蜜蜂肠道微生物群17种细菌菌株的新参考基因组序列
New Reference Genome Sequences for 17 Bacterial Strains of the Honey Bee Gut Microbiota.
作者信息
Ellegaard Kirsten M, Engel Philipp
机构信息
Department of Fundamental Microbiology, University of Lausanne, Lausanne, Switzerland.
出版信息
Microbiol Resour Announc. 2018 Jul 26;7(3). doi: 10.1128/MRA.00834-18. eCollection 2018 Jul.
Abstract
We sequenced the genomes of 17 strains isolated from the gut of honey bees, including strains representing the genera Lactobacillus, Bifidobacterium, Gilliamella, Snodgrassella, Frischella, and Commensalibacter. These genome sequences represent an important step forward in the development of a comprehensive reference database to aid future analysis of this emerging gut microbiota model.
摘要
我们对从蜜蜂肠道分离出的17个菌株的基因组进行了测序，其中包括代表乳酸杆菌属、双歧杆菌属、吉利亚菌属、斯诺德格拉斯菌属、弗里氏菌属和共生杆菌属的菌株。这些基因组序列代表了构建一个全面参考数据库过程中的重要进展，有助于未来对这个新兴肠道微生物群模型进行分析。
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本文引用的文献
1
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PLoS Biol. 2017 Dec 12;15(12):e2003467. doi: 10.1371/journal.pbio.2003467. eCollection 2017 Dec.
2
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Front Microbiol. 2016 Sep 21;7:1475. doi: 10.3389/fmicb.2016.01475. eCollection 2016.
3
Gut microbial communities of social bees.群居蜜蜂的肠道微生物群落
Nat Rev Microbiol. 2016 Jun;14(6):374-84. doi: 10.1038/nrmicro.2016.43. Epub 2016 May 3.
4
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy.OrthoFinder：解决全基因组比较中的基本偏差可显著提高直系同源组推断准确性。
Genome Biol. 2015 Aug 6;16(1):157. doi: 10.1186/s13059-015-0721-2.
5
Extensive intra-phylotype diversity in lactobacilli and bifidobacteria from the honeybee gut.蜜蜂肠道中乳酸菌和双歧杆菌的种内多样性广泛。
BMC Genomics. 2015 Apr 11;16(1):284. doi: 10.1186/s12864-015-1476-6.
6
Hidden diversity in honey bee gut symbionts detected by single-cell genomics.通过单细胞基因组学检测到的蜜蜂肠道共生体中的隐藏多样性。
PLoS Genet. 2014 Sep 11;10(9):e1004596. doi: 10.1371/journal.pgen.1004596. eCollection 2014 Sep.
7
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Int J Syst Evol Microbiol. 2014 Sep;64(Pt 9):3109-3119. doi: 10.1099/ijs.0.059600-0. Epub 2014 Jun 18.
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.
9
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