A Reference Genome Sequence for Giant Sequoia.
A Reference Genome Sequence for Giant Sequoia.
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巨杉的参考基因组序列。
DOI：
10.1534/g3.120.401612
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发表时间：
2020-11-05
期刊：
影响因子：
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通讯作者：
Neale DB
中科院分区：
文献类型：
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作者：
Scott AD;Zimin AV;Puiu D;Workman R;Britton M;Zaman S;Caballero M;Read AC;Bogdanove AJ;Burns E;Wegrzyn J;Timp W;Salzberg SL;Neale DB
加州的巨杉（Sequoiadendron cumberteum）是一种巨大的、长寿的树木，生长在沿着美国内华达州山脉的山脉上。基因组数据在巨杉中是有限的，并且产生参考基因组序列一直是允许用于恢复和管理的标记开发的重要目标。使用深度覆盖Illumina和Oxford Nanopore测序，结合Dovetail染色体构象捕获文库，将基因组组装成含有8.125 Gbp序列的11个染色体规模支架。从三种不同组织组装的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。发现基因组包含，不均匀地分布在所有11条染色体和63个正交群中，超过900个完整或部分预测的NLR基因，其中375个由来自蛋白质证据和基因建模的注释支持。这个巨杉参考基因组序列代表了柏科中第一个测序的基因组，并为使用基因组工具帮助巨杉保护和管理奠定了基础。
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.