Rice Mutant Resources for Gene Discovery

Hirochika, Hirohiko; Guiderdoni, Emmanuel; An, Gynheung; Hsing, Yue‐Ie C.; Eun, Moo Young; Han, Chang‐deok; Upadhyaya, Narayana M.; Ramachandran, Srinivasan; Zhang, Qifa; Pereira, Andy; Sundaresan, Venkatesan; Leung, Hei

doi:10.1023/b:plan.0000036368.74758.66

Cited by 228 publications

(159 citation statements)

References 33 publications

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“…With the completion of the rice genome sequencing project, there have been rapid developments in functional genomic resources, including large mutant libraries by T-DNA insertion, transposon tagging, and chemical mutagenesis (10). Wholegenome microarray technique has been developed and applied to profiling expression of all of the genes in the entire life cycle of rice growth and development.…”

Section: The Strategies For Developing Gsrmentioning

confidence: 99%

Strategies for developing Green Super Rice

Zhang

2007

Proc. Natl. Acad. Sci. U.S.A.

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This contribution is part of the special series of Inaugural Articles by members of the National Academy of Sciences elected on May 1, 2007.From a global viewpoint, a number of challenges need to be met for sustainable rice production: (i) increasingly severe occurrence of insects and diseases and indiscriminate pesticide applications; (ii) high pressure for yield increase and overuse of fertilizers; (iii) water shortage and increasingly frequent occurrence of drought; and (iv) extensive cultivation in marginal lands. A combination of approaches based on the recent advances in genomic research has been formulated to address these challenges, with the long-term goal to develop rice cultivars referred to as Green Super Rice. On the premise of continued yield increase and quality improvement, Green Super Rice should possess resistances to multiple insects and diseases, high nutrient efficiency, and drought resistance, promising to greatly reduce the consumption of pesticides, chemical fertilizers, and water. Large efforts have been focused on identifying germplasms and discovering genes for resistance to diseases and insects, N-and P-use efficiency, drought resistance, grain quality, and yield. The approaches adopted include screening of germplasm collections and mutant libraries, gene discovery and identification, microarray analysis of differentially regulated genes under stressed conditions, and functional test of candidate genes by transgenic analysis. Genes for almost all of the traits have now been isolated in a global perspective and are gradually incorporated into genetic backgrounds of elite cultivars by molecular marker-assisted selection or transformation. It is anticipated that such strategies and efforts would eventually lead to the development of Green Super Rice.genomics ͉ rice genetic improvement ͉ sustainable agriculture

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Section: The Strategies For Developing Gsrmentioning

confidence: 99%

Strategies for developing Green Super Rice

Zhang

2007

Proc. Natl. Acad. Sci. U.S.A.

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729

438

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“…Completion of the rice genome sequence has enabled gene identification and functional analysis on a large scale. In order to elucidate the gene function in rice genome, a global effort to generate insertional mutants, mainly by T-DNA and transposable elements insertion, has been carried out and a large number of mutants has been collected in the last few years (Hirochika et al 2004;Jeon et al 2000;Martienssen 1998;Osborne and Baker 1995;Wu et al 2003). Further, additional research tools of functional genomics in rice, such as full-length cDNA collection and whole genome expression profiling, have been established and have enhanced the pace for elucidating gene function throughout the genome .…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization, expression pattern, and function analysis of the OsBC1L family in rice

et al. 2009

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COBRA-like proteins play important roles in cell expansion and cell wall biosynthesis in Arabidopsis. In rice, a COBRA-like gene, BRITTLE CULM1 (BC1), has been identified as a regulator controlling the culm mechanical strength. Analysis of the rice genome indicated that BC1 belongs to an 11-member multigene family, termed the OsBC1L family in this study. Based on sequence comparisons and phylogenetic analysis, the OsBC1L family comprises two main subgroups. Expression patterns examined by microarray and reverse transcription polymerase chain reaction revealed that OsBC1L genes exhibit universal or specific expression patterns. Through T-DNA or Tos17 insertion mutant lines, the functions of six OsBC1L family members have been examined by investigating the phenotype variations of knockout mutants under normal growth conditions. Results suggest that the OsBC1L genes perform a range of functions and participate in various developmental processes in rice.

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“…a Based on searches from http://rapdb.dna.affrc.go.jp/, http://www.chromdb.org/index.html, http://rice.tigr.org/tdb/e2k1/osa1/index.shtml and [90,91]. b For the specific publications, see the main text.…”

Section: Ritsmentioning

confidence: 99%

“…b For the specific publications, see the main text. c The availability of T-DNA and Tos17 lines was determined by checking publicly available populations, as described in [91].…”

Section: Ritsmentioning

confidence: 99%

The Cornucopia of Small RNAs in Plant Genomes

Simon

Zhai

Zeng

2008

Rice

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Regulatory small RNAs (approximately 20 to 24 nt in length) are produced through pathways that involve several key evolutionarily conserved protein families; the variants of these proteins found in plants are encoded by multigene families and are known as Dicer-like, Argonaute, and RNA-dependent RNA polymerase proteins. Small RNAs include the well-known classes of microRNAs (miRNAs, 21 nt) and the small-interfering RNAs (siRNAs,~24 nt). Both of these types of molecules are found across a broad set of eukaryotic species, although the siRNAs are a much larger and more diverse class in plants due to the abundance of heterochromatic siRNAs. Well-studied species such as Arabidopsis have provided a foundation for understanding in rice and other species how small RNAs function as key regulators of gene expression. In this paper, we review the current understanding of plant small RNA pathways, including the biogenesis and function of miRNAs, siRNAs, trans-acting siRNAs, and heterochromatic siRNAs. We also examine the evolutionary relationship among plant species of both their miRNAs and the key enzymatic components of the small RNA pathways. Many of the most recent advances in describing small RNAs have resulted from advances in sequencing technologies used for identifying and measuring small RNAs, and these technologies are discussed. Combined with the plethora of genetic tools available to researchers, we expect that the continued elucidation of the identity and functions of plant small RNAs will be both exciting and rewarding.

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Rice Mutant Resources for Gene Discovery

Cited by 228 publications

References 33 publications

Strategies for developing Green Super Rice

Strategies for developing Green Super Rice

Molecular characterization, expression pattern, and function analysis of the OsBC1L family in rice

The Cornucopia of Small RNAs in Plant Genomes

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