Apr. 2025

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2014 Vol. 33, No. 2

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2014, Vol. 33, No. 2 Content
2014, 33(2): .
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2014, Vol. 33, No. 2 Cover
2014, 33(2): .
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Reviews
Transcriptome sequencing of essential marine brown and red algal species in China and its significance in algal biology and phylogeny
WU Shuangxiu, SUN Jing, CHI Shan, WANG Liang, WANG Xumin, LIU Cui, LI Xingang, YIN Jinlong, LIU Tao, YU Jun
2014, 33(2): 1-12. doi: 10.1007/s13131-014-0435-4
Abstract:
Most phaeophytes (brown algae) and rhodophytes (red algae) dwell exclusively in marine habitats and play important roles in marine ecology and biodiversity. Many of these brown and red algae are also important resources for industries such as food, m...
Articles
Transcriptome-wide evolutionary analysis on essential brown algae (Phaeophyceae) in China
SUN Jing, WANG Liang, WU Shuangxiu, WANG Xumin, XIAO Jingfa, CHI Shan, LIU Cui, REN Lufeng, ZHAO Yuhui, LIU Tao, YU Jun
2014, 33(2): 13-19. doi: 10.1007/s13131-014-0436-3
Abstract:
Brown algae (Chromista, Ochrophyta, Phaeophyceae) are a large group of multicellular algae that play important roles in the ocean's ecosystem and biodiversity. However, poor molecular bases for studying their phylogenetic evolutions and novel metabol...
Transcriptome characterization of Ishige okamurae (Phaeophyceae) shows strong environmental acclimation
QU Jieqiong, WANG Xumin, CHI Shan, WU Shuangxiu, SUN Jing, LIU Cui, CHEN Shengping, YU Jun, LIU Tao
2014, 33(2): 20-26. doi: 10.1007/s13131-014-0437-2
Abstract:
Ishige okamurae, with leathery branched narrow fronds consisting of cylindrical hairs, is the typical species of the genus Ishige, which is considered as one of the most basal genera in the phylogeny of the Phaeophyceae. Apart from great public inter...
Analysis of Saccharina japonica transcriptome using the high-throughput DNA sequencing technique and its vanadium-dependent haloperoxidase gene
LIANG Xiayuan, WANG Xumin, CHI Shan, WU Shuangxiu, SUN Jing, LIU Cui, CHEN Shengping, YU Jun, LIU Tao
2014, 33(2): 27-36. doi: 10.1007/s13131-014-0438-1
Abstract:
Saccharina is one of the most important cold-water living marine brown algal genera. In this study we analyzed the transcriptome of S. japonica, which belongs to the 1 000 Plants (OneKP) Project, by using a nextgeneration high-throughput DNA sequenci...
Comparative analysis on transcriptome sequencings of six Sargassum species in China
WANG Guoliang, SUN Jing, LIU Guiming, WANG Liang, YU Jun, LIU Tao, CHI Shan, LIU Cui, GUO Haiyan, WANG Xumin, WU Shuangxiu
2014, 33(2): 37-44. doi: 10.1007/s13131-014-0439-0
Abstract:
Species of Sargassum are distributed worldwide, and are of great ecological and economic importance in marine ecosystems and bioresources. In this study, transcriptome sequencings of six Sargassum species were performed for the first time using an Il...
De novo sequencing and comparative analysis of three red algal species of Family Solieriaceae to discover putative genes associated with carrageenan biosysthesis
SONG Lipu, WU Shuangxiu, SUN Jing, WANG Liang, LIU Tao, CHI Shan, LIU Cui, LI Xingang, YIN Jinlong, WANG Xumin, YU Jun
2014, 33(2): 45-53. doi: 10.1007/s13131-014-0440-7
Abstract:
Betaphycus gelatinus, Kappaphycus alvarezii and Eucheuma denticulatum of Family Solieriaceae, Order Gigartinales, Class Rhodophyceae are three important carrageenan-producing red algal species, which produce different types of carrageenans, beta (β)-...
