Identification of genes associated with growth cessation and bud dormancy entrance using a dormancy-incapable tree mutant

BMC Plant Biology

Volumn 10, Issue , 2010, Pages

  Jiménez, Sergio ^a   Li, Zhigang ^a   Reighard, Gregory L ^a   Bielenberg, Douglas G ^a  

^a CLEMSON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PRUNUS; PRUNUS PERSICA;

PLANT DNA; PLANT RNA;

ARTICLE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE LIBRARY; GENETICS; GROWTH, DEVELOPMENT AND AGING; MUTATION; PHOTOPERIODICITY; PLANT GENE; PRUNUS; TREE;

DNA, PLANT; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENE LIBRARY; GENES, PLANT; MUTATION; PHOTOPERIOD; PRUNUS; RNA, PLANT; TREES;

EID: 77950948851     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-10-25     Document Type: Article

References (51)

1. Rohde A, Bhalerao RP. Plant dormancy in the perennial context. Trends in Plant Science 2007, 12(5):217-223. 10.1016/j.tplants.2007.03.012, 17416545.
2. Horvath DP, Anderson JV, Chao WS, Foley ME. Knowing when to grow: signals regulating bud dormancy. Trends in Plant Science 2003, 8(11):534-540. 10.1016/j.tplants.2003.09.013, 14607098.
3. Jackson SD. Plant responses to photoperiod. New Phytologist 2009, 181(3):517-531. 10.1111/j.1469-8137.2008.02681.x, 19154317.
4. Park S, Keathley DE, Han KH. Transcriptional profiles of the annual growth cycle in Populus deltoides. Tree Physiology 2008, 28(3):321-329.
5. Ruttink T, Arend M, Morreel K, Storme V, Rombauts S, Fromm J, Bhalerao RP, Boerjan W, Rohde A. A molecular timetable for apical bud formation and dormancy induction in poplar. Plant Cell 2007, 19(8):2370-2390. 10.1105/tpc.107.052811, 2002631, 17693531.
6. Schrader J, Moyle R, Bhalerao R, Hertzberg M, Lundeberg J, Nilsson P, Bhalerao RP. Cambial meristem dormancy in trees involves extensive remodelling of the transcriptome. The Plant Journal 2004, 40(2):173-187. 10.1111/j.1365-313X.2004.02199.x, 15447645.
7. Rohde A, Ruttink T, Hostyn V, Sterck L, Van Driessche K, Boerjan W. Gene expression during the induction, maintenance, and release of dormancy in apical buds of poplar. Journal of Experimental Botany 2007, 58(15-16):4047-4060. 10.1093/jxb/erm261, 18039739.
8. Yakovlev IA, Fossdal CG, Johnsen O, Junttila O, Skroppa T. Analysis of gene expression during bud burst initiation in Norway spruce via ESTs from subtracted cDNA libraries. Tree Genetics & Genomes 2006, 2(1):39-52.
9. Derory J, Leger P, Garcia V, Schaeffer J, Hauser MT, Salin F, Luschnig C, Plomion C, Glossl J, Kremer A. Transcriptome analysis of bud burst in sessile oak (Quercus petraea). New Phytologist 2006, 170(4):723-738. 10.1111/j.1469-8137.2006.01721.x, 16684234.
10. Jia Y, Anderson JV, Horvath DP, Gu YQ, Lym RG, Chao WS. Subtractive cDNA libraries identify differentially expressed genes in dormant and growing buds of leafy spurge (Euphorbia esula). Plant Molecular Biology 2006, 61(1-2):329-344. 10.1007/s11103-006-0015-x, 16786310.
11. Horvath DP, Anderson JV, Soto-Suarez M, Chao WS. Transcriptome analysis of leafy spurge (Euphorbia esula) crown buds during shifts in well-defined phases of dormancy. Weed Science 2006, 54(5):821-827.
12. Horvath DP, Chao WS, Suttle JC, Thimmapuram J, Anderson JV. Transcriptome analysis identifies novel responses and potential regulatory genes involved in seasonal dormancy transitions of leafy spurge (Euphorbia esula L.). BMC Genomics 2008, 9:17. 10.1186/1471-2164-9-536, 2257943, 18194535.
13. Mazzitelli L, Hancock RD, Haupt S, Walker PG, Pont SDA, McNicol J, Cardle L, Morris J, Viola R, Brennan R, et al. Co-ordinated gene expression during phases of dormancy release in raspberry (Rubus idaeus L.) buds. Journal of Experimental Botany 2007, 58(5):1035-1045. 10.1093/jxb/erl266, 17244630.
14. Mathiason K, He D, Grimplet J, Venkateswari J, Galbraith D, Or E, Fennell A. Transcript profiling in Vitis riparia during chilling requirement fulfillment reveals coordination of gene expression patterns with optimized bud break. Functional & Integrative Genomics 2009, 9(1):81-96. 10.1007/s10142-008-0090-y, 18633655.
15. Bassett CL, Wisniewski ME, Artlip TS, Norelli JL, Renaut J, Farrell RE. Global analysis of genes regulated by low temperature and photoperiod in peach bark. Journal of the American Society for Horticultural Science 2006, 131(4):551-563.
