Development and functional annotation of an 11,303-EST collection from Eucalyptus for studies of cold tolerance

Tree Genetics and Genomes

Volumn 5, Issue 2, 2009, Pages 317-327

  Keller, Guylaine ^a   Marchal, Thibault ^a   Sanclemente, Hélène ^a   Navarro, Marie ^a   Ladouce, Nathalie ^a   Wincker, Patrick ^b   Couloux, Arnaud ^b   Teulières, Chantal ^a   Marque, Christiane ^a  

^a UNIVERSITÉ DE TOULOUSE   (France)

^b CENTRE NATIONAL DE SÉQUENÇAGE   (France)

Author keywords

Cold acclimation; Eucalyptus; Expressed sequence tags (EST); Frost tolerance

Indexed keywords

ARABIDOPSIS; EUCALYPTUS; EUCALYPTUS GUNNII;

EID: 61349187648     PISSN: 16142942     EISSN: 16142950     Source Type: Journal    
DOI: 10.1007/s11295-008-0184-7     Document Type: Article

References (39)

1. SF Altschul W Gish W Miller EW Myers DJ Lipman 1990 Basic local alignment search tool J Mol Biol 215 3 403 410
2. M Bausher R Shatters J Chaparro P Dang W Hunter R Niedz 2003 An expressed sequence tag (EST) set from Citrus sinensis L. Osbeck whole seedlings and the implications of further perennial source investigations Plant Sci 165 415 422
3. C Benedict JS Skinner R Meng Y Chang R Bhalerao NPA Huner CE Finn THH Chen V Hurry 2006 The CBF1-dependent low temperature signalling pathway, regulon and increase in freeze tolerance are conserved in Populus spp Plant, Cell and Environ 29 1259 1272
4. MIH Brooker 2000 A new classification of the genus Eucalyptus l'Her. (Myrtaceae) Aust Syst Bot 13 79 148
5. S Cao M Ye S Jiang 2005 Involvement of GIGANTEA gene in the regulation of the cold stress response in Arabidopsis Plant Cell Reports 25 683 690
6. V Chinnusamy M Ohta S Kanrar BH Lee X Hong M Agarwal JK Zhu 2003 ICE1: a regulator of cold-induced transcriptome and freezing tolerance in Arabidopsis Genes Dev 17 1043 1054
7. H Choi J Hong J Ha J Kang SY Kim 2000 ABFs, a family of ABA-responsive element binding factors J Biol Chem 275 1723 1730
8. S Davletova K Schlauch J Coutu R Mittler 2005 The zinc-finger protein ZAT12 plays a central role in reactive oxygen and abiotic stress signaling in Arabidopsis Plant Physiol 139 847 856
9. W El Kayal G Keller C Debayles R Kumar D Weier C Teulières C Marque 2006 Regulation of tocopherol biosynthesis through transcriptional control of tocopherol cyclase during cold hardening in Eucalyptus gunnii Physiol Plant 126 221 223
10. W El Kayal M Navarro G Marque G Keller C Marque C Teulières 2006 Expression profile of CBF-like transcriptional factor genes from Eucalyptus in response to cold J Exp Bot 57 2455 2469
11. FAO (2000) Global forest resource assessment, main report. United Nations Food and Agriculture Organisation, Rome
12. J Forment J Gadea L Huerta L Abizanda J Agusti S Alamar E Alos F Andres R Arribas JP Beltran A Berbel MA Blazquez J Brumos LA Canas M Cercos JM Colmenero-Flores A Conesa B Estables M Gandia JL Garcia-Martinez J Gimeno A Gisbert G Gomez L Gonzalez-Candelas A Granell J Guerri MT Lafuente F Madueno JF Marcos MC Marques F Martinez MA Martinez-Godoy S Miralles P Moreno L Navarro V Pallas MA Perez-Amador J Perez-Valle C Pons I Rodrigo PL Rodriguez C Royo R Serrano G Soler F Tadeo M Talon J Terol M Trenor L Vaello O Vicente C Vidal L Zacarias V Conejero 2005 Development of a Citrus genome-wide EST collection and cDNA microarray as resources for genomic studies Plant Mol Biol 57 375 391
13. U Hjelm E Ogren 2003 Is photosynthetic acclimation to low temperature controlled by capacities for storage and growth at low temperature? Results from comparative studies of grasses and trees Physiol Plant 119 113 120
14. X Huang A Madan 1999 CAP3: a DNA sequence assembly program Genome Res 9 868 877
15. W Ji Y Li J Li C-h Dai X Wang X Bai H Cai L Yang Y-m Zhu 2006 Generation and analysis of expressed sequence tags from NaCl-treated Glycine soja BMC Plant Biol 6 4
16. J Jones P Dunsmuir J Bedbrook 1985 High level expression of introduced chimeric genes in regenerated transformed plants EMBO J 4 2411 2418
17. Keller G (2006) Analyse du transcriptome de l'Eucalyptus pendant l'acclimatation au froid. Recherche de gènes candidats de la tolérance au gel. Doctorat de l'Université Paul Sabatier, Toulouse, France
