Molecular physiology and breeding at the crossroads of cold hardiness improvement

Physiologia Plantarum

Volumn 147, Issue 1, 2013, Pages 64-74

  Castonguay, Yves ^a   Dubé, Marie Pier ^a   Cloutier, Jean ^a   Bertrand, Annick ^a   Michaud, Réal ^a   Laberge, Serge ^a  

^a AGRICULTURE AND AGRI FOOD CANADA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ACCLIMATIZATION; ALFALFA; BREEDING; COLD; GENETIC ENHANCEMENT; GENETIC MARKER; GENETIC SELECTION; GENETICS; PHYSIOLOGICAL STRESS; PHYSIOLOGY; SHORT SURVEY; TRANSGENIC PLANT;

ACCLIMATIZATION; BREEDING; COLD TEMPERATURE; GENETIC ENHANCEMENT; GENETIC MARKERS; MEDICAGO SATIVA; PLANTS, GENETICALLY MODIFIED; SELECTION, GENETIC; STRESS, PHYSIOLOGICAL;

MEDICAGO SATIVA;

EID: 84871337564     PISSN: 00319317     EISSN: 13993054     Source Type: Journal    
DOI: 10.1111/j.1399-3054.2012.01624.x     Document Type: Short Survey

References (69)

1. Alston JM, Beddow JM, Pardey PG (2009) Agricultural research, productivity, and food prices in the long run. Science 325: 1209-1210
2. Araus JL, Slafer GA, Royo C, Serret MD (2008) Breeding for yield potential and stress adaptation in cereals. Crit Rev Plant Sci 27: 377-412
3. Archambault A, Strömvik M (2011) PR-10, defensin and cold dehydrin genes are among those over expressed in Oxytropis (Fabaceae) species adapted to the arctic. Funct Integr Genomics 11: 497-505
4. Auzanneau J, Huyghe C, Julier B, Barre P (2007) Linkage disequilibrium in synthetic varieties of perennial ryegrass. Theor Appl Genet 115: 837-847
5. Battisti DS, Naylor RL (2009) Historical warnings of future food insecurity with unprecedented seasonal heat. Science 323: 240-244
6. Beck EH, Fettig S, Knake C, Hartig K, Bhattarai T (2007) Specific and unspecific responses of plants to cold and drought stress. J Biosci 32: 501-510
7. Bélanger G, Castonguay Y, Bertrand A, Dhont C, Rochette P, Couture L, Drapeau R, Mongrain D, Chalifour F-P, Michaud R (2006) Winter damage to perennial forage crops in eastern Canada: causes, mitigation, and prediction. Can J Plant Sci 86: 33-47
8. Bingham ET (1998) Role of chromosome blocks in heterosis and estimates of dominance and overdominance. In: Lamkey KR, Staub JE (eds) Concepts and Breeding of Heterosis in Crop Plants, Vol. 25. CSSA Special Publication, Crop Science Society of America, Madison, WI, pp 71-87
9. Borrelli GM, De Vita P, Mastrangelo AM, Cattivelli L (2009) Integrated views in plant breeding: modern approaches for an old topic. In: Sadras VO, Calderini D (eds) Crop Physiology: Applications for Genetic Improvement and Agronomy. Academic Press, San Diego, pp 327-354
10. Brummer EC (2004) Applying genomics to alfalfa breeding programs. Crop Sci 44: 1904-1907
11. Brummer EC, Shah MM, Luth D (2000) Reexamining the relationship between fall dormancy and winter hardiness in alfalfa. Crop Sci 40: 971-977
12. Carrasco MA, Tan JC, Duman JG (2011) A cross-species compendium of proteins/gene products related to cold stress identified by bioinformatic approaches. J Insect Physiol 57: 1127-1135
13. Castonguay Y, Laberge S, Brummer EC, Volenec JJ (2006) Alfalfa winter hardiness: a research retrospective and integrated perspective. Adv Agron 90: 203-265.
14. Castonguay Y, Michaud R, Nadeau P, Bertrand A (2009) An indoor screening method for improvement of freezing tolerance in alfalfa. Crop Sci 49: 809-818
15. Castonguay Y, Cloutier J, Bertrand A, Michaud R, Laberge S (2010) SRAP polymorphisms associated with superior freezing tolerance in alfalfa (Medicago sativa spp. sativa). Theor Appl Genet 120: 1611-1619
16. Castonguay Y, Bertrand A, Michaud R, Laberge S (2011) Cold-induced biochemical and molecular changes in alfalfa populations selectively improved for freezing tolerance. Crop Sci 51: 2132-2144
17. 4 dehydrin variant linked to superior freezing tolerance in alfalfa. Theor Appl Genet 124: 809-819
