TY - JOUR
T1 - A draft genome of the brown alga, Cladosiphon okamuranus, S-strain
T2 - a platform for future studies of ‘mozuku’ biology
AU - Nishitsuji, Koki
AU - Arimoto, Asuka
AU - Iwai, Kenji
AU - Sudo, Yusuke
AU - Hisata, Kanako
AU - Fujie, Manabu
AU - Arakaki, Nana
AU - Kushiro, Tetsuo
AU - Konishi, Teruko
AU - Shinzato, Chuya
AU - Satoh, Noriyuki
AU - Shoguchi, Eiichi
N1 - Funding Information:
This study was supported by OIST internal funding for the Marine Genomics Unit.
Funding Information:
We wish to thank all members of Marine Genomics Unit and the DNA Sequencing Section of OIST for their support of this work. We also thank Dr. Steven Aird for editing the manuscript. This study was supported by OIST internal funding for the Marine Genomics Unit.
Publisher Copyright:
© The Author 2016.
PY - 2016/12
Y1 - 2016/12
N2 - The brown alga, Cladosiphon okamuranus (Okinawa mozuku), is economically one of the most important edible seaweeds, and is cultivated for market primarily in Okinawa, Japan. C. okamuranus constitutes a significant source of fucoidan, which has various physiological and biological activities. To facilitate studies of seaweed biology, we decoded the draft genome of C. okamuranus S-strain. The genome size of C. okamuranus was estimated as 140 Mbp, smaller than genomes of two other brown algae, Ectocarpus siliculosus and Saccharina japonica. Sequencing with 100 coverage yielded an assembly of 541 scaffolds with N50 ¼ 416 kbp. Together with transcriptomic data, we estimated that the C. okamuranus genome contains 13,640 protein-coding genes, approximately 94% of which have been confirmed with corresponding mRNAs. Comparisons with the E. siliculosus genome identified a set of C. okamuranus genes that encode enzymes involved in biosynthetic pathways for sulfated fucans and alginate biosynthesis. In addition, we identified C. okamuranus genes for enzymes involved in phlorotannin biosynthesis. The present decoding of the Cladosiphon okamuranus genome provides a platform for future studies of mozuku biology.
AB - The brown alga, Cladosiphon okamuranus (Okinawa mozuku), is economically one of the most important edible seaweeds, and is cultivated for market primarily in Okinawa, Japan. C. okamuranus constitutes a significant source of fucoidan, which has various physiological and biological activities. To facilitate studies of seaweed biology, we decoded the draft genome of C. okamuranus S-strain. The genome size of C. okamuranus was estimated as 140 Mbp, smaller than genomes of two other brown algae, Ectocarpus siliculosus and Saccharina japonica. Sequencing with 100 coverage yielded an assembly of 541 scaffolds with N50 ¼ 416 kbp. Together with transcriptomic data, we estimated that the C. okamuranus genome contains 13,640 protein-coding genes, approximately 94% of which have been confirmed with corresponding mRNAs. Comparisons with the E. siliculosus genome identified a set of C. okamuranus genes that encode enzymes involved in biosynthetic pathways for sulfated fucans and alginate biosynthesis. In addition, we identified C. okamuranus genes for enzymes involved in phlorotannin biosynthesis. The present decoding of the Cladosiphon okamuranus genome provides a platform for future studies of mozuku biology.
KW - Brown alga
KW - Cladosiphon okamuranus
KW - Genes for enzymes of polysaccharide synthesis
KW - Genome decoding
UR - http://www.scopus.com/inward/record.url?scp=85015603178&partnerID=8YFLogxK
U2 - 10.1093/dnares/dsw039
DO - 10.1093/dnares/dsw039
M3 - Article
C2 - 27501718
AN - SCOPUS:85015603178
VL - 23
SP - 561
EP - 570
JO - DNA Research
JF - DNA Research
SN - 1340-2838
IS - 6
ER -