16. Yamane H, Kashiwa Y, Ooka T, Tao R, Yonemori K. Suppression subtractive hybridization and differential screening reveals endodormancy-associated expression of an SVP/AGL24 -type MADS-box gene in lateral vegetative buds of japanese apricot. Journal of the American Society for Horticultural Science 2008, 133(5):708-716.
17. Howe GT, Gardner G, Hackett WP, Furnier GR. Phytochrome control of short-day-induced bud set in black cottonwood. Physiologia Plantarum 1996, 97(1):95-103.
18. Böhlenius H, Huang T, Charbonnel-Campaa L, Brunner AM, Jansson S, Strauss SH, Nilsson O. CO/FT regulatory module controls timing of flowering and seasonal growth cessation in trees. Science 2006, 312(5776):1040-1043. 10.1126/science.1126038, 16675663.
19. Ruonala R, Rinne PLH, Baghour M, Moritz T, Tuominen H, Kangasjarvi J. Transitions in the functioning of the shoot apical meristem in birch (Betula pendula) involve ethylene. The Plant Journal 2006, 46(4):628-640. 10.1111/j.1365-313X.2006.02722.x, 16640599.
20. Rohde A, Prinsen E, De Rycke R, Engler G, Van Montagu M, Boerjan W. PtABI3 impinges on the growth and differentiation of embryonic leaves during bud set in poplar. Plant Cell 2002, 14(8):1885-1901. 10.1105/tpc.003186, 151472, 12172029.
21. Bielenberg DG, Wang Y, Li ZG, Zhebentyayeva T, Fan SH, Reighard GL, Scorza R, Abbott AG. Sequencing and annotation of the evergrowing locus in peach [Prunus persica (L.) Batsch] reveals a cluster of six MADS-box transcription factors as candidate genes for regulation of terminal bud formation. Tree Genetics & Genomes 2008, 4(8):495-507.
22. Rodriguez J, Sherman WB, Scorza R, Wisniewski M, Okie WR. 'Evergreen' peach, its inheritance and dormant behavior. Journal of the American Society for Horticultural Science 1994, 119(4):789-792.
23. Bielenberg DG, Wang Y, Fan S, Reighard GL, Scorza R, Abbott AG. A deletion affecting several gene candidates is present in the evergrowing peach mutant. Journal of Heredity 2004, 95(5):436-444. 10.1093/jhered/esh057, 15388771.
24. Jiménez S, Lawton-Rauh AL, Reighard GL, Abbott AG, Bielenberg DG. Phylogenetic analysis and molecular evolution of the dormancy associated MADS-box genes from peach. BMC Plant Biology 2009, 9(1):81. 10.1186/1471-2229-9-81, 2713236, 19558704.
25. Li Z, Reighard GL, Abbott AG, Bielenberg DG. Dormancy-associated MADS genes from the EVG locus of peach [Prunus persica (L.) Batsch] have distinct seasonal and photoperiodic expression patterns. Journal of Experimental Botany 2009, 60(12):3521-3530. 10.1093/jxb/erp195, 2724702, 19553369.
26. Wang Y, Georgi LL, Reighard GL, Scorza R, Abbott AG. Genetic mapping of the evergrowing gene in peach Prunus persica (L.) Batsch. Journal of Heredity 2002, 93(5):352-358. 10.1093/jhered/93.5.352, 12547924.
27. Meisel L, Fonseca B, Gonzalez S, Baeza-Yates R, Cambiazo V, Campos R, Gonzalez M, Orellana A, Retamales J, Silva H. A rapid and efficient method for purifying high quality total RNA from peaches (Prunus persica) for functional genomics analyses. Biological Research 2005, 38(1):83-88. 10.4067/S0716-97602005000100010, 15977413.
28. Ruijter JM, Ramakers C, Hoogaars WMH, Karlen Y, Bakker O, Hoff MJB, Moorman AFM. Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data. Nucleic Acids Research 2009, 37(6):e45. 10.1093/nar/gkp045, 2665230, 19237396.
29. Schefe JH, Lehmann KE, Buschmann IR, Unger T, Funke-Kaiser H. Quantitative real-time RT-PCR data analysis: current concepts and the novel "gene expression's CT difference" formula. Journal of Molecular Medicine 2006, 84(11):901-910. 10.1007/s00109-006-0097-6, 16972087.
30. Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible WR. Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiology 2005, 139(1):5-17. 10.1104/pp.105.063743, 1203353, 16166256.
31. Brunner AM, Yakovlev IA, Strauss SH. Validating internal controls for quantitative plant gene expression studies. BMC Plant Biology 2004, 4(14). 515301, 15317655.
32. Arora R, Rowland LJ, Tanino K. Induction and release of bud dormancy in woody perennials: A science comes of age. HortScience 2003, 38(5):911-921.
33. Ohmiya A, Tanaka Y, Kadowaki K, Hayashi T. Cloning of genes encoding auxin-binding proteins (ABP19/20) from peach: Significant peptide sequence similarity with germin-like proteins. Plant and Cell Physiology 1998, 39(5):492-499.