18. Catchen JM, Amores A, Hohenlohe P, Cresko W, Postlethwait JH (2011) Stacks: building and genotyping loci de novo from short-read sequences. G3: genes, genomes. Genetics 1: 171-182
19. Close TJ (1996) Dehydrins: emergence of a biochemical role of a family of plant dehydration proteins. Physiol Plant 97: 795-803
20. Collard BCY, Mackill DJ (2008) Marker-assisted selection: an approach for precision plant breeding in the twenty-first century. Philos Trans R Soc Lond B Biol Sci 363: 557-572
21. Dekkers JCM, Hospital F (2002) The use of molecular genetics in the improvement of agricultural populations. Nat Rev Genet 3: 22-32
22. Dwivedi SL, Crouch JH, Nigam SN, Ferguson ME, Paterson AH (2003) Molecular breeding of groundnut for enhanced productivity and food security in the semi- arid tropics: opportunities and challenges. Adv Agron 80: 153-221
23. Eathington SR, Crosbie TM, Edwards MD, Reiter RS, Bull JK (2007) Molecular markers in a commercial breeding program. Crop Sci 47: S-154-163
24. Edgerton MD (2009) Increasing crop productivity to meet global needs for feed, food, and fuel. Plant Physiol 149: 7-13
25. Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, Buckler ES, Mitchell SE (2011) A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS ONE 6: e19379
26. 2 flint maize populations under modified recurrent full-sib selection. Theor Appl Genet 114: 765-776
27. Flint-Garcia SA, Thornsberry JM, Buckler ES (2003) Structure of linkage disequilibrium in plants. Annu Rev Plant Biol 54: 357-374
28. Freeman JL, Perry GH, Feuk L, Redon R, McCarroll SA, Altshuler DM, Aburatani H, Jones KW, Tyler-Smith C, Hurles ME, Carter NP, Scherer SW, Lee C (2006) Copy number variation: new insights in genome diversity. Genome Res 16: 949-961
29. Godfray HCJ, Crute IR, Haddad L, Muir JF, Nisbett N, Lawrence D, Pretty J, Robinson S, Toulmin C, Whiteley R (2010) The future of the global food system. Philos Trans R Soc Lond B Biol Sci 365: 2769-2777
30. Hauser M-T, Aufsatz W, Jonak C, Luschnig C (2011) Transgenerational epigenetic inheritance in plants. Biochim Biophys Acta Gene Regul Mech 1809: 459-468
31. Heidarvand L, Maali Amiri R (2010) What happens in plant molecular responses to cold stress? Acta Physiol Plant 32: 419-431
32. Herrmann D, Barre P, Santoni S, Julier B (2010) Association of a CONSTANS-LIKE gene to flowering and height in autotetraploid alfalfa. Theor Appl Genet 121: 865-876
33. Ibitoye DO, Akin-Idowu PE (2011) Marker-assisted-selec tion (MAS): a fast track to increase genetic gain in horticultural crop breeding. Afr J Biotechnol 10: 11333-11339
34. Joosen RVL, Lammers M, Balk PA, Brønnum P, Konings MCJM, Perks M, Stattin E, van Wordragen MF, van der Geest AHM (2006) Correlating gene expression to physiological parameters and environmental conditions during cold acclimation of Pinus sylvestris, identification of molecular markers using cDNA microarrays. Tree Physiol 26: 1297-1313
35. Kang Y, Han Y, Torres-Jerez I, Wang M, Tang Y, Monteros M, Udvardi M (2011) System responses to long-term drought and re-watering of two contrasting alfalfa varieties. Plant J 68: 871-889
36. Knox A, Dhillon T, Cheng H, Tondelli A, Pecchioni N, Stockinger E (2010) CBF gene copy number variation at Frost Resistance-2 is associated with levels of freezing tolerance in temperate-climate cereals. Theor Appl Genet 121: 21-35
37. Kosova K, Vitamvas P, Prasil IT (2007) The role of dehydrins in plant response to cold. Biol Plant 51: 601-617
38. Le Hir H, Nott A, Moore MJ (2003) How introns influence and enhance eukaryotic gene expression. Trends Biochem Sci 28: 215-220
39. Liu H, Lin Y, Chen G, Shen Y, Liu J, Zhang S (2012) Genome-scale identification of resistance gene analogs and the development of their intron length polymorphism markers in maize. Mol Breed 29: 437-447
40. Mastrangelo AM, Belloni S, Barilli S, Ruperti B, Di FN, Stanca AM, Cattivelli L (2005) Low temperature promotes intron retention in two e-cor genes of durum wheat. Planta 221: 705-715
