The rice HGW gene encodes a ubiquitin-associated (UBA) domain protein that regulates heading date and grain weight

PLoS ONE

Volumn 7, Issue 3, 2012, Pages

  Li, Juan ^a   Chu, Huangwei ^b   Zhang, Yonghong ^a   Mou, Tongmin ^a   Wu, Changyin ^a   Zhang, Qifa ^a   Xu, Jian ^a,b  

^a HUAZHONG AGRICULTURAL UNIVERSITY   (China)

^b NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

HEADING AND GRAIN WEIGHT PROTEIN; UNCLASSIFIED DRUG; VEGETABLE PROTEIN; UBIQUITIN;

AGRONOMIC TRAIT; ARABIDOPSIS; ARTICLE; CELL COUNT; CONTROLLED STUDY; GENE EXPRESSION; GENE MUTATION; GRAIN WEIGHT; HEADING DATE; HEMIZYGOSITY; HGW GENE; MOLECULAR CLONING; MUTANT; NONHUMAN; NUCLEOTIDE SEQUENCE; PALEA; PHENOTYPE; PLANT GENE; PLANT LEMMA; PROTEIN FUNCTION; PROTEIN LOCALIZATION; RICE; SPIKELET; UBIQUITINATION; AMINO ACID SEQUENCE; GENETICS; METABOLISM; MOLECULAR GENETICS; SEQUENCE HOMOLOGY;

ARABIDOPSIS; PALEA;

AMINO ACID SEQUENCE; GENES, PLANT; MOLECULAR SEQUENCE DATA; ORYZA SATIVA; SEQUENCE HOMOLOGY, AMINO ACID; UBIQUITIN;

EID: 84863374400     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0034231     Document Type: Article

References (50)

