De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.)
Construction as well as characterization of a polish wheat transcriptome is a crucial step to study useful traits of polish wheat. In this study, a transcriptome, including 76,014 unigenes, was assembled from dwarf polish wheat (DPW) roots, stems, and leaves using the software of Trinity. Among thes...
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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/10.1155/2016/5781412 |
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| author | Yi Wang Chao Wang Xiaolu Wang Fan Peng Ruijiao Wang Yulin Jiang Jian Zeng Xing Fan Houyang Kang Lina Sha Haiqin Zhang Xue Xiao Yonghong Zhou |
| author_facet | Yi Wang Chao Wang Xiaolu Wang Fan Peng Ruijiao Wang Yulin Jiang Jian Zeng Xing Fan Houyang Kang Lina Sha Haiqin Zhang Xue Xiao Yonghong Zhou |
| author_sort | Yi Wang |
| collection | DOAJ |
| description | Construction as well as characterization of a polish wheat transcriptome is a crucial step to study useful traits of polish wheat. In this study, a transcriptome, including 76,014 unigenes, was assembled from dwarf polish wheat (DPW) roots, stems, and leaves using the software of Trinity. Among these unigenes, 61,748 (81.23%) unigenes were functionally annotated in public databases and classified into differentially functional types. Aligning this transcriptome against draft wheat genome released by the International Wheat Genome Sequencing Consortium (IWGSC), 57,331 (75.42%) unigenes, including 26,122 AB-specific and 2,622 D-specific unigenes, were mapped on A, B, and/or D genomes. Compared with the transcriptome of T. turgidum, 56,343 unigenes were matched with 103,327 unigenes of T. turgidum. Compared with the genomes of rice and barley, 14,404 and 7,007 unigenes were matched with 14,608 genes of barley and 7,708 genes of rice, respectively. On the other hand, 2,148, 1,611, and 2,707 unigenes were expressed specifically in roots, stems, and leaves, respectively. Finally, 5,531 SSR sequences were observed from 4,531 unigenes, and 518 primer pairs were designed. |
| format | Article |
| id | doaj-art-7d69d16daf244209b4a1290d2cce16c8 |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2016-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-7d69d16daf244209b4a1290d2cce16c82025-02-03T06:05:21ZengWileyInternational Journal of Genomics2314-436X2314-43782016-01-01201610.1155/2016/57814125781412De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.)Yi Wang0Chao Wang1Xiaolu Wang2Fan Peng3Ruijiao Wang4Yulin Jiang5Jian Zeng6Xing Fan7Houyang Kang8Lina Sha9Haiqin Zhang10Xue Xiao11Yonghong Zhou12Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaCollege of Resources, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan 611130, ChinaConstruction as well as characterization of a polish wheat transcriptome is a crucial step to study useful traits of polish wheat. In this study, a transcriptome, including 76,014 unigenes, was assembled from dwarf polish wheat (DPW) roots, stems, and leaves using the software of Trinity. Among these unigenes, 61,748 (81.23%) unigenes were functionally annotated in public databases and classified into differentially functional types. Aligning this transcriptome against draft wheat genome released by the International Wheat Genome Sequencing Consortium (IWGSC), 57,331 (75.42%) unigenes, including 26,122 AB-specific and 2,622 D-specific unigenes, were mapped on A, B, and/or D genomes. Compared with the transcriptome of T. turgidum, 56,343 unigenes were matched with 103,327 unigenes of T. turgidum. Compared with the genomes of rice and barley, 14,404 and 7,007 unigenes were matched with 14,608 genes of barley and 7,708 genes of rice, respectively. On the other hand, 2,148, 1,611, and 2,707 unigenes were expressed specifically in roots, stems, and leaves, respectively. Finally, 5,531 SSR sequences were observed from 4,531 unigenes, and 518 primer pairs were designed.http://dx.doi.org/10.1155/2016/5781412 |
| spellingShingle | Yi Wang Chao Wang Xiaolu Wang Fan Peng Ruijiao Wang Yulin Jiang Jian Zeng Xing Fan Houyang Kang Lina Sha Haiqin Zhang Xue Xiao Yonghong Zhou De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) International Journal of Genomics |
| title | De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) |
| title_full | De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) |
| title_fullStr | De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) |
| title_full_unstemmed | De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) |
| title_short | De Novo Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (Triticum polonicum L.) |
| title_sort | de novo sequencing and characterization of the transcriptome of dwarf polish wheat triticum polonicum l |
| url | http://dx.doi.org/10.1155/2016/5781412 |
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