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A Reference Genome Sequence for Giant Sequoia.
G3: Genes, Genomes, Genetics ( IF 2.6 ) Pub Date : 2020-10-27 , DOI: 10.1534/g3.120.401612
Alison D Scott 1 , Aleksey V Zimin 2, 3, 4 , Daniela Puiu 2, 4 , Rachael Workman 4 , Monica Britton 5 , Sumaira Zaman 6 , Madison Caballero 7 , Andrew C Read 8 , Adam J Bogdanove 8 , Emily Burns 9 , Jill Wegrzyn 10 , Winston Timp 4 , Steven L Salzberg 2, 4, 11 , David B Neale 12
Affiliation  

The giant sequoia (Sequoiadendron giganteum) of California are massive, long-lived trees that grow along the U.S. Sierra Nevada mountains. Genomic data are limited in giant sequoia and producing a reference genome sequence has been an important goal to allow marker development for restoration and management. Using deep-coverage Illumina and Oxford Nanopore sequencing, combined with Dovetail chromosome conformation capture libraries, the genome was assembled into eleven chromosome-scale scaffolds containing 8.125 Gbp of sequence. Iso-Seq transcripts, assembled from three distinct tissues, was used as evidence to annotate a total of 41,632 protein-coding genes. The genome was found to contain, distributed unevenly across all 11 chromosomes and in 63 orthogroups, over 900 complete or partial predicted NLR genes, of which 375 are supported by annotation derived from protein evidence and gene modeling. This giant sequoia reference genome sequence represents the first genome sequenced in the Cupressaceae family, and lays a foundation for using genomic tools to aid in giant sequoia conservation and management.



中文翻译:

巨型红杉的参考基因组序列。

巨型红杉(Sequoiadendron giganteum)是加利福尼亚州内华达山脉上生长的大型长寿树。基因组数据仅限于巨型红杉,并且产生参考基因组序列已成为允许标记开发用于恢复和管理的重要目标。使用深度覆盖的Illumina和Oxford Nanopore测序,结合燕尾染色体构象捕获文库,将基因组组装成包含8.125 Gbp序列的11个染色体规模的支架。由三个不同组织组装而成的Iso-Seq转录本被用作注释总共41,632个蛋白质编码基因的证据。发现该基因组包含不均匀分布在所有11条染色体和63个正交群中的900多个完整或部分预测的NLR基因,其中375种支持来自蛋白质证据和基因建模的注释。该巨型红杉参考基因组序列代表了柏科家族中第一个测序的基因组,为使用基因组工具协助巨型红杉的保存和管理奠定了基础。

更新日期:2020-11-06
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