1. Zhang Q, (2007) Strategies for developing Green Super Rice. Proc Natl Acad Sci U S A 104: 16402-16409.
2. Zhang Q, Li J, Xue Y, Han B, Deng XW, (2008) Rice 2020: A Call For An International Coordinated Effort In Rice Functional Genomics. Mol Plant 1: 715-719.
3. Xing Y, Zhang Q, (2010) Genetic and Molecular Basis of Rice Yield. Annual Review of Plant Biology 61.
4. Tsuji H, Taoka KI, Shimamoto K, (2010) Regulation of flowering in rice: two florigen genes, a complex gene network, and natural variation. Curr Opin Plant Biol.
5. Yano M, Katayose Y, Ashikari M, Yamanouchi U, Monna L, et al. (2000) Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. Plant Cell 12: 2473-2484.
6. Izawa T, Oikawa T, Sugiyama N, Tanisaka T, Yano M, et al. (2002) Phytochrome mediates the external light signal to repress FT orthologs in photoperiodic flowering of rice. Genes Dev 16: 2006-2020.
7. Izawa T, (2007) Adaptation of flowering-time by natural and artificial selection in Arabidopsis and rice. J Exp Bot 58: 3091-3097.
8. Kojima S, Takahashi Y, Kobayashi Y, Monna L, Sasaki T, et al. (2002) Hd3a, a rice ortholog of the Arabidopsis FT gene, promotes transition to flowering downstream of Hd1 under short-day conditions. Plant Cell Physiol 43: 1096-1105.
9. Tamaki S, Matsuo S, Wong HL, Yokoi S, Shimamoto K, (2007) Hd3a protein is a mobile flowering signal in rice. Science 316: 1033-1036.
10. Komiya R, Ikegami A, Tamaki S, Yokoi S, Shimamoto K, (2008) Hd3a and RFT1 are essential for flowering in rice. Development 135: 767-774.
11. Hayama R, Yokoi S, Tamaki S, Yano M, Shimamoto K, (2003) Adaptation of photoperiodic control pathways produces short-day flowering in rice. Nature 422: 719-722.
12. Tseng TS, Salome PA, McClung CR, Olszewski NE, (2004) SPINDLY and GIGANTEA interact and act in Arabidopsis thaliana pathways involved in light responses, flowering, and rhythms in cotyledon movements. Plant Cell 16: 1550-1563.
13. Doi K, Izawa T, Fuse T, Yamanouchi U, Kubo T, et al. (2004) Ehd1, a B-type response regulator in rice, confers short-day promotion of flowering and controls FT-like gene expression independently of Hd1. Genes Dev 18: 926-936.
14. Xue W, Xing Y, Weng X, Zhao Y, Tang W, et al. (2008) Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice. Nat Genet 40: 761-767.
15. Wu C, You C, Li C, Long T, Chen G, et al. (2008) RID1, encoding a Cys2/His2-type zinc finger transcription factor, acts as a master switch from vegetative to floral development in rice. Proc Natl Acad Sci U S A 105: 12915-12920.
16. Matsubara K, Yamanouchi U, Wang ZX, Minobe Y, Izawa T, et al. (2008) Ehd2, a rice ortholog of the maize INDETERMINATE1 gene, promotes flowering by up-regulating Ehd1. Plant Physiol 148: 1425-1435.
17. Colasanti J, Yuan Z, Sundaresan V, (1998) The indeterminate gene encodes a zinc finger protein and regulates a leaf-generated signal required for the transition to flowering in maize. Cell 93: 593-603.
18. Fan C, Xing Y, Mao H, Lu T, Han B, et al. (2006) GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theor Appl Genet 112: 1164-1171.
19. Mao H, Sun S, Yao J, Wang C, Yu S, et al. (2010) Linking differential domain functions of the GS3 protein to natural variation of grain size in rice. Proc Natl Acad Sci U S A 107: 19579-19584.
20. Song XJ, Huang W, Shi M, Zhu MZ, Lin HX, (2007) A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat Genet 39: 623-630.
21. Shomura A, Izawa T, Ebana K, Ebitani T, Kanegae H, et al. (2008) Deletion in a gene associated with grain size increased yields during rice domestication. Nat Genet 40: 1023-1028.
22. Weng J, Gu S, Wan X, Gao H, Guo T, et al. (2008) Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight. Cell Res 18: 1199-1209.
23. Wang E, Wang J, Zhu X, Hao W, Wang L, et al. (2008) Control of rice grain-filling and yield by a gene with a potential signature of domestication. Nat Genet 40: 1370-1374.
24. Wu C, Li X, Yuan W, Chen G, Kilian A, et al. (2003) Development of enhancer trap lines for functional analysis of the rice genome. Plant J 35: 418-427.
25. Yoshida S, (1981) Fundamentals of rice crop science Manila Int. Rice Res. Inst. (IRRI).
26. Zhang J, Guo D, Chang Y, You C, Li X, et al. (2007) Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13 804 T-DNA flanking sequences from an enhancer-trap mutant library. Plant J 49: 947-959.
