Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili
<p>Abstract</p> <p>Background</p> <p><it>Cryptomeria japonica </it>D. Don is one of the most commercially important conifers in Japan. However, the allergic disease caused by its pollen is a severe public health problem in Japan. Since large-scale analysis o...
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2008-08-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/9/383 |
| _version_ | 1818807741239525376 |
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| author | Sakaki Yoshiyuki Seki Motoaki Nanjo Tokihiko Igasaki Tomohiro Toyoda Atsushi Totoki Yasushi Futamura Norihiro Mari Adriano Shinozaki Kazuo Shinohara Kenji |
| author_facet | Sakaki Yoshiyuki Seki Motoaki Nanjo Tokihiko Igasaki Tomohiro Toyoda Atsushi Totoki Yasushi Futamura Norihiro Mari Adriano Shinozaki Kazuo Shinohara Kenji |
| author_sort | Sakaki Yoshiyuki |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p><it>Cryptomeria japonica </it>D. Don is one of the most commercially important conifers in Japan. However, the allergic disease caused by its pollen is a severe public health problem in Japan. Since large-scale analysis of expressed sequence tags (ESTs) in the male strobili of <it>C. japonica </it>should help us to clarify the overall expression of genes during the process of pollen development, we constructed a full-length enriched cDNA library that was derived from male strobili at various developmental stages.</p> <p>Results</p> <p>We obtained 36,011 expressed sequence tags (ESTs) from either one or both ends of 19,437 clones derived from the cDNA library of <it>C. japonica </it>male strobili at various developmental stages. The 19,437 cDNA clones corresponded to 10,463 transcripts. Approximately 80% of the transcripts resembled ESTs from <it>Pinus </it>and <it>Picea</it>, while approximately 75% had homologs in <it>Arabidopsis</it>. An analysis of homologies between ESTs from <it>C. japonica </it>male strobili and known pollen allergens in the Allergome Database revealed that products of 180 transcripts exhibited significant homology. Approximately 2% of the transcripts appeared to encode transcription factors. We identified twelve genes for MADS-box proteins among these transcription factors. The twelve MADS-box genes were classified as <it>DEF/GLO/GGM13-, AG-, AGL6-, TM3- </it>and <it>TM8</it>-like MIKC<sup>C </sup>genes and type I MADS-box genes.</p> <p>Conclusion</p> <p>Our full-length enriched cDNA library derived from <it>C. japonica </it>male strobili provides information on expression of genes during the development of male reproductive organs. We provided potential allergens in <it>C. japonica</it>. We also provided new information about transcription factors including MADS-box genes expressed in male strobili of <it>C. japonica</it>. Large-scale gene discovery using full-length cDNAs is a valuable tool for studies of gymnosperm species.</p> |
| first_indexed | 2024-12-18T19:30:29Z |
| format | Article |
| id | doaj.art-cd46c9d1702e4d87b9d4f603352ad5c5 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-18T19:30:29Z |
| publishDate | 2008-08-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-cd46c9d1702e4d87b9d4f603352ad5c52022-12-21T20:55:44ZengBMCBMC Genomics1471-21642008-08-019138310.1186/1471-2164-9-383Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobiliSakaki YoshiyukiSeki MotoakiNanjo TokihikoIgasaki TomohiroToyoda AtsushiTotoki YasushiFutamura NorihiroMari AdrianoShinozaki KazuoShinohara Kenji<p>Abstract</p> <p>Background</p> <p><it>Cryptomeria japonica </it>D. Don is one of the most commercially important conifers in Japan. However, the allergic disease caused by its pollen is a severe public health problem in Japan. Since large-scale analysis of expressed sequence tags (ESTs) in the male strobili of <it>C. japonica </it>should help us to clarify the overall expression of genes during the process of pollen development, we constructed a full-length enriched cDNA library that was derived from male strobili at various developmental stages.</p> <p>Results</p> <p>We obtained 36,011 expressed sequence tags (ESTs) from either one or both ends of 19,437 clones derived from the cDNA library of <it>C. japonica </it>male strobili at various developmental stages. The 19,437 cDNA clones corresponded to 10,463 transcripts. Approximately 80% of the transcripts resembled ESTs from <it>Pinus </it>and <it>Picea</it>, while approximately 75% had homologs in <it>Arabidopsis</it>. An analysis of homologies between ESTs from <it>C. japonica </it>male strobili and known pollen allergens in the Allergome Database revealed that products of 180 transcripts exhibited significant homology. Approximately 2% of the transcripts appeared to encode transcription factors. We identified twelve genes for MADS-box proteins among these transcription factors. The twelve MADS-box genes were classified as <it>DEF/GLO/GGM13-, AG-, AGL6-, TM3- </it>and <it>TM8</it>-like MIKC<sup>C </sup>genes and type I MADS-box genes.</p> <p>Conclusion</p> <p>Our full-length enriched cDNA library derived from <it>C. japonica </it>male strobili provides information on expression of genes during the development of male reproductive organs. We provided potential allergens in <it>C. japonica</it>. We also provided new information about transcription factors including MADS-box genes expressed in male strobili of <it>C. japonica</it>. Large-scale gene discovery using full-length cDNAs is a valuable tool for studies of gymnosperm species.</p>http://www.biomedcentral.com/1471-2164/9/383 |
| spellingShingle | Sakaki Yoshiyuki Seki Motoaki Nanjo Tokihiko Igasaki Tomohiro Toyoda Atsushi Totoki Yasushi Futamura Norihiro Mari Adriano Shinozaki Kazuo Shinohara Kenji Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili BMC Genomics |
| title | Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili |
| title_full | Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili |
| title_fullStr | Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili |
| title_full_unstemmed | Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili |
| title_short | Characterization of expressed sequence tags from a full-length enriched cDNA library of <it>Cryptomeria japonica </it>male strobili |
| title_sort | characterization of expressed sequence tags from a full length enriched cdna library of it cryptomeria japonica it male strobili |
| url | http://www.biomedcentral.com/1471-2164/9/383 |
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