特定物种的肠特定成分的转录谱和Ceratitis quilicii和Ceratitis rosa sensu stricto的肠道微生物组。,Scientific Reports

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特定物种的肠特定成分的转录谱和Ceratitis quilicii和Ceratitis rosa sensu stricto的肠道微生物组。
Scientific Reports ( IF 3.8 ) Pub Date : 2019-12-04 , DOI: 10.1038/s41598-019-54989-z
Fathiya M Khamis ₁ , Paul O Mireji _{2,

3} , Fidelis L O Ombura ₁ , Anna R Malacrida ₄ , Erick O Awuoche _{2,

5} , Martin Rono ₃ , Samira A Mohamed ₁ , Chrysantus M Tanga ₁ , Sunday Ekesi ₁

Affiliation

果蝇物种罗汉果（Ceratitis rosa sensu stricto）和藜麦（Ceratitis quilicii）是仅限于低地和高地地区的兄弟种。直到最近，这些兄弟姐妹物种仍被认为是具有独特生物学特性的罗莎隐孢子虫的异种种群。我们对两个同胞物种的个体完整肠道使用了深层的下一代测序（NGS）技术，以比较它们的转录谱，同时了解肠道微生物组和宿主分子过程，并识别两个物种之间的明显遗传差异。由于这两个物种的基因组以前都没有发表过，因此转录组从头组装成转录本。通过使用OrthoMCL针对微生物数据库过滤转录本的搜索，从装配体中分离出特定于微生物的转录本直系同源物。然后，我们对两个兄弟姐妹物种的宿主特异性转录本（即去除了微生物特异性转录本后剩下的那些）和微生物特异性转录本进行了差异表达分析，以鉴定仅存在于一种果实中的定义物种特异性转录本。蝇类或其他种类，但不能同时存在。在C. quilicii雌性中，与C. rosa ss雌性相比，Pectobacterium spp。，丁酸肠杆菌，阴沟肠杆菌和Klebsiella variicola的细菌转录本上调。宿主转录物表达水平的比较表明，C。quilicii（与罗莎罗莎（C. rosa ss）相比）投资更大：能源生产；细胞增殖；抗杀虫剂繁殖和扩散；和氧化还原反应，通常与对水果代谢物的压力和降解的反应有关。

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Species-specific transcriptional profiles of the gut and gut microbiome of Ceratitis quilicii and Ceratitis rosa sensu stricto.

The fruit fly species, Ceratitis rosa sensu stricto and Ceratitis quilicii, are sibling species restricted to the lowland and highland regions, respectively. Until recently, these sibling species were considered as allopatric populations of C. rosa with distinct bionomics. We used deep Next Generation Sequencing (NGS) technology on intact guts of individuals from the two sibling species to compare their transcriptional profiles and simultaneously understand gut microbiome and host molecular processes and identify distinguishing genetic differences between the two species. Since the genomes of both species had not been published previously, the transcriptomes were assembled de novo into transcripts. Microbe-specific transcript orthologs were separated from the assembly by filtering searches of the transcripts against microbe databases using OrthoMCL. We then used differential expression analysis of host-specific transcripts (i.e. those remaining after the microbe-specific transcripts had been removed) and microbe-specific transcripts from the two-sibling species to identify defining species-specific transcripts that were present in only one fruit fly species or the other, but not in both. In C. quilicii females, bacterial transcripts of Pectobacterium spp., Enterobacterium buttiauxella, Enterobacter cloacae and Klebsiella variicola were upregulated compared to the C. rosa s.s. females. Comparison of expression levels of the host transcripts revealed a heavier investment by C. quilicii (compared with C. rosa s.s.) in: immunity; energy production; cell proliferation; insecticide resistance; reproduction and proliferation; and redox reactions that are usually associated with responses to stress and degradation of fruit metabolites.

更新日期：2019-12-04

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