Horizontally Transferred Genetic Elements in the Tsetse Fly Genome: An Alignment-Free Clustering Approach Using Batch Learning Self-Organising Map (BLSOM).
Horizontally Transferred Genetic Elements in the Tsetse Fly Genome: An Alignment-Free Clustering Approach Using Batch Learning Self-Organising Map (BLSOM).
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DOI：
10.1155/2016/3164624
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发表时间：
2016
影响因子：
--
通讯作者：
Sugimoto C
中科院分区：
文献类型：
--
作者：
Nakao R;Abe T;Funayama S;Sugimoto C
采采蝇（舌蝇属）是锥虫的主要载体，可在撒哈拉以南非洲国家引起人类和动物的非洲锥虫病。本研究的目的是探讨的基因组Glossina morsitans morsitans的证据，水平基因转移（HGT）的微生物。我们采用了一种无干扰的聚类方法，即批学习自组织映射（BLSOM），其中序列片段的聚类的基础上的寡核苷酸频率的相似性独立的序列同源性。在使用BLSOM对HGT事件进行初始扫描后，我们将3.8%的采采蝇基因组鉴定为HGT候选者。这些HGT候选者的预测供体包括已知的共生体，如沃尔巴克氏体，以及以前没有与采采蝇相关的细菌。我们检测到HGT候选人从不同的细菌，如芽孢杆菌和黄杆菌，这表明这些类群之间的过去的关联。功能注释显示，HGT候选人编码的基因座在各种功能途径，如代谢和抗生素生物合成途径。这些发现为了解采采蝇及其微生物的共同进化历史提供了基础，并建立了BLSOM检测HGT事件的有效性。
Tsetse flies (Glossina spp.) are the primary vectors of trypanosomes, which can cause human and animal African trypanosomiasis in Sub-Saharan African countries. The objective of this study was to explore the genome of Glossina morsitans morsitans for evidence of horizontal gene transfer (HGT) from microorganisms. We employed an alignment-free clustering method, that is, batch learning self-organising map (BLSOM), in which sequence fragments are clustered based on the similarity of oligonucleotide frequencies independently of sequence homology. After an initial scan of HGT events using BLSOM, we identified 3.8% of the tsetse fly genome as HGT candidates. The predicted donors of these HGT candidates included known symbionts, such as Wolbachia, as well as bacteria that have not previously been associated with the tsetse fly. We detected HGT candidates from diverse bacteria such as Bacillus and Flavobacteria, suggesting a past association between these taxa. Functional annotation revealed that the HGT candidates encoded loci in various functional pathways, such as metabolic and antibiotic biosynthesis pathways. These findings provide a basis for understanding the coevolutionary history of the tsetse fly and its microbes and establish the effectiveness of BLSOM for the detection of HGT events.
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影响因子：
56.9
作者：
Hotopp, Julie C. Dunning;Clark, Michael E.;Werren, John H.
通讯作者：
Werren, John H.
影响因子：
4.4
作者：
Aksoy, Emre;Telleria, Erich L.;Caccone, Adalgisa
通讯作者：
Caccone, Adalgisa
影响因子：
30.8
作者：
Akman, L;Yamashita, A;Aksoy, S
通讯作者：
Aksoy, S
影响因子：
3.5
作者：
Kanaya, S;Yamada, Y;Ikemura, T
通讯作者：
Ikemura, T
影响因子：
3.4
作者：
KAAYA, GP;DARJI, N
通讯作者：
DARJI, N