Draft genome assembly of the biofuel grass crop Miscanthus sacchariflorus.
Draft genome assembly of the biofuel grass crop Miscanthus sacchariflorus.
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DOI：
10.12688/f1000research.44714.1
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发表时间：
2021
期刊：
影响因子：
--
通讯作者：
Farrar K
中科院分区：
文献类型：
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作者：
De Vega J;Donnison I;Dyer S;Farrar K
芒草（格言）黑客。是一种高产的C4多年生根茎生物燃料草料作物。sacchariflorus是该属中分布最广泛的种之一，特别是在寒冷的北纬地区，是商业M. x giganteus基因型的祖先种之一。我们获得了一个2.54 Gb的二倍体sacchariflorus cv的全基因组组装。“Robustus 297”基因型，占预期总基因组大小的59%。随后，我们利用中华m.s sinensis基因组中的染色体对该组装进行了锚定，以产生具有更好的邻接性的第二个组装。我们分别在非锚定和锚定组装中注释了86,767和69,049个蛋白质编码基因。根据同源性和核心标记，我们估计我们的组合包含了约85%的糖芽孢杆菌基因。来自相同基因型的RNA-seq reads的比对率为99%，证明了新的基因组研究参考的实用性。原始数据，非锚定和锚定组装，以及各自的基因注释是公开可用的。
Miscanthus sacchariflorus (Maxim.) Hack. is a highly productive C4 perennial rhizomatous biofuel grass crop. M. sacchariflorus is among the most widely distributed species in the genus, particularly at cold northern latitudes, and is one of the progenitor species of the commercial M. × giganteus genotypes. We generated a 2.54 Gb whole-genome assembly of the diploid M. sacchariflorus cv. “Robustus 297” genotype, which represented ~59% of the expected total genome size. We later anchored this assembly using the chromosomes from the M. sinensis genome to generate a second assembly with improved contiguity. We annotated 86,767 and 69,049 protein-coding genes in the unanchored and anchored assemblies, respectively. We estimated our assemblies included ~85% of the M. sacchariflorus genes based on homology and core markers. The utility of the new reference for genomic studies was evidenced by a 99% alignment rate of the RNA-seq reads from the same genotype. The raw data, unanchored and anchored assemblies, and respective gene annotations are publicly available.