De novo transcriptome of the mayfly Cloeon viridulum and transcriptional signatures of Prometabola.
De novo transcriptome of the mayfly Cloeon viridulum and transcriptional signatures of Prometabola.
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蜉蝣 Cloeon viridulum 的从头转录组和 Prometabola 的转录特征
DOI：
10.1371/journal.pone.0179083
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发表时间：
2017
期刊：
影响因子：
3.7
通讯作者：
Zhou CF
中科院分区：
文献类型：
--
作者：
Si Q;Luo JY;Hu Z;Zhang W;Zhou CF
蜉蝣（蜉蝣目）显示出许多原始的特征和一种独特的变态类型（原变态目）。然而，关于这一昆虫群体的基因组和转录组的信息是有限的。本文提出的RNA测序研究产生了Cloeon viridulum（蜉蝣目：Baetidae）的第一个从头转录组组装，并比较了该蜉蝣的幼虫（YL），成熟幼虫（ML），亚成虫（SI）和成虫（IM）阶段之间的基因表达特征。基于88 Gb序列数据的转录组包括一组81，185个高质量转录物。根据每百万个映射读段的转录物的每个酶的读段分析，假设错误发现率为2，YL与ML、ML与SI和SI与IM中的差异表达基因（DEG）的数量分别为4，825、1，584和1，278<0.05 and a fold change >。基因富集分析表明，这些DEG富集在“几丁质代谢过程”，“生殖细胞发育”，“类固醇激素的生物合成”，和“角质，次表皮和蜡的生物合成”途径。最后，通过定量真实的时间PCR分析，证实了一组选定的候选签名基因的表达模式，包括退化，耐甲氧普烯，无翅，和广泛的复杂。采用Q-PCR技术对该虫幼虫、亚成虫和成虫进行了分析。绿带表明蜉蝣的发育更接近半变态而不是全变态。
Mayflies (Ephemeroptera) display many primitive characters and a unique type of metamorphosis (Prometabola). However, information on the genomes and transcriptomes of this insect group is limited. The RNA sequencing study presented here generated the first de novo transcriptome assembly of Cloeon viridulum (Ephemeroptera: Baetidae), and compared gene expression signatures among the young larva (YL), mature larva (ML), subimago (SI), and imago (IM) stages of this mayfly. The transcriptome, based on 88 Gb of sequence data, comprised a set of 81,185 high quality transcripts. The number of differentially expressed genes (DEGs) in YL vs. ML, ML vs. SI, and SI vs. IM, was 4,825, 1,584, and 1,278, respectively, according to the reads per kilobase of transcript per million mapped reads analysis, assuming a false discovery rate <0.05 and a fold change >2. Gene enrichment analysis revealed that these DEGs were enriched in the “chitin metabolic process”, “germ cell development”, “steroid hormone biosynthesis”, and “cutin, suberine, and wax biosynthesis” pathways. Finally, the expression pattern of a selected group of candidate signature genes for Prometabola, including vestigial, methoprene-tolerant, wingless, and broad-complex were confirmed by quantitative real time-PCR analysis. The Q-PCR analysis of larval, subimaginal, and imaginal stages of C. viridulum suggests that the development of mayflies more closely resembles hemimetamorphosis than holometamorphosis.