Genome and Transcriptome Sequencing of the Astaxanthin-Producing Green Microalga, Haematococcus pluvialis
Genome and Transcriptome Sequencing of the Astaxanthin-Producing Green Microalga, Haematococcus pluvialis
复制标题
产生虾青素的绿色微藻雨生红球藻的基因组和转录组测序
DOI：
10.1093/gbe/evy263
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发表时间：
2019-01-01
影响因子：
3.3
通讯作者：
Hu, Zhangli
中科院分区：
文献类型：
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作者：
Luo, Qiulan;Bian, Chao;Hu, Zhangli
雨生红球藻是红球藻科绿藻门的一种淡水植物。众所周知，它能够合成大量的虾青素，这是一种强抗氧化剂，已被用于水产养殖和化妆品。为提高虾青素产量，建立红球藻遗传资源。pluvialis，我们进行了全基因组测序，组装，并注释这个绿色微生物。对总共83.1 Gb的原始读段进行测序。在过滤原始读段后，我们随后生成了基因组大小为669.0 Mb，支架N50为288.6 kb的草图组装，并预测了18，545个基因。我们还建立了一个强大的系统发育树，从14个代表性的藻类。通过额外的转录组数据，我们揭示了一些新的潜在基因，这些基因参与了虾青素的合成、积累和调节。此外，我们以高置信度生成了18，483个转录物的亚型水平参考转录组集。选择性剪接分析表明，内含子保留是最常见的模式。综上所述，我们报道了H.雨生植物。这些基因组资源沿着转录组学数据为发现理论和商业虾青素富集的遗传基础提供了坚实的基础。
Abstract Haematococcus pluvialis is a freshwater species of Chlorophyta, family Haematococcaceae. It is well known for its capacity to synthesize high amounts of astaxanthin, which is a strong antioxidant that has been utilized in aquaculture and cosmetics. To improve astaxanthin yield and to establish genetic resources for H. pluvialis, we performed whole-genome sequencing, assembly, and annotation of this green microalga. A total of 83.1 Gb of raw reads were sequenced. After filtering the raw reads, we subsequently generated a draft assembly with a genome size of 669.0 Mb, a scaffold N50 of 288.6 kb, and predicted 18,545 genes. We also established a robust phylogenetic tree from 14 representative algae species. With additional transcriptome data, we revealed some novel potential genes that are involved in the synthesis, accumulation, and regulation of astaxanthin production. In addition, we generated an isoform-level reference transcriptome set of 18,483 transcripts with high confidence. Alternative splicing analysis demonstrated that intron retention is the most frequent mode. In summary, we report the first draft genome of H. pluvialis. These genomic resources along with transcriptomic data provide a solid foundation for the discovery of the genetic basis for theoretical and commercial astaxanthin enrichment.