Genome sequencing of the NIES Cyanobacteria collection with a focus on the heterocyst-forming clade.
Genome sequencing of the NIES Cyanobacteria collection with a focus on the heterocyst-forming clade.
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DOI：
10.1093/dnares/dsab024
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发表时间：
2021-10-11
期刊：
影响因子：
--
通讯作者：
Kawachi M
中科院分区：
文献类型：
--
作者：
Hirose Y;Ohtsubo Y;Misawa N;Yonekawa C;Nagao N;Shimura Y;Fujisawa T;Kanesaki Y;Katoh H;Katayama M;Yamaguchi H;Yoshikawa H;Ikeuchi M;Eki T;Nakamura Y;Kawachi M
蓝藻是一组不同的革兰氏阴性原核生物进行含氧光合作用。蓝藻已被用于光合作用的研究，并作为生物材料/生物燃料生产的平台而受到关注。蓝藻也存在于地球上几乎所有的栖息地，并对全球生态系统产生广泛的影响。鉴于其生物学，经济和生态的重要性，蓝藻菌株的高质量基因组序列的数量是有限的。在这里，我们对日本国立环境研究所微生物培养收集的蓝藻菌株进行了基因组测序。我们对28株可以形成异囊的菌株和3株非异囊菌株进行了测序，异囊是一种形态上独特的细胞，专门用于固定氮。使用Illumina测序的配对端和配对库与硅整理，我们构建了高度连续的组装。我们确定了已测序的基因组组合的系统发育关系，并根据形态学观察发现了某些异囊分支分类的潜在困难。我们还通过16S rRNA基因的系统发育分析揭示了对测序菌株的偏见，包括未测序菌株。基因组测序的蓝藻菌株沉积在世界各地的文化收藏将有助于了解巨大的遗传和表型多样性的门内蓝藻。
Cyanobacteria are a diverse group of Gram-negative prokaryotes that perform oxygenic photosynthesis. Cyanobacteria have been used for research on photosynthesis and have attracted attention as a platform for biomaterial/biofuel production. Cyanobacteria are also present in almost all habitats on Earth and have extensive impacts on global ecosystems. Given their biological, economical, and ecological importance, the number of high-quality genome sequences for Cyanobacteria strains is limited. Here, we performed genome sequencing of Cyanobacteria strains in the National Institute for Environmental Studies microbial culture collection in Japan. We sequenced 28 strains that can form a heterocyst, a morphologically distinct cell that is specialized for fixing nitrogen, and 3 non-heterocystous strains. Using Illumina sequencing of paired-end and mate-pair libraries with in silico finishing, we constructed highly contiguous assemblies. We determined the phylogenetic relationship of the sequenced genome assemblies and found potential difficulties in the classification of certain heterocystous clades based on morphological observation. We also revealed a bias on the sequenced strains by the phylogenetic analysis of the 16S rRNA gene including unsequenced strains. Genome sequencing of Cyanobacteria strains deposited in worldwide culture collections will contribute to understanding the enormous genetic and phenotypic diversity within the phylum Cyanobacteria.
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DOI：
10.1128/genomea.00090-16
发表时间：
2016-03-17
期刊：
Genome announcements
影响因子：
--
作者：
Hirose Y;Fujisawa T;Ohtsubo Y;Katayama M;Misawa N;Wakazuki S;Shimura Y;Nakamura Y;Kawachi M;Yoshikawa H;Eki T;Kanesaki Y
通讯作者：
Kanesaki Y
影响因子：
3.7
作者：
Alcorta J;Alarcón-Schumacher T;Salgado O;Díez B
通讯作者：
Díez B
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS
影响因子：
4.5
作者：
Hirose, Yuu;Shiozaki, Takuhei;Harada, Naomi
通讯作者：
Harada, Naomi
DOI：
10.1093/dnares/2.4.153
发表时间：
1995-08-31
期刊：
DNA research : an international journal for rapid publication of reports on genes and genomes
影响因子：
--
作者：
Kaneko, T;Tanaka, A;Tabata, S
通讯作者：
Tabata, S