Paterson AH, Schertz KF, Lin YR, Liu SC, Chang YL: The weediness of wild plants: molecular analysis of genes influencing dispersal and persistence of johnsongrass, Sorghum halepense (L.) Pers. Proc Natl Acad Sci USA. 1995, 92: 6127-6131. 10.1073/pnas.92.13.6127.
Article
PubMed
PubMed Central
Google Scholar
Jang CS, Kamps TL, Skinner DN, Schulze SR, Vencill WK, Paterson AH: Functional classification, genomic organization, putatively cis-acting regulatory elements, and relationship to quantitative trait loci, of sorghum genes with rhizome-enriched expression. Plant Physiology. 2006, 142: 1148-1159. 10.1104/pp.106.082891.
Article
PubMed
PubMed Central
Google Scholar
Tao D, Hu F, Yang Y, Xu P, Li J, Wen G, Sacks E, McNally K, Sripichitt P: Rhizomatous individual was obtained from interspecific BC2F1 progenies between Oryza sativa and Oryza longistaminata. Rice Genet Newsl. 2001, 18: 11-13.
Google Scholar
Sacks EJ, Dhanapala MP, Tao DY, St Cruz MT, Sallan R: Breeding for perennial growth and fertility in an Oryza sativa/O. longistaminata population. Field Crop Research. 2006, 95 (1): 39-48. 10.1016/j.fcr.2005.01.021.
Article
Google Scholar
Sacks EJ, Schmit V, McNally KL, Sta Cruz MT: Fertility in an interspecific rice population and its effect on selection for rhizome length. Field Crops Research. 2006, 95 (1): 30-38. 10.1016/j.fcr.2005.01.026.
Article
Google Scholar
Ghesquiere A: Evolution of Oryza longistaminata. Rice Genetics. International Rice Research Institute (IRRI). Los Banos, Philippines; 1985,15-27.
Google Scholar
Vaughan DA: The wild relatives of Rice. A genetic resources handbook. IRRI, Manila, Philippines; 1994, 46-47.
Google Scholar
Ghesquiere A: Re-examination of genetic control of the reproductive barrier between Oryza longistaminata and O. sativa and relationship with rhizome expression. Edited by: Khush GS. Rice Genetics II. International Rice Research Institute (IRRI). Los Banos, Philippines; 1991, 729-730.
Google Scholar
Ghesquiere A, Causse M: Linkage study between molecular markers and genes controlling the reproductive barrier in interspecific backcross between O. sativa and O. longistaminata. RGN. 1992, 9: 28-31.
Google Scholar
Maekawa M, Inukai T, Rikiishi K, Matsuura T, Govidaraj KG: Inheritance of the rhizomatous traits in hybrid of Oryza longistaminata Chev. et Roehr. and O. sativa L. SABRAO J Breeding Genet. 1998, 30: 69-72.
Google Scholar
Hu FY, Tao DY, Sacks E, Fu BY, Xu P, Li J, Yang Y, McNally K, Khush GS, Paterson AH, Li ZK: Covergent evolution of perenniality in rice and sorghum. Proc Natl Acad Sci USA. 2003, 100 (7): 4050-4054. 10.1073/pnas.0630531100.
Article
PubMed
PubMed Central
Google Scholar
Gizmawy I, Kigel J, Koller D, Ofir M: Initiation, orientation and early development of primary rhizomes in Sorghum halepense (L.) Pers. Annals of Botany. 1985, 55: 343-350.
Google Scholar
Li XY, Qian Q, Fu ZM, Wang YH, Xiong GS, Zeng DL, Wang XQ, Liu XF, Teng S, Hiroshi F, Yuan M, Luo D, Han B, Li JY: Control of tillering in rice. Nature. 2003, 422: 618-621. 10.1038/nature01518.
Article
PubMed
Google Scholar
Takeda T, Suwa Y, Suzuki M, Kitano H, Ueguchi-Tanaka M, Ashikari M, Matsuoka M, Ueguchi C: The OsTB1 gene negatively regulates lateral branching in rice. Plant J. 2003, 33: 513-520. 10.1046/j.1365-313X.2003.01648.x.
