul 2007
Database version112.1
Golden Path Length16,728,945
Genebuild byNIG
Genebuild methodImport
Data sourceNational Institute of Genetics, Japan

Gene counts

Coding genes4,984
Gene transcripts4,984