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张祺祺,袁泉,马斌,沈慧.姬蕨多组织全长转录组测序与茉莉酸合成通路基因鉴定[J].广西科学,2025,32(5):953-963. [点击复制]
- ZHANG Qiqi,YUAN Quan,MA Bin,SHEN Hui.Full-Length Transcriptome Sequencing of Hypolepis punctata and Gene Mining of the Jasmonic Acid Biosynthesis Pathway[J].Guangxi Sciences,2025,32(5):953-963. [点击复制]
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| 姬蕨多组织全长转录组测序与茉莉酸合成通路基因鉴定 |
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张祺祺1,2, 袁泉1, 马斌3, 沈慧1,2
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| (1.上海辰山植物园, 上海市资源植物功能基因组学重点实验室, 上海 201602;2.中国科学院分子植物科学卓越创新中心, 植物分子遗传国家重点实验室, 上海 200032;3.扬州大学农学院, 江苏扬州 225009) |
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| 摘要: |
| 姬蕨(Hypolepis punctata)是探究蕨类植物与昆虫互作机制的理想材料，然而其分子基础研究仍相对薄弱，缺乏高质量的参考基因序列信息。为此，本研究基于 PacBio Sequel 三代测序平台，以姬蕨叶、根和茎的混合样品为材料，开展全长转录组测序与系统的功能注释分析。测序共获得 504 878 条高质量原始序列(polymerase reads)，总数据量为 66.34 Gb；经去冗余处理后，得到 24 167 条转录本，平均长度为 2 983 bp。功能注释结果显示，96.58% 的转录本(23 340 条)在七大公共数据库中获得注释。此外，共预测到32 772 个简单重复序列(Simple Sequence Repeats,SSR)及1 458 个转录因子。鉴于茉莉酸(Jasmonic Acid,JA)在植物防御与昆虫互作中的关键作用，本研究系统鉴定到83 条与JA合成相关的转录本，涵盖13-脂氧合酶(13-Lipoxygenase，13-LOX)、丙二烯氧化物合成酶(Allene Oxide Synthase，AOS)、丙二烯氧化物环化酶(Allene Oxide Cyclase，AOC)、OPDA还原酶3(Oxophytodienoate Reductase 3，OPR3)、OPC-8:0辅酶A连接酶1(OPC-8:0 CoA Ligase 1，OPCL1)、多功能蛋白(Multifunctional Protein，MFP)、酰基辅酶A氧化酶(Acyl-CoA oxidase，ACX)、3-酮酰基辅酶A硫解酶(3-Ketoacyl-CoA Thiolase，3-KAT)和茉莉酸酰胺合成酶(Jasmonoyl Acid Resistant 1，JAR1)等关键酶家族成员。本研究构建了姬蕨首个高质量的全长转录组，为后续该物种的功能基因挖掘及蕨类植物在胁迫响应与环境互作中的分子机制研究打下了坚实基础。 |
| 关键词: 蕨类植物 姬蕨 PacBio 全长转录组 茉莉酸合成通路 |
| DOI：10.13656/j.cnki.gxkx.20251208.009 |
| 投稿时间：2025-06-27修订日期：2025-08-25 |
| 基金项目:上海市绿化和市容管理局科研专项(G242409),国家自然科学基金青年科学基金项目(32300184)资助。 |
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| Full-Length Transcriptome Sequencing of Hypolepis punctata and Gene Mining of the Jasmonic Acid Biosynthesis Pathway |
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ZHANG Qiqi1,2, YUAN Quan1, MA Bin3, SHEN Hui1,2
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| (1.Shanghai Key Laboratory of Plant Functional Genomics of Resources, Shanghai Chenshan Botanical Garden, Shanghai, 201602, China;2.State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai, 200032, China;3.Agricultural College of Yangzhou University, Yangzhou, Jiangsu, 225009, China) |
| Abstract: |
| Hypolepis punctata has been recognized as an ideal model for studying fern-insect interactions.However,its molecular research remains limited due to the lack of high-quality reference gene sequences.To address this gap,this study employed the PacBio Sequel third-generation sequencing platform to perform full-length transcriptome sequencing for mixed samples of H.punctata leaves,roots,and stems and then conducted comprehensive functional annotation.A total of 504 878 high-quality polymerase reads were generated,yielding 66.34 Gb of raw data.After redundancy removal,24 167 unique transcripts were obtained,with an average length of 2 983 bp.Functional annotation revealed that 96.58% (23 340) of the transcripts were successfully annotated against seven major public databases.Additionally, 32 772 Simple Sequence Repeats (SSRs) and 1 458 transcription factors were identified.Considering the pivotal role of Jasmonic Acid (JA) in plant defenses and interactions with insects,83 transcripts involved in JA biosynthesis were comprehensively identified,covering key enzyme family members such as 13-Lipoxygenase (13-LOX),Allene Oxide Synthase (AOS),Allene Oxide Cyclase (AOC),Oxophytodienoate Reductase 3(OPR3),OPC-8:0 CoA Ligase 1 (OPCL1),Multifunctional Protein (MFP),Acyl-CoA oxidase (ACX),3-Ketoacyl-CoA Thiolase (3-KAT),and Jasmonic Acid Resistant 1 (JAR1).This study presents the first high-quality full-length transcriptome of H.punctata,providing valuable genetic resources for functional gene mining and offering a solid foundation for future research on the molecular mechanisms underlying stress responses and ecological interactions in ferns. |
| Key words: ferns Hypolepis punctata PacBio full-length transcriptome jasmonic acid biosynthesis pathway |