Article
PubMed
Google Scholar
Komatsu K, Maekawa M, Ujiie S, Satake Y, Furutani I, Okamoto H, Shimamoto K, Kyozuka J: LAX and SPA: Major regulators of shoot branching in rice. Proc Natl Acad Sci USA. 2003, 100 (20): 11765-11770. 10.1073/pnas.1932414100.
Article
PubMed
PubMed Central
Google Scholar
Oikawa T, Kyozuka J: Two-step regulation of LAX PANICLE1 protein accumulation in axillary meristem formation in rice. The Plant Cell. 2009, 21: 1095-1108. 10.1105/tpc.108.065425.
Article
PubMed
PubMed Central
Google Scholar
Lin H, Wang R, Qian Q, Yan M, Meng X, Fu Z, Yan C, Jiang B, Su Z, Li J, Wang Y: DWARF27, an iron-containing protein required for the biosynthesis of strigolactones, regulates rice tiller bud outgrowth. Plant Cell. 2009, 21: 1512-1525. 10.1105/tpc.109.065987.
Article
PubMed
PubMed Central
Google Scholar
IRGSP: The map-based sequence of the rice genome. Nature. 2005, 436: 793-800. 10.1038/nature03895.
Article
Google Scholar
Walia H, Wilson C, Condamine P, Liu X, Ismail AM, Zeng L, Wanamaker SI, Mandal J, Xu J, Cui X, Close TJ: Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol. 2005, 139: 822-835. 10.1104/pp.105.065961.
Article
PubMed
PubMed Central
Google Scholar
Shimono M, Sugano S, Nakayama A, Jiang CJ, Ono K, Toki S, Takatsuji H: Rice WRKY45 plays a crucial role in benzothiadiazole-inducible blast resistance. Plant Cell. 2007, 19: 2064-2076. 10.1105/tpc.106.046250.
Article
PubMed
PubMed Central
Google Scholar
Jung KH, Dardick C, Bartley LE, Cao P, Phetsom J, Canlas P, Seo YS, Shultz M, Ouyang S, Yuan QP, Frank BC, Ly E, Zheng L, Jia Y, Hsia AP, An K, Chou HH, Rocke D, Lee GC, Schnable PS, An G, Buell CR, Ronald PC: Refinement of light-responsive transcript lists using rice oligonucleotide arrays: evaluation of gene-redundancy. PLoS ONE. 2008, 3 (10): e3337-10.1371/journal.pone.0003337.
Article
PubMed
PubMed Central
Google Scholar
Jung KH, Han MJ, Lee YS, Kim YW, Hwang I, Kim MJ, Kim YK, Nahm BH, An G: Rice undeveloped tapetum1 is a major regulator of early tapetum development. Plant Cell. 2005, 17: 2705-2722. 10.1105/tpc.105.034090.
Article
PubMed
PubMed Central
Google Scholar
Ma L, Chen C, Liu X, Jiao Y, Su N, Li L, Wang X, Cao M, Sun N, Zhang X, Bao J, Li J, Pedersen S, Bolund L, Zhao H, Yuan L, Wong GK, Wang J, Deng XW, Wang J: A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. Genome Res. 2005, 15: 1274-1283. 10.1101/gr.3657405.
Article
PubMed
PubMed Central
Google Scholar
Jiao Y, Tausta SL, Gandotra N, Sun N, Liu T, Clay NK, Ceserani T, Chen M, Ma L, Holford M, Zhang HY, Zhao H, Deng XW, Nelson T: A transcriptome atlas of rice cell types uncovers cellular, functional and developmental hierarchies. Nat Genet. 2009, 41 (2): 258-63. 10.1038/ng.282.
Article
PubMed
Google Scholar
Furutani I, Sukegawa S, Kyozuka J: Genome-wide analysis of spatial and temporal gene expression in rice panicle development. Plant J. 2006, 46 (3): 503-11. 10.1111/j.1365-313X.2006.02703.x.
Article
PubMed
Google Scholar
Zhou J, Wang X, Jiao Y, Qin Y, Liu X, He K, Chen C, Ma L, Wang J, Xiong L, Zhang Q, Fan L, Deng XW: Global genome expression analysis of rice in response to drought and high-salinity stresses in shoot, flag leaf, and panicle. Plant Mol Biol. 2007, 63 (5): 591-608. 10.1007/s11103-006-9111-1.