27. Hofmann K, Bucher P, (1996) The UBA domain: a sequence motif present in multiple enzyme classes of the ubiquitination pathway. Trends Biochem Sci 21: 172-173.
28. Crooks GE, Hon G, Chandonia JM, Brenner SE, (2004) WebLogo: a sequence logo generator. Genome Res 14: 1188-1190.
29. Funakoshi M, Sasaki T, Nishimoto T, Kobayashi H, (2002) Budding yeast Dsk2p is a polyubiquitin-binding protein that can interact with the proteasome. Proc Natl Acad Sci USA 99: 745-750.
30. Farmer LM, Book AJ, Lee KH, Lin YL, Fu H, et al. (2010) The RAD23 family provides an essential connection between the 26S proteasome and ubiquitylated proteins in Arabidopsis. Plant Cell 22: 124-142.
31. Lin YL, Sung SC, Tsai HL, Yu TT, Radjacommare R, et al. (2011) The defective proteasome but not substrate recognition function is responsible for the null phenotypes of the Arabidopsis proteasome subunit RPN10. Plant Cell 23: 2754-2773.
32. Jin JB, Kim YA, Kim SJ, Lee SH, Kim DH, et al. (2001) A new dynamin-like protein, ADL6, is involved in trafficking from the trans-Golgi network to the central vacuole in Arabidopsis. Plant Cell 13: 1511-1526.
33. Xu J, Scheres B, (2005) Dissection of Arabidopsis ADP-RIBOSYLATION FACTOR 1 function in epidermal cell polarity. Plant Cell 17: 525-536.
34. Lee MH, Min MK, Lee YJ, Jin JB, Shin DH, et al. (2002) ADP-ribosylation factor 1 of Arabidopsis plays a critical role in intracellular trafficking and maintenance of endoplasmic reticulum morphology in Arabidopsis. Plant Physiol 129: 1507-1520.
35. Jin JB, Bae H, Kim SJ, Jin YH, Goh CH, et al. (2003) The Arabidopsis dynamin-like proteins ADL1C and ADL1E play a critical role in mitochondrial morphogenesis. Plant Cell 15: 2357-2369.
36. Wang L, Xie W, Chen Y, Tang W, Yang J, et al. (2010) A dynamic gene expression atlas covering the entire life cycle of rice. Plant J 61: 752-766.
37. Voges D, Zwickl P, Baumeister W, (1999) The 26S proteasome: a molecular machine designed for controlled proteolysis. Annu Rev Biochem 68: 1015-1068.
38. Todd I, Radford PM, Draper-Morgan KA, McIntosh R, Bainbridge S, et al. (2004) Mutant forms of tumour necrosis factor receptor I that occur in TNF-receptor-associated periodic syndrome retain signalling functions but show abnormal behaviour. Immunology 113: 65-79.
39. McNellis TW, von Arnim AG, Araki T, Komeda Y, Misera S, et al. (1994) Genetic and molecular analysis of an allelic series of cop1 mutants suggests functional roles for the multiple protein domains. Plant Cell 6: 487-500.
40. Jang S, Marchal V, Panigrahi KC, Wenkel S, Soppe W, et al. (2008) Arabidopsis COP1 shapes the temporal pattern of CO accumulation conferring a photoperiodic flowering response. EMBO J 27: 1277-1288.
41. Liu LJ, Zhang YC, Li QH, Sang Y, Mao J, et al. (2008) COP1-mediated ubiquitination of CONSTANS is implicated in cryptochrome regulation of flowering in Arabidopsis. Plant Cell 20: 292-306.
42. Yu JW, Rubio V, Lee NY, Bai S, Lee SY, et al. (2008) COP1 and ELF3 control circadian function and photoperiodic flowering by regulating GI stability. Mol Cell 32: 617-630.
43. Tanaka N, Itoh H, Sentoku N, Kojima M, Sakakibara H, et al. (2011) The COP1 ortholog PPS regulates the juvenile-adult and vegetative-reproductive phase changes in rice. Plant Cell 23: 2143-2154.
44. Spitzer C, Schellmann S, Sabovljevic A, Shahriari M, Keshavaiah C, et al. (2006) The Arabidopsis elch mutant reveals functions of an ESCRT component in cytokinesis. Development 133: 4679-4689.
45. Kikuchi S, Satoh K, Nagata T, Kawagashira N, Doi K, et al. (2003) Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science 301: 376-379.
46. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948.
47. Mutwil M, Obro J, Willats WG, Persson S, (2008) GeneCAT: novel Webtools that combine BLAST and co-expression analyses. Nucleic Acids Res 36: W320-W326.
48. Bart R, Chern M, Park CJ, Bartley L, Ronald PC, (2006) 2 Plant Methods.
49. Sparkes IA, Runions J, Kearns A, Hawes C, (2006) Rapid, transient expression of fluorescent fusion proteins in tobacco plants and generation of stably transformed plants. Nat Protoc 1: 2019-2025.
50. Mou Z, He Y, Dai Y, Liu X, Li J, (2000) Deficiency in fatty acid synthase leads to premature cell death and dramatic alterations in plant morphology. Plant Cell 12: 405-418.