De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem
Toona sinensis Roem is a popular leafy vegetable in Chinese cuisine and is also used as a traditional Chinese medicine. In this study, leaf samples were collected from the same plant on two development stages and then used for high-throughput Illumina RNA-sequencing (RNA-Seq). 125,884 transcripts an...
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| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2016-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2016/6735209 |
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| author | Xia Zhang Zhenqiao Song Tian Liu Linlin Guo Xingfeng Li |
| author_facet | Xia Zhang Zhenqiao Song Tian Liu Linlin Guo Xingfeng Li |
| author_sort | Xia Zhang |
| collection | DOAJ |
| description | Toona sinensis Roem is a popular leafy vegetable in Chinese cuisine and is also used as a traditional Chinese medicine. In this study, leaf samples were collected from the same plant on two development stages and then used for high-throughput Illumina RNA-sequencing (RNA-Seq). 125,884 transcripts and 54,628 unigenes were obtained through de novo assembly. A total of 25,570 could be annotated with known biological functions, which indicated that the T. sinensis leaves and shoots were undergoing multiple developmental processes especially for active metabolic processes. Analysis of differentially expressed unigenes between the two libraries showed that the lysine biosynthesis was an enriched KEGG pathway, and candidate genes involved in the lysine biosynthesis pathway in T. sinensis leaves and shoots were identified. Our results provide a primary analysis of the gene expression files of T. sinensis leaf and shoot on different development stages and afford a valuable resource for genetic and genomic research on plant lysine biosynthesis. |
| format | Article |
| id | doaj-art-86639611d65841a492155b348bd61621 |
| institution | OA Journals |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2016-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-86639611d65841a492155b348bd616212025-08-20T02:08:48ZengWileyInternational Journal of Genomics2314-436X2314-43782016-01-01201610.1155/2016/67352096735209De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis RoemXia Zhang0Zhenqiao Song1Tian Liu2Linlin Guo3Xingfeng Li4State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai’an, Shandong 271018, ChinaState Key Laboratory of Crop Biology, Shandong Agricultural University, Tai’an, Shandong 271018, ChinaAgronomy College, Shandong Agricultural University, Tai’an, Shandong 271018, ChinaAgronomy College, Shandong Agricultural University, Tai’an, Shandong 271018, ChinaState Key Laboratory of Crop Biology, Shandong Agricultural University, Tai’an, Shandong 271018, ChinaToona sinensis Roem is a popular leafy vegetable in Chinese cuisine and is also used as a traditional Chinese medicine. In this study, leaf samples were collected from the same plant on two development stages and then used for high-throughput Illumina RNA-sequencing (RNA-Seq). 125,884 transcripts and 54,628 unigenes were obtained through de novo assembly. A total of 25,570 could be annotated with known biological functions, which indicated that the T. sinensis leaves and shoots were undergoing multiple developmental processes especially for active metabolic processes. Analysis of differentially expressed unigenes between the two libraries showed that the lysine biosynthesis was an enriched KEGG pathway, and candidate genes involved in the lysine biosynthesis pathway in T. sinensis leaves and shoots were identified. Our results provide a primary analysis of the gene expression files of T. sinensis leaf and shoot on different development stages and afford a valuable resource for genetic and genomic research on plant lysine biosynthesis.http://dx.doi.org/10.1155/2016/6735209 |
| spellingShingle | Xia Zhang Zhenqiao Song Tian Liu Linlin Guo Xingfeng Li De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem International Journal of Genomics |
| title | De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem |
| title_full | De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem |
| title_fullStr | De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem |
| title_full_unstemmed | De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem |
| title_short | De Novo Assembly and Comparative Transcriptome Analysis Provide Insight into Lysine Biosynthesis in Toona sinensis Roem |
| title_sort | de novo assembly and comparative transcriptome analysis provide insight into lysine biosynthesis in toona sinensis roem |
| url | http://dx.doi.org/10.1155/2016/6735209 |
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