Article
PubMed
PubMed Central
Google Scholar
Su N, He K, Jiao Y, Chen C, Zhou J, Li L, Bai S, Li X, Deng XW: Distinct reorganization of the genome transcription associates with organogenesis of somatic embryo, shoots, and roots in rice. Plant Mol Biol. 2007, 63 (3): 337-49. 10.1007/s11103-006-9092-0.
Article
PubMed
Google Scholar
Hobo T, Suwabe K, Aya K, Suzuki G, Yano K, Ishimizu Ti, Fujita M, Kikuchi S, Hamada K, Miyano M, Fujioka T, Kaneko F, Kazama T, Mizuta Y, Takahashi H, Shiono K, Nakazono M, Tsutsumi N, Nagamura Y, Kurata N, Watanabe M, Matsuoka M: Various spatiotemporal expression profiles of anther-expressed genes in rice. Plant Cell Physiol. 2008, 49 (10): 1417-1428. 10.1093/pcp/pcn128.
Article
PubMed
PubMed Central
Google Scholar
Munekage Y, Hojo M, Meurer J, Endo T, Tasaka M, Shikanai T: PGR5 is involved in cyclic electron flow around photosystem I and is essential for photoprotection in arabidopsis. Cell. 2002, 110 (3): 361-371. 10.1016/S0092-8674(02)00867-X.
Article
PubMed
Google Scholar
Inada S, Ohgishi M, Mayama T, Okada K, Sakai T: RPT2 is a signal transducer involved in phototropic response and stomatal opening by association with phototropin 1 in Arabidopsis thaliana. Plant Cell. 2004, 16 (4): 887-896. 10.1105/tpc.019901.
Article
PubMed
PubMed Central
Google Scholar
Kim WY, Hicks KA, Somers DE: Independent roles for EARLY FLOWERING 3 and ZEITLUPE in the control of circadian timing, hypocotyl length, and flowering time. Plant Physiology. 2005, 139: 1557-1569. 10.1104/pp.105.067173.
Article
PubMed
PubMed Central
Google Scholar
Mizoguchi T, Coupand G: ZEITLUPE and FKF1: novel connections between flowering time and circadian clock control. Trends Plant Sci. 2000, 5 (10): 409-411. 10.1016/S1360-1385(00)01747-7.
Article
PubMed
Google Scholar
Iwakawa H, Ueno Y, Semiarti E, Onouchi H, Kojima S, Tsukaya H, Hasebe M, Soma T, Ikezaki M, Machida C, Machida Y: The ASYMMETRIC LEAVES2 gene of Arabidopsis thaliana, required for formation of a symmetric flat leaf lamina, encodes a member of a novel family of proteins characterized by cysteine repeats and a leucine zipper. Plant Cell Physiol. 2002, 43 (5): 467-78. 10.1093/pcp/pcf077.
Article
PubMed
Google Scholar
Cardon G, Hohmann S, Klein J, Nettesheim K, Saedler H, Huijser P: Molecular characterization of the Arabidopsis SBP-box genes. Gene. 1999, 237 (1): 91-104. 10.1016/S0378-1119(99)00308-X.
Article
PubMed
Google Scholar
Kyozuka J, Konishi S, Nemoto K, Izawa T, Shimamoto K: Down-regulation of RFL, the FLO/LFY homolog of rice, accompanied with panicle branch initiation. Proc Natl Acad Sci USA. 1998, 95: 1979-1982. 10.1073/pnas.95.5.1979.
Article
PubMed
PubMed Central
Google Scholar
Choi D, Kim JH, Kende H: Whole genome analysis of the OsGRF gene family encoding plant-specific putative transcription activators in rice (Oryza sativa L.). Plant Cell Physiol. 2004, 45 (7): 897-904. 10.1093/pcp/pch098.
