Acta Oceanol. Sin., 2014, Vol. 33, No. 2, P. 13–19 DOI: 10.1007/s13131-014-0436-3 http://www.hyxb.org.cn E-mail:
[email protected] Transcriptome-wide evolutionary analysis on essential brown algae (Phaeophyceae) in China SUN Jing1,3,4†, WANG Liang1,3,4†, WU Shuangxiu1,3†, WANG Xumin1,3, XIAO Jingfa1,3, CHI Shan2, LIU Cui2, REN Lufeng1,3, ZHAO Yuhui1,4, LIU Tao2*, YU Jun1,3* 1 CAS Key Laboratory of Genome Sciences and Information, Beijing Key Laboratory of Genome and Precision Medicine Technologies, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China 2 College of Marine Life Science, Ocean University of China, Qingdao 266003, China 3 Beijing Key Laboratory of Functional Genomics for Dao-di Herbs, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China 4 University of Chinese Academy of Sciences, Beijing 100049, China Received 1 April 2013; accepted 18 July 2013 ©The Chinese Society of Oceanography and Springer-Verlag Berlin Heidelberg 2014 Abstract Brown algae (Chromista, Ochrophyta, Phaeophyceae) are a large group of multicellular algae that play im- portant roles in the ocean's ecosystem and biodiversity. However, poor molecular bases for studying their phylogenetic evolutions and novel metabolic characteristics have hampered progress in the field. In this study, we sequenced the de novo transcriptome of 18 major species of brown algae in China, covering six orders and seven families, using the high-throughput sequencing platform Illumina HiSeq 2000. From the transcriptome data of these 18 species and publicly available genome data of Ectocarpus siliculosus and Phaeodactylum tricornutum, we identified 108 nuclear-generated orthologous genes and clarified the phy- logenetic relationships among these brown algae based on a multigene method.