STRIPE2 Encodes a Putative dCMP Deaminase that Plays an Important Role in Chloroplast Development in Rice

Arnon, 1949, Copper enzymes in isolated chloroplasts. Polyphenoloxidase in beta vulgaris, Plant Physiol., 24, 1, 10.1104/pp.24.1.1 Bart, 2006, A novel system for gene silencing using siRNAs in rice leaf and stem-derived protoplasts, Plant Methods, 2, 13, 10.1186/1746-4811-2-13 Boussardon, 2012, Two interacting proteins are necessary for the editing of the NdhD-1 site in Arabidopsis plastids, Plant Cell, 24, 3684, 10.1105/tpc.112.099507 Carrie, 2007, Nine 3-ketoacyl-CoA thiolases (KATs) and acetoacetyl-CoA thiolases (ACATs) encoded by five genes in Arabidopsis thaliana are targeted either to peroxisomes or cytosol but not to mitochondria, Plant Mol. Biol., 63, 97, 10.1007/s11103-006-9075-1 Chen, 2013, A knockdown mutation of YELLOW-GREEN LEAF2 blocks chlorophyll biosynthesis in rice, Plant Cell Rep., 32, 1855, 10.1007/s00299-013-1498-y Chen, 2010, Arabidopsis HEMERA/pTAC12 initiates photomorphogenesis by phytochromes, Cell, 141, 1230, 10.1016/j.cell.2010.05.007 Collings, 2000, Plant nuclei can contain extensive grooves and invaginations, Plant Cell, 12, 2425, 10.1105/tpc.12.12.2425 Delannoy, 2009, Arabidopsis tRNA adenosine deaminase arginine edits the wobble nucleotide of chloroplast tRNAArg(ACG) and is essential for efficient chloroplast translation, Plant Cell, 21, 2058, 10.1105/tpc.109.066654 Faivre-Nitschke, 1999, A prokaryotic-type cytidine deaminase from Arabidopsis thaliana, Eur. J. Biochem., 263, 896, 10.1046/j.1432-1327.1999.00591.x Hiei, 1994, Efficient transformation of rice (Oryza sativa L.) mediated by Agrobacterium and sequence analysis of the boundaries of the T-DNA, Plant J., 6, 271, 10.1046/j.1365-313X.1994.6020271.x Hoch, 1991, Editing of a chloroplast mRNA by creation of an initiation codon, Nature, 353, 178, 10.1038/353178a0 Jiao, 2005, Biochemical and molecular characterization of photosystem I deficiency in the NCS6 mitochondrial mutant of maize, Plant Mol. Biol., 57, 303, 10.1007/s11103-004-7792-x Jung, 2003, Characterization of a rice chlorophyll-deficient mutant using the T-DNA gene-trap system, Plant Cell Physiol., 44, 463, 10.1093/pcp/pcg064 Kafer, 2000, Arabidopsis thaliana cytidine deaminase 1 shows more similarity to prokaryotic enzymes than to eukaryotic enzymes, J. Plant Biol., 43, 162, 10.1007/BF03030494 Karcher, 2009, Identification of the chloroplast adenosine-to-inosine tRNA editing enzyme, RNA, 15, 1251, 10.1261/rna.1600609 Kim, 2009, Rice OGR1 encodes a pentatricopeptide repeat-DYW protein and is essential for RNA editing in mitochondria, Plant J., 59, 738, 10.1111/j.1365-313X.2009.03909.x Kusumi, 1997, A virescent gene V1 determines the expression timing of plastid genes for transcription/translation apparatus during early leaf development in rice, Plant J., 12, 1241, 10.1046/j.1365-313x.1997.12061241.x Kusumi, 2011, A plastid protein NUS1 is essential for build-up of the genetic system for early chloroplast development under cold stress conditions, Plant J., 68, 1039, 10.1111/j.1365-313X.2011.04755.x Li, 2011, Rice RING protein OsBBI1 with E3 ligase activity confers broad-spectrum resistance against Magnaporthe oryzae by modifying the cell wall defence, Cell Res., 21, 835, 10.1038/cr.2011.4 Loschelder, 2006, Dual temporal role of plastid sigma factor 6 in Arabidopsis development, Plant