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红树林沉积物来源真菌HXQ-H-1的染色体水平综合基因组

Chromosome-Level Comprehensive Genome of Mangrove Sediment-Derived Fungus HXQ-H-1.

作者信息

Peng Ling, Li Liangwei, Liu Xiaochuan, Chen Jianwei, Shi Chengcheng, Guo Wenjie, Xu Qiwu, Fan Guangyi, Liu Xin, Li Dehai

机构信息

BGI-Qingdao, BGI-Shenzhen, Qingdao 266555, China.

China National GeneBank, BGI-Shenzhen, Shenzhen 518120, China.

出版信息

J Fungi (Basel). 2019 Dec 23;6(1):7. doi: 10.3390/jof6010007.

DOI:10.3390/jof6010007
PMID:31878043
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7151134/
Abstract

is an ascomycetous genus widely distributed in the natural environment and is one of the dominant fungi involved in the decomposition of mangroves, which can produce a variety of antitumor compounds and bioactive substances. However, in mangrove ecosystems there is no complete genome in this genus. In this study, we isolated a fungus strain named HXQ-H-1 from coast mangrove (Fujian Province, China). We generated a chromosome-level genome with total size of 33.32 Mb, scaffold N50 of 5.23 Mb and contig N50 of 96.74 kb. Additionally, we anchored about 95.91% assembly sequences into the longest seven scaffolds, and predicted 10,622 protein-coding genes, in which 99.66% could be annotated by eight protein databases. The secondary metabolites analysis reveals the strain has various gene clusters involving polyketide synthase (PKS), non-ribosomal peptide synthetase (NRPS) and terpene synthase that may have a largely capacity of biotechnological potential. Comparison genome analysis between and reveals a small difference in the total number of genes, whereas HXQ-H-1 has a higher gene number with COG functional annotation. Evolutionary relationship of based on genome-wide data was carried out for the first time, showing the strain HXQ-H-1 is closely related to . This genomic resource may provide a new resource for development of novel bioactive antibiotics, drug candidates and precursors in .

摘要

是一种广泛分布于自然环境中的子囊菌属,是参与红树林分解的主要真菌之一,能够产生多种抗肿瘤化合物和生物活性物质。然而,在红树林生态系统中,该属没有完整的基因组。在本研究中,我们从中国福建省海岸红树林中分离出一株名为HXQ-H-1的真菌菌株。我们生成了一个染色体水平的基因组,总大小为33.32 Mb,支架N50为5.23 Mb,重叠群N50为96.74 kb。此外,我们将约95.91%的组装序列锚定到最长的7个支架上,并预测了10622个蛋白质编码基因,其中99.66%可由8个蛋白质数据库注释。次生代谢物分析表明,该菌株具有各种涉及聚酮合酶(PKS)、非核糖体肽合成酶(NRPS)和萜烯合酶的基因簇,可能具有很大的生物技术潜力。与[未提及的对象]的比较基因组分析显示基因总数存在细微差异,而HXQ-H-1在COG功能注释方面具有更多的基因。首次基于全基因组数据进行了[未提及的对象]的进化关系分析,结果表明菌株HXQ-H-1与[未提及的对象]密切相关。这一基因组资源可能为开发[未提及的对象]中的新型生物活性抗生素、候选药物和前体提供新的资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/0097c1a91518/jof-06-00007-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/0f77cf38de8f/jof-06-00007-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/71578c8adb4a/jof-06-00007-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/6fc1b2e8d236/jof-06-00007-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/0097c1a91518/jof-06-00007-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/0f77cf38de8f/jof-06-00007-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/71578c8adb4a/jof-06-00007-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/6fc1b2e8d236/jof-06-00007-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8720/7151134/0097c1a91518/jof-06-00007-g004.jpg

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