Article
PubMed
Google Scholar
Koyama T, Furutani M, Tasaka M, Ohme-Takagi M: TCP transcription factors control the morphology of shoot lateral organs via negative regulation of the expression of boundary-specific genes in arabidopsis. The Plant Cell. 2007, 19: 473-484. 10.1105/tpc.106.044792.
Article
PubMed
PubMed Central
Google Scholar
Song Y, Wang L, Xiong L: Comprehensive expression profiling analysis of OsIAA gene family in developmental processes and in response to phytohormone and stress treatments. Planta. 2009, 229 (3): 577-91. 10.1007/s00425-008-0853-7.
Article
PubMed
Google Scholar
Lynn K, Fernandez A, Aida M, Sedbrook J, Tasaka M, Masson P, Barton MK: The PINHEAD/ZWILLE gene acts pleiotropically in Arabidopsis development and has overlapping functions with the ARGONAUTE1 gene. Development. 1999, 126: 469-481.
PubMed
Google Scholar
Moussian B, Schoof H, Haecker A, Juergens G, Laux T: Role of the ZWILLE gene in the regulation of central shoot meristem cell fate during Arabidopsis embryogenesis. EMBO J. 1998, 17: 1799-1809. 10.1093/emboj/17.6.1799.
Article
PubMed
PubMed Central
Google Scholar
Doukhanina EV, Chen S, van der Zalm E, Godzik A, Reed J, Dickman MB: Identification and functional characterization of the BAG protein family in Arabidopsis thaliana. J Biol Chem. 2006, 281 (27): 18793-801. 10.1074/jbc.M511794200.
Article
PubMed
Google Scholar
Hayward PS, Beveridge C, Leyser O: Interactions between auxin and strigolactone in shoot branching control. Plant Physiology. 2009, 151 (1): 400-412. 10.1104/pp.109.137646.
Article
PubMed
PubMed Central
Google Scholar
Zhao Y, Christensen SK, Fankhauser C, Cashman JR, Cohen JD, Weigel D, Chory J: A role for flavin monooxygenase-like enzymes in auxin biosynthesis. Science. 2001, 291 (5502): 306-309. 10.1126/science.291.5502.306.
Article
PubMed
Google Scholar
Hwang YS, Karrer EE, Thomas BR, Chen L, Rodriguez RL: Three cis-elements required for rice alpha-amylase Amy3D expression during sugar starvation. Plant Mol Biol. 1998, 36: 331-341. 10.1023/A:1005956104636.
Article
PubMed
Google Scholar
Brown RL, Kazan K, McGrath KC, Maclean DJ, Manners JM: A role for the GCC-box in jasmonate-mediated activation of the PDF1.2 gene of Arabidopsis. Plant Physiol. 2003, 132: 1020-1032. 10.1104/pp.102.017814.
Article
PubMed
PubMed Central
Google Scholar
Maruyama-Nakashita A, Nakamura Y, Watanabe-Takahashi A, Inoue E, Yamaya T, Takahashi H: Identification of a novel cis-acting element conferring sulfur deficiency response in Arabidopsis roots. Plant J. 2005, 42: 305-314. 10.1111/j.1365-313X.2005.02363.x.
Article
PubMed
Google Scholar
Planchais S, Perennes C, Glab N, Mironov V, Inze D, Bergounioux : Characterization of cis-acting element involved in cell cycle phase-independent activation of Arath; CycB1; 1 transcription and identification of putative regulatory proteins. Plant Mol Biol. 2002, 50: 111-127. 10.1023/A:1016018711532.
Article
PubMed
Google Scholar
Ezcurra I, Ellerstrom M, Wycliffe P, Stalberg K, Rask L: Interaction between composite elements in the napA promoter: both the B-box ABA-responsive complex and the RY/G complex are necessary for seed-specific expression. Plant Mol Biol. 1999, 40: 699-709. 10.1023/A:1006206124512.
Article
PubMed
Google Scholar
Plesch G, Ehrhardt T, Mueller-Roeber B: Involvement of TAAAG elements suggests a role for Dof transcription factors in guard cell-specific gene expression. Plant J. 2001, 28: 455-464. 10.1046/j.1365-313X.2001.01166.x.
