A Kelch domain-containing f-box coding gene negatively regulates flavonoid accumulation in muskmelon

Plant Physiology

Volumn 169, Issue 3, 2015, Pages 1714-1726

  Feder, Ari ^a,b   Burger, Joseph ^a   Gao, Shan ^c   Lewinsohn, Efraim ^a   Katzir, Nurit ^a   Schaffer, Arthur A ^a   Meir, Ayala ^a   Davidovich Rikanat, Rachel ^a   Portnoy, Vitaly ^a   Gal On, Amit ^a   Fei, Zhangjun ^c   Kashi, Yechezkel ^b   Tadmor, Yaakov ^a  

^a VOLCANI CENTER   (Israel)

^b TECHNION ISRAEL INSTITUTE OF TECHNOLOGY   (Israel)

^c United States Department of Agriculture Agricultural Research Service and Boyce Thompson Institute for Plant Research   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

1-PHENYLPROPANOL; CHALCONE DERIVATIVE; F BOX PROTEIN; FLAVONOID; NARINGENIN CHALCONE; PLANT PROTEIN; PROPANOL;

CYTOLOGY; DNA SEQUENCE; FRUIT; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE LOCUS; GENETICS; METABOLIC FLUX ANALYSIS; METABOLISM; MOLECULAR GENETICS; MUSKMELON; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENY; PLANT LEAF; SINGLE NUCLEOTIDE POLYMORPHISM;

BASE SEQUENCE; CHALCONES; CUCUMIS MELO; F-BOX PROTEINS; FLAVONOIDS; FRUIT; GENE EXPRESSION; GENE EXPRESSION REGULATION, PLANT; GENETIC LOCI; METABOLIC FLUX ANALYSIS; MOLECULAR SEQUENCE DATA; PHENOTYPE; PHYLOGENY; PLANT LEAVES; PLANT PROTEINS; POLYMORPHISM, SINGLE NUCLEOTIDE; PROPANOLS; SEQUENCE ANALYSIS, DNA;

EID: 84946204331     PISSN: 00320889     EISSN: 15322548     Source Type: Journal    
DOI: 10.1104/pp.15.01008     Document Type: Article

References (63)

