De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development
Eucommia ulmoides Oliver is a woody perennial dioecious species native to China and has great economic value. However, little is known about flower bud development in this species. In this study, the transcriptomes of female and male flower buds were sequenced using the Illumina platform, a next-gen...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2016-09-01
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| Series: | Genomics Data |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2213596016300897 |
| _version_ | 1819169549012959232 |
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| author | Huimin Liu JianMin Fu Hongyan Du Jingjing Hu Tana Wuyun |
| author_facet | Huimin Liu JianMin Fu Hongyan Du Jingjing Hu Tana Wuyun |
| author_sort | Huimin Liu |
| collection | DOAJ |
| description | Eucommia ulmoides Oliver is a woody perennial dioecious species native to China and has great economic value. However, little is known about flower bud development in this species. In this study, the transcriptomes of female and male flower buds were sequenced using the Illumina platform, a next-generation sequencing technology that provides cost-effective, highly efficient transcriptome profiling. In total, 11,558,188,080 clean reads were assembled into 75,065 unigenes with an average length of 1011 bp by de novo assembly using Trinity software. Through similarity comparisons with known protein databases, 47,071 unigenes were annotated, 146 of which were putatively related to the floral development of E. ulmoides. Fifteen of the 146 unigenes had significantly different expression levels between the two samples. Additionally, 24,346 simple sequence repeats were identified in 18,565 unigenes with 12,793 sequences suitable for the designed primers. In total, 67,447 and 58,236 single nucleotide polymorphisms were identified in male and female buds, respectively. This study provides a valuable resource for further conservation genetics and functional genomics research on E. ulmoides. |
| first_indexed | 2024-12-22T19:21:16Z |
| format | Article |
| id | doaj.art-3fca6e405f0142af8b02bebc75396ea6 |
| institution | Directory Open Access Journal |
| issn | 2213-5960 |
| language | English |
| last_indexed | 2024-12-22T19:21:16Z |
| publishDate | 2016-09-01 |
| publisher | Elsevier |
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| series | Genomics Data |
| spelling | doaj.art-3fca6e405f0142af8b02bebc75396ea62022-12-21T18:15:22ZengElsevierGenomics Data2213-59602016-09-019C10511010.1016/j.gdata.2016.07.001De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral developmentHuimin Liu0JianMin Fu1Hongyan Du2Jingjing Hu3Tana Wuyun4Non-timber Forestry Research and Development Center of Chinese Academy of Forestry, Zhengzhou 450003, Henan, ChinaNon-timber Forestry Research and Development Center of Chinese Academy of Forestry, Zhengzhou 450003, Henan, ChinaNon-timber Forestry Research and Development Center of Chinese Academy of Forestry, Zhengzhou 450003, Henan, ChinaTotal Genomics Solution Limited, Shenzhen 518081, ChinaNon-timber Forestry Research and Development Center of Chinese Academy of Forestry, Zhengzhou 450003, Henan, ChinaEucommia ulmoides Oliver is a woody perennial dioecious species native to China and has great economic value. However, little is known about flower bud development in this species. In this study, the transcriptomes of female and male flower buds were sequenced using the Illumina platform, a next-generation sequencing technology that provides cost-effective, highly efficient transcriptome profiling. In total, 11,558,188,080 clean reads were assembled into 75,065 unigenes with an average length of 1011 bp by de novo assembly using Trinity software. Through similarity comparisons with known protein databases, 47,071 unigenes were annotated, 146 of which were putatively related to the floral development of E. ulmoides. Fifteen of the 146 unigenes had significantly different expression levels between the two samples. Additionally, 24,346 simple sequence repeats were identified in 18,565 unigenes with 12,793 sequences suitable for the designed primers. In total, 67,447 and 58,236 single nucleotide polymorphisms were identified in male and female buds, respectively. This study provides a valuable resource for further conservation genetics and functional genomics research on E. ulmoides.http://www.sciencedirect.com/science/article/pii/S2213596016300897Eucommia ulmoidesTranscriptomeIllumina sequencingFlower bud |
| spellingShingle | Huimin Liu JianMin Fu Hongyan Du Jingjing Hu Tana Wuyun De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development Genomics Data Eucommia ulmoides Transcriptome Illumina sequencing Flower bud |
| title | De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| title_full | De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| title_fullStr | De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| title_full_unstemmed | De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| title_short | De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| title_sort | de novo sequencing of eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development |
| topic | Eucommia ulmoides Transcriptome Illumina sequencing Flower bud |
| url | http://www.sciencedirect.com/science/article/pii/S2213596016300897 |
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