Article
PubMed
Google Scholar
Glover JD: The necessity and possibility of perennial grain production system. Renewable Agriculture and Food Systems. 2005, 20 (1): 1-4. 10.1079/RAF200499.
Article
Google Scholar
Cox TS, Glover JD, Tassel DLV, Cox CM, Dehaan LR: Prospects for developing perennial grain crops. BioSciences. 2006, 56 (8): 649-658. 10.1641/0006-3568(2006)56[649:PFDPGC]2.0.CO;2.
Article
Google Scholar
Kano-Murakami Y, Yanai T, Tagiri A, Matsuoka M: A rice homeotic gene, OSH1, causes unusual phenotypes in transgenic tobacco. FEBS Letter. 1993, 334 (3): 365-368. 10.1016/0014-5793(93)80713-5.
Article
Google Scholar
Sato Y, Hong SK, Tagiri A, Kitano H, Yamamoto N, Nagato Y, Matsuoka M: A rice homeobox gene, OSH1, is expressed before organ differentiation in a specific region during early embryogenesis. Proc Natl Acad Sci USA. 1996, 93 (15): 8117-8122. 10.1073/pnas.93.15.8117.
Article
PubMed
PubMed Central
Google Scholar
Kusaba S, Kano-Murakami Y, Matsuoka M, Tamaoki M, Sakamoto T, Yamaguchi I, Fukumoto M: Alteration of hormone levels in transgenic tobacco plants overexpressing the rice homeobox gene OSH1. Plant Physiol. 1998, 116: 471-476. 10.1104/pp.116.2.471.
Article
PubMed
PubMed Central
Google Scholar
Li C, Potuschak T, Colón-Carmona A, Gutiérrez RA, Doerner P: Arabidopsis TCP20 links regulation of growth and cell division control pathways. Proc Natl Acad Sci USA. 2005, 102 (36): 12978-83. 10.1073/pnas.0504039102.
Article
PubMed
PubMed Central
Google Scholar
Bowman JL: The YABBY gene family and abaxial cell fate. Curr Opin Plant Biol. 2000, 3: 17-22. 10.1016/S1369-5266(99)00035-7.
Article
PubMed
Google Scholar
Bowman JL, Eshed Y, Baum SF: Establishment of polarity in angiosperm lateral organs. Trends Genet. 2002, 18: 134-41. 10.1016/S0168-9525(01)02601-4.
Article
PubMed
Google Scholar
Burgeff C, Liljegren SJ, Tapia-López R, Yanofsky MF, Alvarez-Buylla ER: MADS-box gene expression in lateral primordia, meristems and differentiated tissues of Arabidopsis thaliana roots. Planta. 2002, 214 (3): 365-72. 10.1007/s004250100637.
Article
PubMed
Google Scholar
Tapia-López R, García-Ponce B, Dubrovsky JG, Garay-Arroyo A, Pérez-Ruíz RV, Kim SH, Acevedo F, Pelaz S, Alvarez-Buylla ER: An AGAMOUS-related MADS-box gene, XAL1 (AGL12), regulates root meristem cell proliferation and flowering transition in Arabidopsis. Plant physiology. 2008, 146 (3): 1182-92.
Article
PubMed
PubMed Central
Google Scholar
Lee Y, Kende H: Expression of expansin and expansin-like genes in deepwater rice. Plant Physiol. 2002, 130: 1396-1405. 10.1104/pp.008888.
Article
PubMed
PubMed Central
Google Scholar
Zhang S, Hu W, Wang L, Lin C, Cong B, Sun C, Luo D: TFL1/CEN-like genes control intercalary meristem activity and phase transition in rice. Plant Sciences. 2005, 168 (6): 1393-1408. 10.1016/j.plantsci.2004.10.022.
Article
Google Scholar
Kaur P, Mott IW, Larson SR, Bushman BS, Kim RW, Hernandez AG, Liu L, Mikel MA: Gene expression polymorphisms and ESTs associated with gravitropic response of subterranean branch meristem and growth habit in Leymus wildryes. Plant sciences. 2008, 175: 330-338. 10.1016/j.plantsci.2008.05.004.
