Literature DB >> 12684538

A network of rice genes associated with stress response and seed development.

Bret Cooper1, Joseph D Clarke, Paul Budworth, Joel Kreps, Don Hutchison, Sylvia Park, Sonia Guimil, Molly Dunn, Peter Luginbühl, Cinzia Ellero, Stephen A Goff, Jane Glazebrook.   

Abstract

We used a systematic approach to build a network of genes associated with developmental and stress responses in rice by identifying interaction domains for 200 proteins from stressed and developing tissues, by measuring the associated gene expression changes in different tissues exposed to a variety of environmental, biological, and chemical stress treatments, and by localizing the cognate genes to regions of stress-tolerance trait genetic loci. The integrated data set suggests that similar genes respond to environmental cues and stresses, and some may also regulate development. We demonstrate that the data can be used to correctly predict gene function in monocots and dicots. As a result, we have identified five genes that contribute to disease resistance in Arabidopsis.

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Year:  2003        PMID: 12684538      PMCID: PMC153660          DOI: 10.1073/pnas.0737574100

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  53 in total

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Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  Orchestrated transcription of key pathways in Arabidopsis by the circadian clock.

Authors:  S L Harmer; J B Hogenesch; M Straume; H S Chang; B Han; T Zhu; X Wang; J A Kreps; S A Kay
Journal:  Science       Date:  2000-12-15       Impact factor: 47.728

3.  SCOP database in 2002: refinements accommodate structural genomics.

Authors:  Loredana Lo Conte; Steven E Brenner; Tim J P Hubbard; Cyrus Chothia; Alexey G Murzin
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

4.  GIBBERELLIN BIOSYNTHESIS: Enzymes, Genes and Their Regulation.

Authors:  Peter Hedden; Yuji Kamiya
Journal:  Annu Rev Plant Physiol Plant Mol Biol       Date:  1997-06

5.  BRS1, a serine carboxypeptidase, regulates BRI1 signaling in Arabidopsis thaliana.

Authors:  J Li; K A Lease; F E Tax; J C Walker
Journal:  Proc Natl Acad Sci U S A       Date:  2001-04-24       Impact factor: 11.205

6.  Functional analyses of the Dof domain, a zinc finger DNA-binding domain, in a pumpkin DNA-binding protein AOBP.

Authors:  N Shimofurutani; Y Kisu; M Suzuki; M Esaka
Journal:  FEBS Lett       Date:  1998-07-03       Impact factor: 4.124

7.  14-3-3 proteins are part of an abscisic acid-VIVIPAROUS1 (VP1) response complex in the Em promoter and interact with VP1 and EmBP1.

Authors:  T F Schultz; J Medina; A Hill; R S Quatrano
Journal:  Plant Cell       Date:  1998-05       Impact factor: 11.277

8.  Developmental and stress regulation of RCI2A and RCI2B, two cold-inducible genes of arabidopsis encoding highly conserved hydrophobic proteins.

Authors:  J Medina; R Catalá; J Salinas
Journal:  Plant Physiol       Date:  2001-04       Impact factor: 8.340

9.  Determination of the motif responsible for interaction between the rice APETALA1/AGAMOUS-LIKE9 family proteins using a yeast two-hybrid system.

Authors:  Y H Moon; H G Kang; J Y Jung; J S Jeon; S K Sung; G An
Journal:  Plant Physiol       Date:  1999-08       Impact factor: 8.340

10.  Characterization and expression of a new class of zinc finger protein that binds to silencer region of ascorbate oxidase gene.

Authors:  Y Kisu; T Ono; N Shimofurutani; M Suzuki; M Esaka
Journal:  Plant Cell Physiol       Date:  1998-10       Impact factor: 4.927

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  83 in total

1.  Bacterial expression, purification and characterization of a rice voltage-dependent, anion-selective channel isoform, OsVDAC4.

Authors:  Ashwini Godbole; Rohan Mitra; Ashvini K Dubey; Palakolanu S Reddy; M K Mathew
Journal:  J Membr Biol       Date:  2011-11-06       Impact factor: 1.843

2.  A plant-specific protein essential for blue-light-induced chloroplast movements.

Authors:  Stacy L DeBlasio; Darron L Luesse; Roger P Hangarter
Journal:  Plant Physiol       Date:  2005-08-19       Impact factor: 8.340

3.  Identification of transcripts associated with cell wall metabolism and development in the stem of sugarcane by Affymetrix GeneChip Sugarcane Genome Array expression profiling.

Authors:  Rosanne E Casu; Janine M Jarmey; Graham D Bonnett; John M Manners
Journal:  Funct Integr Genomics       Date:  2006-11-18       Impact factor: 3.410

4.  Conservation of the E-function for floral organ identity in rice revealed by the analysis of tissue culture-induced loss-of-function mutants of the OsMADS1 gene.

Authors:  Ganesh Kumar Agrawal; Kiyomi Abe; Muneo Yamazaki; Akio Miyao; Hirohiko Hirochika
Journal:  Plant Mol Biol       Date:  2005-09       Impact factor: 4.076

Review 5.  Genetic networks.

Authors:  Steven P Briggs; Tatjana Singer
Journal:  Plant Physiol       Date:  2005-06       Impact factor: 8.340

6.  Reconstructing the evolutionary history of paralogous APETALA1/FRUITFULL-like genes in grasses (Poaceae).

Authors:  Jill C Preston; Elizabeth A Kellogg
Journal:  Genetics       Date:  2006-07-02       Impact factor: 4.562

Review 7.  Protein interaction networks in plants.

Authors:  Joachim F Uhrig
Journal:  Planta       Date:  2006-03-31       Impact factor: 4.116

8.  Genome-wide analysis of the stress associated protein (SAP) gene family containing A20/AN1 zinc-finger(s) in rice and their phylogenetic relationship with Arabidopsis.

Authors:  Shubha Vij; Akhilesh K Tyagi
Journal:  Mol Genet Genomics       Date:  2006-10-11       Impact factor: 3.291

9.  Loss of LOFSEP Transcription Factor Function Converts Spikelet to Leaf-Like Structures in Rice.

Authors:  Di Wu; Wanqi Liang; Wanwan Zhu; Mingjiao Chen; Cristina Ferrándiz; Rachel A Burton; Ludovico Dreni; Dabing Zhang
Journal:  Plant Physiol       Date:  2017-12-07       Impact factor: 8.340

10.  Sugar starvation- and GA-inducible calcium-dependent protein kinase 1 feedback regulates GA biosynthesis and activates a 14-3-3 protein to confer drought tolerance in rice seedlings.

Authors:  Shin-Lon Ho; Li-Fen Huang; Chung-An Lu; Siou-Luan He; Chun-Chin Wang; Sheng-Ping Yu; Jychian Chen; Su-May Yu
Journal:  Plant Mol Biol       Date:  2013-01-18       Impact factor: 4.076

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