| 本文已被：浏览 998次 下载 447次 |
码上扫一扫！ |
| 蜜蜂球囊菌基因结构优化及新基因鉴定 |
|
郭睿1, 陈华枝1, 童新宇1, 熊翠玲1, 郑燕珍1, 付中民1, 解彦玲1, 王海朋1, 赵红霞2, 陈大福1
|
|
|
| (1.福建农林大学 蜂学学院, 福州 350002;2.广东省生物资源应用研究所, 广州 510260) |
|
| 摘要: |
| 为补充和完善蜜蜂球囊菌Ascosphaera apis基因组序列和功能注释信息，本研究利用RNA-seq技术对球囊菌菌丝和孢子进行深度测序，并基于高质量的转录组数据对已注释基因进行结构优化，对未注释基因进行预测、鉴定和分析。将测序得到的有效读段进行参考基因组比对和转录本重构；利用Cuffcompare软件将重构转录本与参考基因组进行比对。结果表明：共对101个已注释基因的5‘端或3’端进行了延长；共鉴定出373个新基因，随机挑选10个新基因进行RT-PCR验证，其中8个能扩增出符合预期的目的片段，表明预测出的多数新基因真实存在；共计147个球囊菌新基因可注释到Nr和eggNOG数据库中，85个新基因注释到29个GO条目，66个新基因注释到33条代谢通路。本研究结果补充了球囊菌的基因结构和功能注释信息，也为新基因的功能研究打下了初步基础。 |
| 关键词: 蜜蜂球囊菌 转录组 已注释基因 结构优化 新基因 |
| DOI：10.11841/j.issn.1007-4333.2019.01.09 |
| 投稿时间：2018-03-10 |
| 基金项目:国家自然科学基金项目（31702190）；现代农业产业技术体系建设专项资金（CARS-44-KXJ7）；福建省教育厅中青年教师教育科研项目（JAT170158）；福建农林大学科技创新专项基金项目（CXZX2017343）；福建省大学生创新创业训练计划项目（201610389053） |
|
| Structural optimization of annotated genes and identification of novel genes in Ascosphaera apis |
|
GUO Rui1, CHEN Huazhi1, TONG Xinyu1, XIONG Cuiling1, ZHENG Yangzhen1, FU Zhongmin1, XIE Yanling1, WANG Haipeng1, ZHAO Hongxia2, CHEN Dafu1
|
| (1.College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, China;2.Guangdong Institute of Applied Biological Resources, Guangzhou 510260, China) |
| Abstract: |
| In order to supplement and improve the sequence and annotation information of Ascosphaera apis, the genome of A. apis mycelia and spore were sequenced via RNA-seq technology, followed by structural optimization of annotated genes and prediction and analysis of novel genes on the basis of high-quality transcriptome data in this study. Mapping of clean reads to the reference genome and reconstruction of transcripts were conducted using the generated clean reads. Cuffcompare software was used to compare the reconstructed transcripts with the reference genome. The results demonstrated that:The 5' or 3' end of 101 annotated genes were prolonged; A total of 373 novel genes were predicted, among which 10 novel genes were randomly selected for inverse transcription PCR identification and expected fragments were amplified from 8 genes suggesting the real existence of majority of predicted novel genes; A total of 147 novel genes have functional annotation in Nr and eggNOG databases, and 85 and 66 novel genes can be annotated to 29 GO terms and 33 KEGG pathways, respectively. The results not only provide supplement for improving structural and functional annotation of A. apis genes but also offer a primary foundation for functional study on these novel genes. |
| Key words: Ascosphaera apis transcriptome annotated gene structure optimization novel gene |