Article
Google Scholar
Tian C, Muto H, Higuchi K, Matamura T, Tatematsu K, Koshiba T, Yamamoto KT: Disruption and overexpression of auxin response factor 8 gene of Arabidopsis affect hypocotyl elongation and root growth habit, indicating its possible involvement in auxin homeostasis in light condition. Plant J. 2004, 40 (3): 333-43. 10.1111/j.1365-313X.2004.02220.x.
Article
PubMed
Google Scholar
Friml J, Wisniewska J, Benkova E, Mendgen K, Palme K: Lateral relocation of auxin efflux regulator PIN3 mediates tropism in Arabidopsis. Nature. 2002, 415: 806-809.
Article
PubMed
Google Scholar
Thomas SG, Phillips AL, Hedden P: Molecular cloning and functional expression of gibberellin 2-oxidases, multifunctional enzymes involved in gibberellin deactivation. Proc Natl Acad Sci USA. 1999, 96: 4698-4703. 10.1073/pnas.96.8.4698.
Article
PubMed
PubMed Central
Google Scholar
Dong C, Thomas S, Becker D, Lorz H, Whitford R, Sutton T, Able JA, Langridge P: WM5: Isolation and characterisation of a gene expressed during early meiosis and shoot meristem development in wheat. Functional plant biology. 2005, 32 (3): 249-258. 10.1071/FP04198.
Article
Google Scholar
Cassab GI: Plant cell wall proteins. Annual Review of Plant Physiology and Plant Molecular Biology. 1998, 49: 281-309. 10.1146/annurev.arplant.49.1.281.
Article
PubMed
Google Scholar
Farrokhi N, Burton RA, Brownfield L, Hrmova M, Wilson SM, Bacic A, Fincher GB: Plant cell wall biosynthesis: genetic, biochemical and functional genomics approaches to the identification of key genes. Plant Biotechnology Journal. 2005, 4 (2): 145-167. 10.1111/j.1467-7652.2005.00169.x.
Article
Google Scholar
Yeats TH, Rose JK: The biochemistry and biology of extracellular plant lipid-transfer proteins (LTPs). Protein Sci. 2008, 17: 191-198. 10.1110/ps.073300108.
Article
PubMed
PubMed Central
Google Scholar
Sreenivasulu N, Radchuk V, Strickert M, Miersch O, Weschke W, Wobus U: Gene expression patterns reveal tissue-specific signaling networks controlling programmed cell death and ABA- regulated maturation in developing barley seeds. Plant J. 2006, 47 (2): 310-27. 10.1111/j.1365-313X.2006.02789.x.
Article
PubMed
Google Scholar
Yanagisawa S: The Dof family of plant transcription factors. Trends in Plant Science. 2002, 7 (12): 555-560. 10.1016/S1360-1385(02)02362-2.
Article
PubMed
Google Scholar
Fang Y, You J, Xie K, Xie W, Xiong L: Systematic sequence analysis and identification of tissue-specific or stress-responsive genes of NAC transcription factor family in rice. Mol Genet Genomics. 2008, 280 (6): 547-63. 10.1007/s00438-008-0386-6.
Article
PubMed
Google Scholar
Sun BG, Firtel RA: A regulator of G protein signaling-containing kinase is important for chemotaxis and multicellular development in Dictyostelium. Mol Biol Cell. 2003, 14 (4): 1727-1743. 10.1091/mbc.E02-08-0550.
Article
PubMed
PubMed Central
Google Scholar
Choi D, Lee Y, Cho HT, Kende H: Regulation of expansin gene expression affects growth and development in transgenic rice plants. The Plant Cell. 2002, 15: 1386-1398.
Article
Google Scholar
Wang Z, Xie WQ, Chi F, Li CF: Identification of non-specific lipid transfer protein-1 as a calmodulin-binding protein in Arabidopsis. FEBS Letter. 2005, 579 (7): 1683-1687. 10.1016/j.febslet.2005.02.024.
Article
Google Scholar
Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Mehboob-ur-Rahman , Ware D, Westhoff P, Mayer KF, Messing J, Rokhsar DS: The Sorghum bicolor genome and the diversification of grasses. Nature. 2009, 457 (7229): 551-556. 10.1038/nature07723.
Article
PubMed
Google Scholar