Metagenome-Assembled Genome Sequence of Bacterium Strain Clear-D13, Assembled from a Harmful Algal Bloom Enrichment Culture.
作者信息
Al-Saud Shaikha, Florea Kyra M, Webb Eric A, Thrash J Cameron
机构信息
Department of Biological Sciences, University of Southern California, Los Angeles, California, USA.
Department of Biological Sciences, University of Southern California, Los Angeles, California, USA
出版信息
Microbiol Resour Announc. 2020 Dec 3;9(49):e01118-20. doi: 10.1128/MRA.01118-20.
Abstract
Metagenomic sequencing of a enrichment culture resulted in the assembly of several cocultured metagenome-assembled genomes (MAGs). One MAG was affiliated with the class and included 5,724,991 bp in 127 contigs with a GC content of 48.4%.
摘要
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Bioinformatics. 2020 Aug 1;36(15):4341-4344. doi: 10.1093/bioinformatics/btaa512.
2
KBase: The United States Department of Energy Systems Biology Knowledgebase.KBase：美国能源部系统生物学知识库。
Nat Biotechnol. 2018 Jul 6;36(7):566-569. doi: 10.1038/nbt.4163.
3
metaSPAdes: a new versatile metagenomic assembler.metaSPAdes：一种新型通用宏基因组序列拼接软件
Genome Res. 2017 May;27(5):824-834. doi: 10.1101/gr.213959.116. Epub 2017 Mar 15.
4
An overview of diversity, occurrence, genetics and toxin production of bloom-forming Dolichospermum (Anabaena) species.形成水华的 Dolichospermum（鱼腥藻）物种的多样性、发生、遗传学和毒素产生概述。
Harmful Algae. 2016 Apr;54:54-68. doi: 10.1016/j.hal.2015.10.015.
5
NCBI prokaryotic genome annotation pipeline.美国国立生物技术信息中心原核生物基因组注释管道
Nucleic Acids Res. 2016 Aug 19;44(14):6614-24. doi: 10.1093/nar/gkw569. Epub 2016 Jun 24.
6
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets.MaxBin 2.0：一种从多个宏基因组数据集中恢复基因组的自动分箱算法。
Bioinformatics. 2016 Feb 15;32(4):605-7. doi: 10.1093/bioinformatics/btv638. Epub 2015 Oct 29.
7
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes.CheckM：评估从分离株、单细胞和宏基因组中获得的微生物基因组质量。
Genome Res. 2015 Jul;25(7):1043-55. doi: 10.1101/gr.186072.114. Epub 2015 May 14.
8
Trimmomatic: a flexible trimmer for Illumina sequence data.Trimmomatic：一款适用于 Illumina 测序数据的灵活修剪工具。
Bioinformatics. 2014 Aug 1;30(15):2114-20. doi: 10.1093/bioinformatics/btu170. Epub 2014 Apr 1.
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