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| A searchable resource for rice phenomics study (04-10-2008) |
The TRIM team then worked on phenotype scoring and seed propagation of this T-DNA rice mutant population (Plant Molecular Biology 65: 427-38). The TRIM population contains about 60,000 promoter trap and gene activation or knockout lines. The location of the T-DNA insertions has been determined for 30,000 of the TRIM lines (this information is also searchable on the TRIM website). When the TRIM lines were examined further, huge variations were observed in overall growth condition, leaf color, leaf morphology, plant morphology, lesion mimic, tiller number, heading date, flowering, panicle morphology, seed fertility and seed morphology. About 18% of the T1 population were found to be altered in these traits and this information is also searchable on the TRIM website. This combination of a large mutant population with extensive phenotypic data form a solid basis for further large-scale functional genomic studies. |
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What gene can cause this phenotype? Large-scale analysis of rice gene function (04-10-2008)
There are more than 40,000 genes in the rice genome. The challenge is how to investigate and assign a function to them in an efficient way. Several years ago, a team of 4 labs was formed for large scale functional genomics in rice. Team members are Yue-ie C. Hsing from IPMB, Su-May Yu from the Institute of Molecular Biology, Academia Sinica and Chyr-Guan Chern and Ming-Jen Fan from the Taiwan Agriculture Research Institute. Using T-DNA insertional mutagenesis, they have generated a rice mutant population containing >60,000 promoter trap and gene activation/knockout lines in a japonica rice cultivar Tainung 67 (TN67). This mutant population has been designated the “Taiwan Rice Insertional Mutants” (TRIM). Extensive information about the TRIM mutants can be found at http://trim.sinica.edu.tw In a recent paper (Plant Molecular Biology 63:351-364), the TRIM team described how they generated this new resource for rice functional genomics.
The TRIM mutant population offers a highly valuable resource for high throughput rice functional analyses using both forward and reverse genetic approaches. This paper has been identified by Essential Science Indicators as a Fast Breaking Paper in the field of Plant & Animal Science, which means it is one of the most-cited papers in its discipline published during the past two years. |
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Fish eye in rice seeds? -- Global functional analyses of rice promoters by genomics approaches (03-04-2008) |
Using the promoter-trap lines that are part of the TRIM collection (Plant Mol Biol 2007 63:351-64) , Tuan-hua David Ho, Swee-Suak Ko, Chii-Gong Tong, Yue-Ie Hsing of IPMB, together with Su-May Yu and her group from the Institute of Molecular Biology, developed a systematic way to conduct a genome-wide search for tissue-specific promoters (Plant Molecular Biology 65:417-425). They systematically performed GUS activity screens of the rice mutant library for genes/promoters constitutively, differentially, or specifically active in vegetative and reproductive tissues. In addition, by integrating the promoter trap data with microarray data from stress- and ABA-treated plants, they were able to identify promoters induced by stress and/or ABA in a tissue specific manner. Such promoters are potentially useful in construction of plants with improved stress tolerance. |
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