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草莓炭疽病菌的基因组序列草图

Draft Genome Sequence of the Strawberry Anthracnose Pathogen .

作者信息

Armitage Andrew D, Nellist Charlotte F, Bates Helen J, Zhang Liqing, Zou Xiaohua, Gao Qing-Hua, Harrison Richard J

机构信息

Department of Genetics, Genomics and Breeding, NIAB EMR, Kent, United Kingdom

Natural Resources Institute, University of Greenwich, Chatham, Kent, United Kingdom.

出版信息

Microbiol Resour Announc. 2020 Mar 19;9(12):e01598-19. doi: 10.1128/MRA.01598-19.

DOI:10.1128/MRA.01598-19
PMID:32193247
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7082466/
Abstract

is a causal agent of strawberry anthracnose and a major economic pathogen of horticultural and ornamental crops worldwide. Here, we present an annotated draft genome sequence for a isolate previously used for transcriptomic analysis. The assembly totals 58.0 Mb in 477 contigs with 18,143 predicted genes.

摘要

是草莓炭疽病的致病因子，也是全球园艺和观赏作物的主要经济病原菌。在此，我们展示了一个先前用于转录组分析的分离株的注释基因组草图序列。该组装体总计58.0 Mb，包含477个重叠群，有18,143个预测基因。

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本文引用的文献

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dbCAN-seq: a database of carbohydrate-active enzyme (CAZyme) sequence and annotation.dbCAN-seq：碳水化合物活性酶（CAZyme）序列和注释数据库。
Nucleic Acids Res. 2018 Jan 4;46(D1):D516-D521. doi: 10.1093/nar/gkx894.
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Front Plant Sci. 2018 Apr 25;9:434. doi: 10.3389/fpls.2018.00434. eCollection 2018.
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BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS.BRAKER1：基于RNA测序的无监督基因组注释，结合GeneMark-ET和AUGUSTUS
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BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.BUSCO：利用单拷贝同源基因评估基因组组装和注释的完整性。
Bioinformatics. 2015 Oct 1;31(19):3210-2. doi: 10.1093/bioinformatics/btv351. Epub 2015 Jun 9.
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CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts.CodingQuarry：利用RNA测序转录本对真菌基因组进行高精度隐马尔可夫模型基因预测。
BMC Genomics. 2015 Mar 11;16(1):170. doi: 10.1186/s12864-015-1344-4.
8
Taxonomic Re-evaluation of Colletotrichum gloeosporioides Isolated from Strawberry in Korea.韩国草莓上分离出的胶孢炭疽菌的分类学再评价。
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InterProScan 5: genome-scale protein function classification.InterProScan 5：基因组规模的蛋白质功能分类。
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New Phytol. 2013 Mar;197(4):1236-1249. doi: 10.1111/nph.12085. Epub 2012 Dec 17.