34. Venis MA, Napier RM, Barbierbrygoo H, Maurel C, Perrotrechenmann C, Guern J. Antibodies to a peptide from the maize auxin-binding protein have auxin agonist activity. Proceedings of the National Academy of Sciences of the United States of America 1992, 89(15):7208-7212. 10.1073/pnas.89.15.7208, 49675, 1323130.
35. Ohmiya A. Characterization of ABP19/20, sequence homologues of germin-like protein in Prunus persica L. Plant Science 2002, 163(4):683-689.
36. Chen JG, Ullah H, Young JC, Sussman MR, Jones AM. ABP1 is required for organized cell elongation and division in Arabidopsis embryogenesis. Genes & Development 2001, 15(7):902-911. 312669, 11297513, 10.1101/gad.866201.
37. David KM, Couch D, Braun N, Brown S, Grosclaude J, Perrot-Rechenmann C. The auxin-binding protein 1 is essential for the control of cell cycle. The Plant Journal 2007, 50(2):197-206. 10.1111/j.1365-313X.2007.03038.x, 17376160.
38. Chen JG, Wang SC, Lazarus CM, Napier RM, Jones AM. Altered expression of auxin-binding protein 1 affects cell expansion and auxin pool size in tobacco cells. Journal of Plant Growth Regulation 2006, 25(1):69-78.
39. Timpte C. Auxin binding protein: curiouser and curiouser. Trends in Plant Science 2001, 6(12):586-590. 10.1016/S1360-1385(01)02150-1, 11738384.
40. Renaut J, Hausman JF, Bassett C, Artlip T, Cauchie HM, Witters E, Wisniewski M. Quantitative proteomic analysis of short photoperiod and low-temperature responses in bark tissues of peach (Prunus persica L. Batsch). Tree Genetics & Genomes 2008, 4(4):589-600.
41. Uggla C, Moritz T, Sandberg G, Sundberg B. Auxin as a positional signal in pattern formation in plants. Proceedings of the National Academy of Sciences of the United States of America 1996, 93(17):9282-9286. 10.1073/pnas.93.17.9282, 38633, 11607701.
42. Eliasson A, Gass N, Mundel C, Baltz R, Krauter R, Evrard JL, Steinmetz A. Molecular and expression analysis of a LIM protein gene family from flowering plants. Molecular & General Genetics 2000, 264(3):257-267.
43. Stone SL, Williams LA, Farmer LM, Vierstra RD, Callis J. KEEP ON GOING, a RING E3 ligase essential for Arabidopsis growth and development, is involved in abscisic acid signaling. Plant Cell 2006, 18(12):3415-3428. 10.1105/tpc.106.046532, 1785414, 17194765.
44. Durand A, Hughes R, Roussel A, Flatman R, Henrissat B, Juge N. Emergence of a subfamily of xylanase inhibitors within glycoside hydrolase family 18. The FEBS Journal 2005, 272(7):1745-1755. 10.1111/j.1742-4658.2005.04606.x, 15794761.
45. Geisler-Lee J, Geisler M, Coutinho PM, Segerman B, Nishikubo N, Takahashi J, Aspeborg H, Djerbi S, Master E, Andersson-Gunneras S, et al. Poplar carbohydrate-active enzymes. Gene identification and expression analyses. Plant Physiology 2006, 140(3):946-962. 10.1104/pp.105.072652, 1400564, 16415215.
46. Hundertmark M, Hincha DK. LEA (Late Embryogenesis Abundant) proteins and their encoding genes in Arabidopsis thaliana. BMC Genomics 2008, 9. 10.1186/1471-2164-9-118, 2292704, 18318901.
47. Artlip TS, Callahan AM, Bassett CL, Wisniewski ME. Seasonal expression of a dehydrin gene in sibling deciduous and evergreen genotypes of peach (Prunus persica [L.] Batsch). Plant Molecular Biology 1997, 33(1):61-70. 10.1023/A:1005787909506, 9037159.
48. Rothan C, Etienne C, Moing A, Dirlewanger E, Raymond P, Monet R. Isolation of a cDNA encoding a metallothionein-like protein (accession No. AJ243532) expressed during peach fruit development. (PGR99-126) Plant Physiology 1999, 121:311.
49. Riviere MP, Marais A, Ponchet M, Willats W, Galiana E. Silencing of acidic pathogenesis-related PR-1 genes increases extracellular beta-(1 ->; 3)-glucanase activity at the onset of tobacco defence reactions. Journal of Experimental Botany 2008, 59(6):1225-1239. 10.1093/jxb/ern044, 18390849.
50. Muñoz FJ, Dopico B, Labrador E. Two growth-related organ-specific cDNAs from Cicer arietinum epicotyls. Plant Molecular Biology 1997, 35(4):433-442. 10.1023/A:1005892531385, 9349267.
51. Fan S, Bielenberg DG, Zhebentyayeva T, Reighard GL, Abbott A. Mapping quantitative trait loci associated with chilling requirement, heat requirement and blooming date in peach. Plant & Animal Genomes XVII Conference: January 10-14 2009; San Diego, CA; 2009, 435.