Physiol., 142, 642, 10.1104/pp.106.085878 Moon, 2008, PIF1 directly and indirectly regulates chlorophyll biosynthesis to optimize the greening process in Arabidopsis, Proc. Natl. Acad. Sci. USA, 105, 9433, 10.1073/pnas.0803611105 Mullet, 1988, Chloroplast development and gene expression, Annu. Rev. Plant Physiol. Plant Mol. Biol., 39, 475, 10.1146/annurev.pp.39.060188.002355 Pogson, 2011, Genetic dissection of chloroplast biogenesis and development: an overview, Plant Physiol., 155, 1545, 10.1104/pp.110.170365 Prohaska, 2014, The multifaceted roles of RNA binding in APOBEC cytidine deaminase functions, Wiley Interdiscip. Rev. RNA, 10.1002/wrna.1226 Pyo, 2013, Seedling Lethal1, a pentatricopeptide repeat protein lacking an E/E+ or DYW domain in Arabidopsis, is involved in plastid gene expression and early chloroplast development, Plant Physiol., 163, 1844, 10.1104/pp.113.227199 Sakamoto, 2008, Chloroplast biogenesis: control of plastid development, protein import, division and inheritance, Arabidopsis Book, 6, e0110, 10.1199/tab.0110 Sakuraba, 2013, The rice faded green leaf locus encodes protochlorophyllide oxidoreductase B and is essential for chlorophyll synthesis under high light conditions, Plant J., 74, 122, 10.1111/tpj.12110 Sargent, 1987, Imbalanced deoxyribonucleoside triphosphate pools and spontaneous mutation rates determined during dCMP deaminase-defective bacteriophage T4 infections, J. Biol. Chem., 262, 5546, 10.1016/S0021-9258(18)45607-4 Stephenson, 2009, PIF3 is a repressor of chloroplast development, Proc. Natl. Acad. Sci. USA, 106, 7654, 10.1073/pnas.0811684106 Su, 2012, Disruption of a rice pentatricopeptide repeat protein causes a seedling-specific albino phenotype and its utilization to enhance seed purity in hybrid rice production, Plant Physiol., 159, 227, 10.1104/pp.112.195081 Sugimoto, 2007, The rice nuclear gene, VIRESCENT 2, is essential for chloroplast development and encodes a novel type of guanylate kinase targeted to plastids and mitochondria, Plant J., 52, 512, 10.1111/j.1365-313X.2007.03251.x Sugimoto, 2004, The virescent-2 mutation inhibits translation of plastid transcripts for the plastid genetic system at an early stage of chloroplast differentiation, Plant Cell Physiol., 45, 985, 10.1093/pcp/pch111 Swiatecka-Hagenbruch, 2008, Impaired function of the phage-type RNA polymerase RpoTp in transcription of chloroplast genes is compensated by a second phage-type RNA polymerase, Nucleic Acids Res., 36, 785, 10.1093/nar/gkm1111 Takenaka, 2013, RNA editing in plants and its evolution, Annu. Rev. Genet., 47, 335, 10.1146/annurev-genet-111212-133519 Vincenzetti, 1999, Cloning, expression, and purification of cytidine deaminase from Arabidopsis thaliana, Protein Expr. Purif., 15, 8, 10.1006/prep.1998.0959 Wu, 2007, A chlorophyll-deficient rice mutant with impaired chlorophyllide esterification in chlorophyll biosynthesis, Plant Physiol., 145, 29, 10.1104/pp.107.100321 Yoo, 2009, Rice virescent3 and stripe1 encoding the large and small subunits of ribonucleotide reductase are required for chloroplast biogenesis during early leaf development, Plant Physiol., 150, 388, 10.1104/pp.109.136648 Zhang, 2006, Rice Chlorina-1 and Chlorina-9 encode ChlD and ChlI subunits of Mg-chelatase, a key enzyme for chlorophyll synthesis and chloroplast development, Plant Mol. Biol., 62, 325, 10.1007/s11103-006-9024-z