De novo assembly and characterization of germinating lettuce seed transcriptome using Illumina paired-end sequencing
文献类型：期刊论文
| 作者 | Liu, Shu-Jun; Song, Shun-Hua; Wang, Wei-Qing; Song, Song-Quan |
| 刊名 | PLANT PHYSIOLOGY AND BIOCHEMISTRY
 |
| 出版日期 | 2015 |
| 卷号 | 96页码:154-162 |
| 关键词 | Germination thermoinhibition Illumina paired-end sequencing Lettuce seed Sodium nitroprusside Transcriptome |
| ISSN号 | 0981-9428 |
| DOI | 10.1016/j.plaphy.2015.07.020 |
| 文献子类 | Article |
| 英文摘要 | At supraoptimal temperature, germination of lettuce (Lactuca sativa L.) seeds exhibits a typical germination thermoinhibition, which can be alleviated by sodium nitroprusside (SNP) in a nitric oxide-dependent manner. However, the molecular mechanism of seed germination thermoinhibition and its alleviation by SNP are poorly understood. In the present study, the lettuce seeds imbibed at optimal temperature in water or at supraoptimal temperature with or without 100 mu M SNP for different periods of time were used as experimental materials, the total RNA was extracted and sequenced, we gained 147,271,347 raw reads using Illumina paired-end sequencing technique and assembled the transcriptome of germinating lettuce seeds. A total of 51,792 unigenes with a mean length of 849 nucleotides were obtained. Of these unigenes, a total of 29,542 unigenes were annotated by sequence similarity searching in four databases, NCBI non-redundant protein database, SwissProt protein database, euKaryotic Ortholog Groups database, and NCBI nucleotide database. Among the annotated unigenes, 22,276 unigenes were assigned to Gene Ontology database. When all the annotated unigenes were searched against the Kyoto Encyclopedia of Genes and Genomes Pathway database, a total of 8,810 unigenes were mapped to 5 main categories including 260 pathways. We first obtained a lot of unigenes encoding proteins involved in abscisic acid (ABA) signaling in lettuce, including 11 ABA receptors, 94 protein phosphatase 2Cs and 16 sucrose non-fermenting 1-related protein kinases. These results will help us to better understand the molecular mechanism of seed germination, thermoinhibition of seed germination and its alleviation by SNP. (C) 2015 Elsevier Masson SAS. All rights reserved. |
| 学科主题 | Plant Sciences |
| 出版地 | ISSY-LES-MOULINEAUX |
| 电子版国际标准刊号 | 1873-2690 |
| WOS关键词 | ABSCISIC-ACID ; POSITIVE REGULATOR ; PROTEOMIC ANALYSIS ; MESSENGER-RNAS ; DORMANCY ; THERMOINHIBITION ; GIBBERELLIN ; TEMPERATURE ; NITRATE ; BIOSYNTHESIS |
| WOS研究方向 | Science Citation Index Expanded (SCI-EXPANDED) |
| 语种 | 英语 |
| WOS记录号 | WOS:000364880500018 |
| 出版者 | ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER |
| 资助机构 | National Natural Science Foundation of China [31200232, 31171624] |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/25633]  |
| 专题 | 中科院北方资源植物重点实验室 |
| 作者单位 | 1.Wang, Wei-Qing 2.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China 3.Being Acad Agr & Forestry Sci, Beijing Vegetable Res Ctr, Beijing 100097, Peoples R China 4.[Liu, Shu-Jun |
| 推荐引用方式 GB/T 7714 | Liu, Shu-Jun,Song, Shun-Hua,Wang, Wei-Qing,et al. De novo assembly and characterization of germinating lettuce seed transcriptome using Illumina paired-end sequencing[J]. PLANT PHYSIOLOGY AND BIOCHEMISTRY,2015,96:154-162. |
| APA | Liu, Shu-Jun,Song, Shun-Hua,Wang, Wei-Qing,&Song, Song-Quan.(2015).De novo assembly and characterization of germinating lettuce seed transcriptome using Illumina paired-end sequencing.PLANT PHYSIOLOGY AND BIOCHEMISTRY,96,154-162. |
| MLA | Liu, Shu-Jun,et al."De novo assembly and characterization of germinating lettuce seed transcriptome using Illumina paired-end sequencing".PLANT PHYSIOLOGY AND BIOCHEMISTRY 96(2015):154-162. |
入库方式： OAI收割
来源：植物研究所
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