18. SY Kim 2006 The role of ABF family bZIP class transcription factors in stress response Physiol Plant 126 519 527
19. A Kohler D Blaudez M Chalot F Martin 2004 Cloning and expression of multiple metallothioneins from hybrid poplar New Phytol 164 83 93
20. KJ Livak TD Schmittgen 2001 Analysis of relative gene expression data using real-time quantitative PCR and the 2-DDCT method Methods 25 402 408
21. PA Mehta K Sivaprakash M Parani G Venkataraman AK Parida 2005 Generation and analysis of expressed sequence tags from the salt-tolerant mangrove species Avicennia marina (Forsk) Vierh Theor Appl Genet 110 416 424
22. Myburg A, Grattapaglia D, Tuskan G, Schmutz J, Rokhsar D, Barry K, Bristow J; The Eucalyptus Genome Network (EUCAGEN) (2008) Eucalyptus: sequencing a global tree genome for energy, fiber and wood, Genomic of energy and environnement, JGI Third Annual Meeting, march 26-28 2008, Walnut Creek, California, USA
23. E Paux M Tamasloukht N Ladouce P Sivadon J Grima-Pettenati 2004 Identification of genes preferentially expressed during wood formation in Eucalyptus Plant Mol Biol 55 263 280
24. N Pavy C Paule L Parsons JA Crow M-J Morency J Cooke JE Johnson E Noumen C Guillet-Claude Y Butterfield S Barber G Yang J Liu J Stott R Kirkpatrick A Siddiqui R Holt M Marra A Seguin E Retzel J Bousquet J MacKay 2005 Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters BMC Genomics 6 144
25. FS Poke RE Vaillancourt BM Potts JB Reid 2005 Genomic research in Eucalyptus Genetica 125 79 101
26. R Porat K Pasentsis D Rozentzvieg D Gerasopoulos V Falara A Samach S Lurie AK Kanellis 2004 Isolation of a dehydrin cDNA from orange and grapefruit citrus fruit that is specifically induced by the combination of heat followed by chilling temperatures Physiol Plant 120 256 264
27. RK Ruiter GJ van Eldik MMA van Herpen JAM Schrauwen GJ Wullems 1999 Hydration-dependent gene expression in Brassica oleracea anthers Sex Plant Reprod 12 135 143
28. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning, a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory, New York
29. LV Savitch ED Leonardos M Krol S Jansson B Grodzinski NPA Huner G Öquist 2002 Two different strategies for light utilization in photosynthesis in relation to growth and cold acclimation Plant Cell Env 25 761 771
30. ZK Shinwari K Nakashima S Miura M Kasuga M Seki K Yamaguchi-Shinozaki K Shinozaki 1998 An Arabidopsis gene family encoding DRE/CRT binding proteins involved in low-temperature-responsive gene expression Biochem Biophys Res Commun 250 161 170
31. Teulières C, Marque C (2007) Eucalyptus. In: Pua EC, Davey MR (eds) Transgenic crops, vol 60. Springer, Berlin, pp 387-406
32. Teulières C, Bossinger G, Moran G, Marque C (2007) Stress studies in Eucalyptus. In: Plant Stress, Global Science Books (eds),vol I(2), 197-215
33. MF Thomashow 1999 Plant cold acclimation: freezing tolerance genes and regulatory mechanisms Annu Rev Plant Physiol Plant Mol Biol 50 571 599
34. C Vannini F Locatelli M Bracale E Magnani M Marsoni M Osnato M Mattana E Baldoni I Coraggio 2004 Overexpression of the rice Osmyb4 gene increases chilling and freezing tolerance of Arabidopsis thaliana plants Plant J 37 115 127
35. JT Vogel DG Zarka HA Van Buskirk SG Fowler MF Thomashow 2005 Roles of the CBF2 and ZAT12 transcription factors in configuring the low temperature transcriptome of Arabidopsis Plant J 41 195 211
36. H Wei AL Dhanaraj LJ Rowland Y Fu SL Krebs R Arora 2005 Comparative analysis of expressed sequence tags from cold-acclimated and non-acclimated leaves of Rhododendron catawbiense Michx Planta 221 406 416
37. A Welling ET Palva 2006 Molecular control of cold acclimation in trees Physiol Plant 127 167 181
38. K Wissel F Pettersson A Berglund S Jansson 2003 What affects mRNA levels in leaves of field-grown aspen? A study of developmental and environmental influences Plant Physiol 133 1190 1197
39. CE Wong Y Li BR Whitty C Diaz-Camino SR Akhter JE Brandle GB Golding EA Weretilnyk BA Moffatt M Griffith 2005 Expressed sequence tags from the Yukon ecotype of Thellungiella reveal that gene expression in response to cold, drought and salinity shows little overlap Plant Mol Biol 58 561 574