Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones
<p>Abstract</p> <p>Background</p> <p><it>Populus </it>is one of favorable model plants because of its small genome. Structural genomics of <it>Populus </it>has reached a breakpoint as nucleotides of the entire genome have been determined. Reachin...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2007-12-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/8/448 |
| _version_ | 1828739218965266432 |
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| author | Seki Motoaki Futamura Norihiro Igasaki Tomohiro Kado Tomoyuki Nishiguchi Mitsuru Toyoda Atsushi Totoki Yasushi Sakurai Tetsuya Nanjo Tokihiko Sakaki Yoshiyuki Shinozaki Kazuo Shinohara Kenji |
| author_facet | Seki Motoaki Futamura Norihiro Igasaki Tomohiro Kado Tomoyuki Nishiguchi Mitsuru Toyoda Atsushi Totoki Yasushi Sakurai Tetsuya Nanjo Tokihiko Sakaki Yoshiyuki Shinozaki Kazuo Shinohara Kenji |
| author_sort | Seki Motoaki |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p><it>Populus </it>is one of favorable model plants because of its small genome. Structural genomics of <it>Populus </it>has reached a breakpoint as nucleotides of the entire genome have been determined. Reaching the post genome era, functional genomics of <it>Populus </it>is getting more important for well-comprehended plant science. Development of bioresorce serving functional genomics is making rapid progress. Huge efforts have achieved deposits of expressed sequence tags (ESTs) in various plant species consequently accelerating functional analysis of genes. ESTs from full-length cDNA clones are especially powerful for accurate molecular annotation. We promoted collection and annotation of the ESTs from <it>Populus </it>full-length enriched cDNA clones as part of functional genomics of tree species.</p> <p>Results</p> <p>We have been collecting the full-length enriched cDNA of the female poplar (<it>Populus nigra </it>var. <it>italica</it>) for years. By sequencing <it>P. nigra </it>full-length (PnFL) cDNA libraries, we generated about 116,000 5'-end or 3'-end ESTs corresponding to 19,841 nonredundant PnFL clones. Population of PnFL cDNA clones represents 44% of the predicted genes in the <it>Populus </it>genome.</p> <p>Conclusion</p> <p>Our resource of <it>P. nigra </it>full-length enriched clones is expected to provide valuable tools to gain further insight into genome annotation and functional genomics in <it>Populus</it>.</p> |
| first_indexed | 2024-04-13T00:18:41Z |
| format | Article |
| id | doaj.art-127328ace5a7496ebed685e71cccb15a |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-13T00:18:41Z |
| publishDate | 2007-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-127328ace5a7496ebed685e71cccb15a2022-12-22T03:10:50ZengBMCBMC Genomics1471-21642007-12-018144810.1186/1471-2164-8-448Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clonesSeki MotoakiFutamura NorihiroIgasaki TomohiroKado TomoyukiNishiguchi MitsuruToyoda AtsushiTotoki YasushiSakurai TetsuyaNanjo TokihikoSakaki YoshiyukiShinozaki KazuoShinohara Kenji<p>Abstract</p> <p>Background</p> <p><it>Populus </it>is one of favorable model plants because of its small genome. Structural genomics of <it>Populus </it>has reached a breakpoint as nucleotides of the entire genome have been determined. Reaching the post genome era, functional genomics of <it>Populus </it>is getting more important for well-comprehended plant science. Development of bioresorce serving functional genomics is making rapid progress. Huge efforts have achieved deposits of expressed sequence tags (ESTs) in various plant species consequently accelerating functional analysis of genes. ESTs from full-length cDNA clones are especially powerful for accurate molecular annotation. We promoted collection and annotation of the ESTs from <it>Populus </it>full-length enriched cDNA clones as part of functional genomics of tree species.</p> <p>Results</p> <p>We have been collecting the full-length enriched cDNA of the female poplar (<it>Populus nigra </it>var. <it>italica</it>) for years. By sequencing <it>P. nigra </it>full-length (PnFL) cDNA libraries, we generated about 116,000 5'-end or 3'-end ESTs corresponding to 19,841 nonredundant PnFL clones. Population of PnFL cDNA clones represents 44% of the predicted genes in the <it>Populus </it>genome.</p> <p>Conclusion</p> <p>Our resource of <it>P. nigra </it>full-length enriched clones is expected to provide valuable tools to gain further insight into genome annotation and functional genomics in <it>Populus</it>.</p>http://www.biomedcentral.com/1471-2164/8/448 |
| spellingShingle | Seki Motoaki Futamura Norihiro Igasaki Tomohiro Kado Tomoyuki Nishiguchi Mitsuru Toyoda Atsushi Totoki Yasushi Sakurai Tetsuya Nanjo Tokihiko Sakaki Yoshiyuki Shinozaki Kazuo Shinohara Kenji Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones BMC Genomics |
| title | Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones |
| title_full | Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones |
| title_fullStr | Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones |
| title_full_unstemmed | Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones |
| title_short | Functional annotation of 19,841 <it>Populus nigra </it>full-length enriched cDNA clones |
| title_sort | functional annotation of 19 841 it populus nigra it full length enriched cdna clones |
| url | http://www.biomedcentral.com/1471-2164/8/448 |
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