Extensive intra-phylotype diversity in lactobacilli and bifidobacteria from the honeybee gut.
Extensive intra-phylotype diversity in lactobacilli and bifidobacteria from the honeybee gut.
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DOI：
10.1186/s12864-015-1476-6
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发表时间：
2015-04-11
期刊：
影响因子：
4.4
通讯作者：
Vásquez A
中科院分区：
文献类型：
--
作者：
Ellegaard KM;Tamarit D;Javelind E;Olofsson TC;Andersson SG;Vásquez A
在意大利蜜蜂中，细菌肠道群落始终由八种不同的细菌类型定殖。管理的蜂群具有相当大的经济利益，因此阐明蜜蜂中这种微生物群的多样性和作用非常重要。在这项研究中，我们对从蜜蜂A.意利费拉。单基因测序证实，分离的菌株代表了肠道中乳酸杆菌和双歧杆菌的多样性，如先前通过16 S rRNA基因测序所鉴定的。乳酸杆菌和双歧杆菌的核心基因组同源性进一步表明被分类为相同双歧杆菌类型的菌株之间的广泛分歧。系统发育特异性蛋白家族包括独特的表面蛋白。在不同类型中，基因内容多样性水平非常高。碳水化合物代谢和运输功能贡献了高达45%的辅助基因，一些基因组具有比任何先前测序的基因组更高含量的编码用于摄取碳水化合物的磷酸转移酶系统的基因。这些基因通常位于高度可变的基因组片段中，这些基因组片段还包含参与糖残基降解和修饰的酶的基因。菌株特异性的胞外多糖的生物合成的基因簇被确定在两个菌株类型。这些片段的动态与核心基因的低重组频率和保守的基因顺序结构形成对比。CRISPR间隔区的命中几乎完全在CRISPR类型中发现，这表明CRISPR类型与不同的噬菌体群体相关。蜜蜂肠道微生物群已被描述为由适度数量的乳酸杆菌类型组成;然而，在当前研究中测序的基因组证明了在所有三种描述的乳酸杆菌和双歧杆菌类型中基因内容多样性的非常高的水平，特别是在代谢功能和表面结构方面，其中许多特征是菌株特异性的。总之，这些结果表明蜜蜂肠道微生物群比以前认为的更复杂。本文的在线版本（doi：10.1186/s12864-015-1476-6）包含补充材料，可供授权用户使用。
In the honeybee Apis mellifera, the bacterial gut community is consistently colonized by eight distinct phylotypes of bacteria. Managed bee colonies are of considerable economic interest and it is therefore important to elucidate the diversity and role of this microbiota in the honeybee. In this study, we have sequenced the genomes of eleven strains of lactobacilli and bifidobacteria isolated from the honey crop of the honeybee A. mellifera. Single gene phylogenies confirmed that the isolated strains represent the diversity of lactobacilli and bifidobacteria in the gut, as previously identified by 16S rRNA gene sequencing. Core genome phylogenies of the lactobacilli and bifidobacteria further indicated extensive divergence between strains classified as the same phylotype. Phylotype-specific protein families included unique surface proteins. Within phylotypes, we found a remarkably high level of gene content diversity. Carbohydrate metabolism and transport functions contributed up to 45% of the accessory genes, with some genomes having a higher content of genes encoding phosphotransferase systems for the uptake of carbohydrates than any previously sequenced genome. These genes were often located in highly variable genomic segments that also contained genes for enzymes involved in the degradation and modification of sugar residues. Strain-specific gene clusters for the biosynthesis of exopolysaccharides were identified in two phylotypes. The dynamics of these segments contrasted with low recombination frequencies and conserved gene order structures for the core genes. Hits for CRISPR spacers were almost exclusively found within phylotypes, suggesting that the phylotypes are associated with distinct phage populations. The honeybee gut microbiota has been described as consisting of a modest number of phylotypes; however, the genomes sequenced in the current study demonstrated a very high level of gene content diversity within all three described phylotypes of lactobacilli and bifidobacteria, particularly in terms of metabolic functions and surface structures, where many features were strain-specific. Together, these results indicate niche differentiation within phylotypes, suggesting that the honeybee gut microbiota is more complex than previously thought. The online version of this article (doi:10.1186/s12864-015-1476-6) contains supplementary material, which is available to authorized users.
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影响因子：
3.7
作者：
Bottacini F;Milani C;Turroni F;Sánchez B;Foroni E;Duranti S;Serafini F;Viappiani A;Strati F;Ferrarini A;Delledonne M;Henrissat B;Coutinho P;Fitzgerald GF;Margolles A;van Sinderen D;Ventura M
通讯作者：
Ventura M
影响因子：
4.4
作者：
Diancourt, Laure;Passet, Virginie;Brisse, Sylvain
通讯作者：
Brisse, Sylvain
影响因子：
3.3
作者：
Didelot, Xavier;Falush, Daniel
通讯作者：
Falush, Daniel
影响因子：
3.6
作者：
Antikainen, J;Anton, L;Korhonen, TK
通讯作者：
Korhonen, TK
影响因子：
4.2
作者：
Babendreier, Dirk;Joller, David;Widmer, Franco
通讯作者：
Widmer, Franco