1. Adato A, Mandel T, Mintz-Oron S, Venger I, Levy D, Yativ M, Domínguez E, Wang Z, De Vos RCH, Jetter R, et al (2009) Fruit-surface flavonoid accumulation in tomato is controlled by a SlMYB12-regulated transcriptional network. PLoS Genet 5: e1000777
2. Anders S, Huber W (2010) Differential expression analysis for sequence count data. Genome Biol 11: R106
3. Arazi T, Shiboleth YM, Gal-On A (2001) A nonviral peptide can replace the entire N terminus of zucchini yellow mosaic potyvirus coat protein and permits viral systemic infection. J Virol 75: 6329-6336
4. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B Met 57: 289-300
5. Besseau S, Hoffmann L, Geoffroy P, Lapierre C, Pollet B, Legrand M (2007) Flavonoid accumulation in Arabidopsis repressed in lignin synthesis affects auxin transport and plant growth. Plant Cell 19: 148-162
6. Burger Y, Paris HS, Cohen R, Katzir N, Tadmor Y, Lewinsohn E, Schaffer AA (2010) Genetic diversity of Cucumis melo. Hortic Rev 36: 165-198
7. Butelli E, Titta L, Giorgio M, Mock HP, Matros A, Peterek S, Schijlen EGWM, Hall RD, Bovy AG, Luo J, et al (2008) Enrichment of tomato fruit with health-promoting anthocyanins by expression of select transcription factors. Nat Biotechnol 26: 1301-1308
8. Cohen S, Itkin M, Yeselson Y, Tzuri G, Portnoy V, Harel-Baja R, Lev S, Sa’ar U, Davidovitz-Rikanati R, Baranes N, et al (2014) The PH gene determines fruit acidity and contributes to the evolution of sweet melons. Nat Commun 5: 4026
9. Deguchi A, Ohno S, Hosokawa M, Tatsuzawa F, Doi M (2013) Endogenous post-transcriptional gene silencing of flavone synthase resulting in high accumulation of anthocyanins in black dahlia cultivars. Planta 237: 1325-1335
10. De Vos RCH, Moco S, Lommen A, Keurentjes JJB, Bino RJ, Hall RD (2007) Untargeted large-scale plant metabolomics using liquid chromatography coupled to mass spectrometry. Nat Protoc 2: 778-791
11. Ehlting J, Büttner D, Wang Q, Douglas CJ, Somssich IE, Kombrink E (1999) Three 4-coumarate:coenzyme A ligases in Arabidopsis thaliana represent two evolutionarily divergent classes in angiosperms. Plant J 19: 9-20
12. Fornalé S, Shi X, Chai C, Encina A, Irar S, Capellades M, Fuguet E, Torres JL, Rovira P, Puigdomènech P, et al (2010) ZmMYB31 directly represses maize lignin genes and redirects the phenylpropanoid metabolic flux. Plant J 64: 633-644
13. Fu C, Wehr DR, Edwards J, Hauge B (2008) Rapid one-step recombinational cloning. Nucleic Acids Res 36: e54
14. Gagne JM, Downes BP, Shiu SH, Durski AM, Vierstra RD (2002) The F-box subunit of the SCF E3 complex is encoded by a diverse superfamily of genes in Arabidopsis. Proc Natl Acad Sci USA 99: 11519-11524
15. Gal-On A, Meiri E, Elman C, Gray DJ, Gaba V (1997) Simple hand-held devices for the efficient infection of plants with viral-encoding constructs by particle bombardment. J Virol Methods 64: 103-110
16. Garcia-Mas J, Benjak A, Sanseverino W, Bourgeois M, Mir G, González VM, Hénaff E, Câmara F, Cozzuto L, Lowy E, et al (2012) The genome of melon (Cucumis melo L.). Proc Natl Acad Sci USA 109: 11872-11877
17. Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA, Amit I, Adiconis X, Fan L, Raychowdhury R, Zeng Q, et al (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol 29: 644-652
18. Grosschedl R, Giese K, Pagel J (1994) HMG domain proteins: architectural elements in the assembly of nucleoprotein structures. Trends Genet 10: 94-100
19. Hamberger B, Hahlbrock K (2004) The 4-coumarate:CoA ligase gene family in Arabidopsis thaliana comprises one rare, sinapate-activating and three commonly occurring isoenzymes. Proc Natl Acad Sci USA 101: 2209-2214
20. Haribal M, Renwick JAA (1996) Oviposition stimulants for the monarch butterfly: flavonol glycosides from Asclepias curassavica. Phytochemistry 41: 139-144
21. Harpaz-Saad S, Azoulay T, Arazi T, Ben-Yaakov E, Mett A, Shiboleth YM, Hörtensteiner S, Gidoni D, Gal-On A, Goldschmidt EE, et al (2007) Chlorophyllase is a rate-limiting enzyme in chlorophyll catabolism and is posttranslationally regulated. Plant Cell 19: 1007-1022
22. Hartmann U, Sagasser M, Mehrtens F, Stracke R, Weisshaar B (2005) Differential combinatorial interactions of cis-acting elements recognized by R2R3-MYB, BZIP, and BHLH factors control light-responsive and tissue-specific activation of phenylpropanoid biosynthesis genes. Plant Mol Biol 57: 155-171
23. Ikeda Y, Kinoshita Y, Susaki D, Ikeda Y, Iwano M, Takayama S, Higashiyama T, Kakutani T, Kinoshita T (2011) HMG domain containing SSRP1 is required for DNA demethylation and genomic imprinting in Arabidopsis. Dev Cell 21: 589-596
24. Imperato F (1980) Five plants of the family Cucurbitaeeae with flavonoid patterns of pollens different from those of corresponding stigmas. Experientia 36: 1136-1137
25. Ischebeck T, Stenzel I, Hempel F, Jin X, Mosblech A, Heilmann I (2011) Phosphatidylinositol-4,5-bisphosphate influences Nt-Rac5-mediated cell expansion in pollen tubes of Nicotiana tabacum. Plant J 65: 453-468
26. Jin J, Cardozo T, Lovering RC, Elledge SJ, Pagano M, Harper JW (2004) Systematic analysis and nomenclature of mammalian F-box proteins. Genes Dev 18: 2573-2580
27. Jonkers W, Rep M (2009) Lessons from fungal F-box proteins. Eukaryot Cell 8: 677-695
28. Kim SH, Kang KA, Zhang R, Piao MJ, Ko DO, Wang ZH, Chae SW, Kang SS, Lee KH, Kang HK, et al (2008) Protective effect of esculetin against oxidative stress-induced cell damage via scavenging reactive oxygen species. Acta Pharmacol Sin 29: 1319-1326
29. Koes R, Verweij W, Quattrocchio F (2005) Flavonoids: a colorful model for the regulation and evolution of biochemical pathways. Trends Plant Sci 10: 236-242