Comparative analysis of four essential Gracilariaceae species in China based on whole transcriptomic sequencing
XU Jiayue, SUN Jing, YIN Jinlong, WANG Liang, WANG Xumin, LIU Tao, CHI Shan, LIU Cui, REN Lufeng, WU Shuangxiu, YU Jun
2014, 33(2): 54-62. doi: 10.1007/s13131-014-0441-6
Abstract:
Three Gracilaria species, G. chouae, G. blodgettii, G. vermiculophylla and a close relative species, Gracilariopsis lemaneiformis which is now nominated as Gracilaria lemaneiformis, are the typically indigenous species which are important resources f...
Tryptophan synthase of Phaeophyceae originated from the secondary host nucleus
ZHANG Yalan, CHI Shan, WU Shuangxiu, LIU Cui, YU Jun, WANG Xumin, CHEN Shengping, LIU Tao
2014, 33(2): 63-72. doi: 10.1007/s13131-014-0442-5
Abstract:
Tryptophan synthase (TS, EC 4.2.1.20) catalyzes the last two steps of L-tryptophan biosynthesis. In prokaryotes, tryptophan synthase is a multi-enzyme complex, and it consists of α and β subunit which forms an α-ββ-α complex. In fungi and diatoms, TS...
Origin and evolution of alginate-c5-mannuronan-epimerase gene based on transcriptomic analysis of brown algae
WANG Ren, WANG Xumin, ZHANG Yalan, YU Jun, LIU Tao, CHEN Shengping, CHI Shan
2014, 33(2): 73-85. doi: 10.1007/s13131-014-0443-4
Abstract:
The coding product of alginate-c5-mannuronan-epimerase gene (algG gene) can catalyze the conversion of mannuronate to guluronate and determine the M/G ratio of alginate. Most of the current knowledge about genes involved in the alginate biosynthesis ...
Phylogenomic analysis of transcriptomic sequences of mitochondria and chloroplasts for marine red algae (Rhodophyta) in China
JIA Shangang, WANG Xumin, QIAN Hao, LI Tianyong, SUN Jing, WANG Liang, YU Jun, LI Xingang, YIN Jinlong, LIU Tao, WU Shuangxiu
2014, 33(2): 86-93. doi: 10.1007/s13131-014-0444-3
Abstract:
The chloroplast and mitochondrion of red algae (Phylum Rhodophyta) may have originated from different endosymbiosis. In this study, we carried out phylogenomic analysis to distinguish their evolutionary lineages by using red algal RNA-seq datasets of...
Phylogenomic analysis of transcriptomic sequences of mitochondria and chloroplasts of essential brown algae (Phaeophyceae) in China
JIA Shangang, WANG Xumin, LI Tianyong, QIAN Hao, SUN Jing, WANG Liang, YU Jun, REN Lufeng, YIN Jinlong, LIU Tao, WU Shuangxiu
2014, 33(2): 94-101. doi: 10.1007/s13131-014-0445-2
Abstract:
The chloroplast and mitochondrion of brown algae (Class Phaeophyceae of Phylum Ochrophyta) may have originated from different endosymbiosis. In this study, we carried out phylogenomic analysis to distinguish their evolutionary lineages by using algal...
Endogenous viral elements in algal genomes
WANG Liang, WU Shuangxiu, LIU Tao, SUN Jing, CHI Shan, LIU Cui, LI Xingang, YIN Jinlong, WANG Xumin, YU Jun
2014, 33(2): 102-107. doi: 10.1007/s13131-014-0446-1
Abstract:
Endogenous viral elements (EVEs) are host-genomic fragments originated from viral genomes. They have been found universally in animal and plant genomes. Here we carried out a systematic screening and analysis of EVEs in algal genomes and found that E...
The discovery of archaea origin phosphomannomutase in algae based on the algal transcriptome
FENG Yanjing, CHI Shan, LIU Cui, CHEN Shengping, YU Jun, WANG Xumin, LIU Tao
2014, 33(2): 108-113. doi: 10.1007/s13131-014-0447-0
Abstract:
phosphomannomutase (PMM; EC 5.4.2.8) is an enzyme that catalyzes the interconversion reaction between mannose-6-phosphate and mannose-1-phosphate. However, its systematic molecular and functional investigations in algae have not hitherto been reporte...