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| 基于中华蜜蜂幼虫肠道转录组数据对东方蜜蜂基因组的基因结构优化及新基因鉴定 |
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熊翠玲1, 王海朋1, 郑燕珍1, 付中民1, 徐国钧1, 童新宇1, 赵红霞2, 陈大福1, 郭睿1
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| (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) |
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| 摘要: |
| 利用前期获得的中华蜜蜂（Apis cerana cerana）幼虫肠道转录组数据对东方蜜蜂（Apis cerana）基因组的已注释基因进行结构优化、对未注释的新基因进行预测、分析和鉴定：利用Cufflink软件对reads进行转录本重构，通过与参考转录本序列进行比较，共对3 366个东方蜜蜂的基因结构进行了优化；利用Cuffcompare软件将重构转录本与参考基因组进行比对，共预测出527个东方蜜蜂的新基因，其中234个新基因在Nr数据库中存在注释信息；随机选取12个新基因进行PCR鉴定，有11个能够扩增出符合预期的目的片段，表明多数预测出的新基因真实存在；GO分类和KEGG代谢通路分析结果显示上述新基因可能在东方蜜蜂的生长发育、物质代谢、遗传信息传递等方面具有重要功能。本研究结果丰富和完善了东方蜜蜂基因组的基因结构与功能注释信息，也为新基因的功能研究打下基础。 |
| 关键词: 东方蜜蜂 基因组 RNA-seq 基因结构优化 新基因鉴定 |
| DOI：10.11841/j.issn.1007-4333.2019.03.11 |
| 投稿时间：2018-05-24 |
| 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项目（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（CXZX2017343）；福建省大学生创新创业训练计划项目（201610389053） |
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| Gene structure optimization and identification of novel genes in Apis cerana genome: Based on the transcriptome data obtained from larval gut |
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XIONG Cuiling1, WANG Haipeng1, ZHENG Yanzhen1, FU Zhongmin1, XU Guojun1, TONG Xinyu1, ZHAO Hongxia2, CHEN Dafu1, GUO Rui1
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| (1.College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou 350002, China;2.Guangdong Institute of Applied Biological Resources, Guangzhou 510260, China) |
| Abstract: |
| Based of the previously obtained transcriptome data of Apis cerana larval gut,the optimization of annotated gene structures,prediction,analysis as well as identification of unannotated genes were conducted in this study.By using Cufflink software,the transcripts were reconstructed based on reads,and 3 366 genes' structures were optimized via comparison with reference transcripts.By reconstructed transcripts comparisons with reference genome,527 novel genes of A.cerana were predicted,among which 234 were annotated to Nr and KEGG databases.A total of 12 novel genes were randomly selected for PCR identification,and their expected fragments were amplified suggesting the real existence of majority of predicted novel genes.The GO categorization and KEGG pathway analysis showed these novel genes were likely to play key roles in growth and development,substance metabolism and genetic information transmission.This study provided improved for gene structural and functional annotation information of A.cerana genome,and provided preliminary foundation for further functional investigation of the novel genes. |
| Key words: Apis cerana genome RNA-seq gene structure optimization novel gene identification |
