Literature DB >> 12869764

Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.

Shoshi Kikuchi, Kouji Satoh, Toshifumi Nagata, Nobuyuki Kawagashira, Koji Doi, Naoki Kishimoto, Junshi Yazaki, Masahiro Ishikawa, Hitomi Yamada, Hisako Ooka, Isamu Hotta, Keiichi Kojima, Takahiro Namiki, Eisuke Ohneda, Wataru Yahagi, Kohji Suzuki, Chao Jie Li, Kenji Ohtsuki, Toru Shishiki, Yasuhiro Otomo, Kazuo Murakami, Yoshiharu Iida, Sumio Sugano, Tatsuto Fujimura, Yutaka Suzuki, Yuki Tsunoda, Takashi Kurosaki, Takeko Kodama, Hiromi Masuda, Michie Kobayashi, Quihong Xie, Min Lu, Ryuya Narikawa, Akio Sugiyama, Kouichi Mizuno, Satoko Yokomizo, Junko Niikura, Rieko Ikeda, Junya Ishibiki, Midori Kawamata, Akemi Yoshimura, Junichirou Miura, Takahiro Kusumegi, Mitsuru Oka, Risa Ryu, Mariko Ueda, Kenichi Matsubara, Jun Kawai, Piero Carninci, Jun Adachi, Katsunori Aizawa, Takahiro Arakawa, Shiro Fukuda, Ayako Hara, Wataru Hashizume, Norihito Hayatsu, Koichi Imotani, Yoshiyuki Ishii, Masayoshi Itoh, Ikuko Kagawa, Shinji Kondo, Hideaki Konno, Ai Miyazaki, Naoki Osato, Yoshimi Ota, Rintaro Saito, Daisuke Sasaki, Kenjiro Sato, Kazuhiro Shibata, Akira Shinagawa, Toshiyuki Shiraki, Masayasu Yoshino, Yoshihide Hayashizaki, Ayako Yasunishi.   

Abstract

We collected and completely sequenced 28,469 full-length complementary DNA clones from Oryza sativa L. ssp. japonica cv. Nipponbare. Through homology searches of publicly available sequence data, we assigned tentative protein functions to 21,596 clones (75.86%). Mapping of the cDNA clones to genomic DNA revealed that there are 19,000 to 20,500 transcription units in the rice genome. Protein informatics analysis against the InterPro database revealed the existence of proteins presented in rice but not in Arabidopsis. Sixty-four percent of our cDNAs are homologous to Arabidopsis proteins.

Entities:  

Mesh:

Substances:

Year:  2003        PMID: 12869764     DOI: 10.1126/science.1081288

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  341 in total

1.  A genetic model for the female sterility barrier between Asian and African cultivated rice species.

Authors:  Andrea Garavito; Romain Guyot; Jaime Lozano; Frédérick Gavory; Sylvie Samain; Olivier Panaud; Joe Tohme; Alain Ghesquière; Mathias Lorieux
Journal:  Genetics       Date:  2010-05-10       Impact factor: 4.562

2.  A unique set of 11,008 onion expressed sequence tags reveals expressed sequence and genomic differences between the monocot orders Asparagales and Poales.

Authors:  Joseph C Kuhl; Foo Cheung; Qiaoping Yuan; William Martin; Yayeh Zewdie; John McCallum; Andrew Catanach; Paul Rutherford; Kenneth C Sink; Maria Jenderek; James P Prince; Christopher D Town; Michael J Havey
Journal:  Plant Cell       Date:  2003-12-11       Impact factor: 11.277

3.  DDBJ in the stream of various biological data.

Authors:  S Miyazaki; H Sugawara; K Ikeo; T Gojobori; Y Tateno
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

4.  Loss-of-function mutations of the rice GAMYB gene impair alpha-amylase expression in aleurone and flower development.

Authors:  Miyuki Kaneko; Yoshiaki Inukai; Miyako Ueguchi-Tanaka; Hironori Itoh; Takeshi Izawa; Yuhko Kobayashi; Tsukaho Hattori; Akio Miyao; Hirohiko Hirochika; Motoyuki Ashikari; Makoto Matsuoka
Journal:  Plant Cell       Date:  2003-12-19       Impact factor: 11.277

5.  Full-genome analysis of resistance gene homologues in rice.

Authors:  B Monosi; R J Wisser; L Pennill; S H Hulbert
Journal:  Theor Appl Genet       Date:  2004-08-10       Impact factor: 5.699

6.  A genome-wide survey of HD-Zip genes in rice and analysis of drought-responsive family members.

Authors:  Adamantia Agalou; Sigit Purwantomo; Elin Overnäs; Henrik Johannesson; Xiaoyi Zhu; Amy Estiati; Rolf J de Kam; Peter Engström; Inez H Slamet-Loedin; Zhen Zhu; Mei Wang; Lizhong Xiong; Annemarie H Meijer; Pieter B F Ouwerkerk
Journal:  Plant Mol Biol       Date:  2007-11-13       Impact factor: 4.076

7.  RL-SAGE and microarray analysis of the rice transcriptome after Rhizoctonia solani infection.

Authors:  R C Venu; Yulin Jia; Malali Gowda; Melissa H Jia; Chatchawan Jantasuriyarat; Eric Stahlberg; Huameng Li; Andrew Rhineheart; Prashanth Boddhireddy; Pratibha Singh; Neil Rutger; David Kudrna; Rod Wing; James C Nelson; Guo-Liang Wang
Journal:  Mol Genet Genomics       Date:  2007-06-20       Impact factor: 3.291

8.  BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics.

Authors:  Wenming Zhao; Jing Wang; Ximiao He; Xiaobing Huang; Yongzhi Jiao; Mingtao Dai; Shulin Wei; Jian Fu; Ye Chen; Xiaoyu Ren; Yong Zhang; Peixiang Ni; Jianguo Zhang; Songgang Li; Jian Wang; Gane Ka-Shu Wong; Hongyu Zhao; Jun Yu; Huanming Yang; Jun Wang
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  The Rice PIPELINE: a unification tool for plant functional genomics.

Authors:  Junshi Yazaki; Keiichi Kojima; Kouji Suzuki; Naoki Kishimoto; Shoshi Kikuchi
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

10.  Identification of the Arabidopsis palmitoyl-monogalactosyldiacylglycerol delta7-desaturase gene FAD5, and effects of plastidial retargeting of Arabidopsis desaturases on the fad5 mutant phenotype.

Authors:  Ingo Heilmann; Sergei Mekhedov; Barbara King; John Browse; John Shanklin
Journal:  Plant Physiol       Date:  2004-12-03       Impact factor: 8.340

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.