保护亚热带常绿阔叶林生物多样性的优势物种栲的基因组草案

IF 2.9 Q2 Biochemistry, Genetics and Molecular Biology
Pan Chen, Ju-Yu Lian, Bin Wu, Hong-Lin Cao, Zhi-Hong Li, Zheng-Feng Wang
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引用次数: 0

摘要

栲属是落叶松科第三大属,主要产于热带或亚热带地区。该属的物种主要是树冠优势树种,是常绿阔叶林的重要组成部分,在维护当地生物多样性方面发挥着至关重要的作用。分布于华南至越南的栲树是其中的代表树种。目前,它受到人类活动和气候变化的严重干扰。在此,我们展示了其组装的基因组,以促进其在基因组水平上的初步保护和育种。通过对叶片组织进行 Nanopore 和 MGI 全基因组测序和 RNA-seq 读取,组装并注释了 chinensis 的基因组。该序列长度为 888,699,661 bp,由 133 个等位基因组成,等位基因 N50 为 23,395,510 bp。利用通用单拷贝同源物基准(BUSCO)对该序列进行的完整性评估显示,得分率为 98.3%。重复元件包括 471,006,885 bp,占组装序列的 55.9%。共预测出 51,406 个基因,编码 54,310 种蛋白质。多个数据库被用来对蛋白质序列进行功能注释。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Draft genome of Castanopsis chinensis, a dominant species safeguarding biodiversity in subtropical broadleaved evergreen forests
Castanopsis is the third largest genus in the Fagaceae family and is essentially tropical or subtropical in origin. The species in this genus are mainly canopy-dominant trees, and the key components of evergreen broadleaved forests play a crucial role in the maintenance of local biodiversity. Castanopsis chinensis, distributed from South China to Vietnam, is a representative species. It currently suffers from a high disturbance of human activity and climate change. Here, we present its assembled genome to facilitate its preliminary conservation and breeding on the genome level. The C. chinensis genome was assembled and annotated by Nanopore and MGI whole-genome sequencing and RNA-seq reads using leaf tissues. The assembly was 888,699,661 bp in length, consisting of 133 contigs and a contig N50 of 23,395,510 bp. A completeness assessment of the assembly with Benchmarking Universal Single-Copy Orthologs (BUSCO) indicated a score of 98.3%. Repetitive elements comprised 471,006,885 bp, accounting for 55.9% of the assembled sequences. A total of 51,406 genes that coded for 54,310 proteins were predicted. Multiple databases were used to functionally annotate the protein sequences.
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来源期刊
BMC Genetics
BMC Genetics 生物-遗传学
CiteScore
4.30
自引率
0.00%
发文量
77
审稿时长
4-8 weeks
期刊介绍: BMC Genetics is an open access, peer-reviewed journal that considers articles on all aspects of inheritance and variation in individuals and among populations.
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