30. Krauze-Baranowska M, Cisowski W (2001) Flavonoids from some species of the genus Cucumis. Biochem Syst Ecol 29: 321-324
31. Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25
32. Li H, Durbin R (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760
33. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup (2009) The Sequence Alignment/Map format and SAMtools. Bioinformatics 25: 2078-2079
34. Liu CJ, Cai Y, Zhang X, Gou M, Yang H (2014) Tailoring lignin biosynthesis for efficient and sustainable biofuel production. Plant Biotechnol J 12: 1154-1162
35. Liu S, Yeh CT, Tang HM, Nettleton D, Schnable PS (2012) Gene mapping via bulked segregant RNA-Seq (BSR-Seq). PLoS One 7: e36406
36. Mathelier A, Zhao X, Zhang AW, Parcy F, Worsley-Hunt R, Arenillas DJ, Buchman S, Chen CY, Chou A, Ienasescu H, et al (2014) JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles. Nucleic Acids Res 42: D142-D147
37. Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations. Proc Natl Acad Sci USA 88: 9828-9832
38. Mintz-Oron S, Mandel T, Rogachev I, Feldberg L, Lotan O, Yativ M, Wang Z, Jetter R, Venger I, Adato A, et al (2008) Gene expression and metabolism in tomato fruit surface tissues. Plant Physiol 147: 823-851
39. Mo Y, Nagel C, Taylor LP (1992) Biochemical complementation of chalcone synthase mutants defines a role for flavonols in functional pollen. Proc Natl Acad Sci USA 89: 7213-7217
40. Ou CY, Pi H, Chien CT (2003) Control of protein degradation by E3 ubiquitin ligases in Drosophila eye development. Trends Genet 19: 382-389
41. Pairoba CF, Walbot V (2003) Post-transcriptional regulation of expression of the Bronze2 gene of Zea mays L. Plant Mol Biol 53: 75-86
42. Petersen M, Hans J, Matern U (2010) Biosynthesis of phenylpropanoids and related compounds. Annu Plant Rev 40: 182-257
43. Pew JC (1948) A flavonone from Douglas-fir heartwood. J Am Chem Soc 70: 3031-3034
44. Pitrat M, Hanelt P, Hammer K (2000) Some comments on infraspecific classification of cultivars of melon. Acta Hortic 510: 29-36
45. Pizzi A, Cameron FA (1986) Flavonoid tannins - structural wood components for drought-resistance mechanisms of plants. Wood Sci Technol 20: 119-124
46. Portnoy V, Diber A, Pollock S, Karchi H, Lev S, Tzuri G, Harel-Beja R, Forer R, Portnoy VH, Lewinsohn E, et al (2011) Use of non-normalized, non-amplified cDNA for 454-based RNA-seq of fleshy melon fruit. Plant Genome 4: 36-46
47. Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2013) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41: D590-D596
48. Romano B, Pagano E, Montanaro V, Fortunato AL, Milic N, Borrelli F (2013) Novel insights into the pharmacology of flavonoids. Phytother Res 27: 1588-1596
49. Schumann N, Navarro-Quezada A, Ullrich K, Kuhl C, Quint M (2011) Molecular evolution and selection patterns of plant F-box proteins with C-terminal kelch repeats. Plant Physiol 155: 835-850
50. Shao T, Qian Q, Tang D, Chen J, Li M, Cheng Z, Luo Q (2012) A novel gene IBF1 is required for the inhibition of brown pigment deposition in rice hull furrows. Theor Appl Genet 125: 381-390
51. Stracke R, De Vos RCH, Bartelniewoehner L, Ishihara H, Sagasser M, Martens S, Weisshaar B (2009) Metabolomic and genetic analyses of flavonol synthesis in Arabidopsis thaliana support the in vivo involvement of leucoanthocyanidin dioxygenase. Planta 229: 427-445
52. Stracke R, Ishihara H, Huep G, Barsch A, Mehrtens F, Niehaus K, Weisshaar B (2007) Differential regulation of closely related R2R3-MYB transcription factors controls flavonol accumulation in different parts of the Arabidopsis thaliana seedling. Plant J 50: 660-677
53. Tadmor Y, Burger J, Yaakov I, Feder A, Libhaber SE, Portnoy V, Meir A, Tzuri G, Sa’ar U, Rogachev I, et al (2010) Genetics of flavonoid, carotenoid, and chlorophyll pigments in melon fruit rinds. J Agric Food Chem 58: 10722-10728
54. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30: 2725-2729
55. Tanaka Y, Uritani I (1977) Synthesis and turnover of phenylalanine ammonia-lyase in root tissue of sweet potatoe injured by cutting. Eur J Biochem 73: 255-260
56. Trick M, Adamski NM, Mugford SG, Jiang CC, Febrer M, Uauy C (2012) Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat. BMC Plant Biol 12: 14
57. Veitch NC, Grayer RJ (2008) Flavonoids and their glycosides, including anthocyanins. Nat Prod Rep 25: 555-611
58. Wasson AP, Pellerone FI, Mathesius U (2006) Silencing the flavonoid pathway in Medicago truncatula inhibits root nodule formation and prevents auxin transport regulation by rhizobia. Plant Cell 18: 1617-1629
59. Webster CI, Packman LC, Pwee KH, Gray JC (1997) High mobility group proteins HMG-1 and HMG-I/Y bind to a positive regulatory region of the pea plastocyanin gene promoter. Plant J 11: 703-715
60. Yuan Y, Wu C, Liu Y, Yang J, Huang L (2013) The Scutellaria baicalensis R2R3-MYB transcription factors modulates flavonoid biosynthesis by regulating GA metabolism in transgenic tobacco plants. PLoS One 8: e77275
61. Zhang X, Gou M, Guo C, Yang H, Liu CJ (2015) Down-regulation of Kelch domain-containing F-box protein in Arabidopsis enhances the production of (poly)phenols and tolerance to ultraviolet radiation. Plant Physiol 167: 337-350
62. Zhang X, Gou M, Liu CJ (2013) Arabidopsis Kelch repeat F-box proteins regulate phenylpropanoid biosynthesis via controlling the turnover of phenylalanine ammonia-lyase. Plant Cell 25: 4994-5010
63. Zheng Y, Zhao L, Gao J, Fei Z (2011) iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics 12: 453