41. Mattick JS, Gagen MJ (2001) The evolution of controlled multitasked gene networks: the role of introns and other noncoding RNAs in the development of complex organisms. Mol Biol Evol 18: 1611-1630
42. McKenzie JS, Paquin R, Duke SH (1988) Cold and heat tolerance. In: Hanson AA, Barnes DK, Hill RR Jr (eds) Alfalfa and Alfalfa Improvement. Agronomy Monography, Vol. 29. American Society of Agronomy, Madison, WI, pp 259-302
43. Mittler R, Blumwald E (2010) Genetic engineering for modern agriculture: challenges and perspectives. Annu Rev Plant Biol 61: 443-462
44. Mizrachi E, Hefer C, Ranik M, Joubert F, Myburg A (2010) De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq. BMC Genomics 11: 681
45. Narain P (2010) Quantitative genetics: past and present. Mol Breed 26: 135-143
46. Pennycooke JC, Cheng H, Stockinger EJ (2008) Comparative genomic sequence and expression analyses of Medicago truncatula and alfalfa subspecies falcata COLD-ACCLIMATION-SPECIFIC genes. Plant Physiol 146: 1242-1254
47. Pierre J-B, Bogard M, Herrmann D, Huyghe C, Julier B (2011) A CONSTANS-like gene candidate that could explain most of the genetic variation for flowering date in Medicago truncatula. Mol Breed 28: 25-35
48. Ponting RC, Drayton MC, Cogan NOI, Dobrowolski MP, Spangenberg GC, Smith KF, Forster JW (2007) SNP discovery, validation, haplotype structure and linkage disequilibrium in full-length herbage nutritive quality genes of perennial ryegrass (Lolium perenne L.). Mol Genet Genomics 278: 585-597
49. Quarrie SA, Lazic JV, Kovacevic D, Steed A, Pekic S (1999) Bulk segregant analysis with molecular markers and its use for improving drought resistance in maize. J Exp Bot 50: 1299-1306
50. Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, Andrews TD, Fiegler H, Shapero MH, Carson AR, Chen W, Cho EK, Dallaire S, Freeman JL, Gonzalez JR, Gratacos M, Huang J, Kalaitzopoulos D, Komura D, MacDonald JR, Marshall CR, Mei R, Montgomery L, Nishimura K, Okamura K, Shen F, Somerville MJ, Tchinda J, Valsesia A, Woodwark C, Yang F, Zhang J, Zerjal T, Zhang J, Armengol L, Conrad DF, Estivill X, Tyler-Smith C, Carter NP, Aburatani H, Lee C, Jones KW, Scherer SW, Hurles ME (2006) Global variation in copy number in the human genome. Nature 444: 444-454
51. Rémus-Borel W, Castonguay Y, Cloutier J, Michaud R, Bertrand A, Desgagnés R, Laberge S (2010) Dehydrin variants associated with superior freezing tolerance in alfalfa (Medicago sativa L.). Theor Appl Genet 120: 1163-1174
52. Ribaut JM, Ragot M (2007) Marker-assisted selection to improve drought adaptation in maize: the backcross approach, perspectives, limitations, and alternatives. J Exp Bot 58: 351-360
53. Roldán-Ruiz I, Kölliker R (2010) Marker-assisted selection in forage crops and turf: a review. In: Huyghe C (ed) Sustainable Use of Genetic Diversity in Forage and Turf Breeding. Springer, Dordrecht, pp 383-390
54. Rose AB, Emami S, Bradnam K, Korf I (2011) Evidence for a DNA-based mechanism of intron-mediated enhancement. Front Plant Sci 2: 98 DOI: 10.3389/fpls.2011.00098
55. Russelle MP (2001) Alfalfa. Am Sci 89: 252-261
56. Schneeberger K, Weigel D (2011) Fast-forward genetics enabled by new sequencing technologies. Trends Plant Sci 16: 282-288
57. Schwab PM, Barnes DK, Sheaffer CC (1996) The relationship between field winter injury and fall growth score for 251 alfalfa cultivars. Crop Sci 36: 418-426
58. Semagn K, Bjørnstad Å, Ndjiondjop MN (2006) An overview of molecular marker methods for plants. Afr J Biotechnol 5: 2540-2568
59. Shimada N, Nakatsuka T, Nakano Y, Kakizaki Y, Abe Y, Hikage T, Nishihara M (2009) Identification of gentian cultivars using SCAR markers based on intron-length polymorphisms of flavonoid biosynthetic genes. Sci Hortic 119: 292-296
60. Sinclair TR, Purcell LC, Sneller CH (2004) Crop transformation and the challenge to increase yield potential. Trends Plant Sci 9: 70-75
61. Tuteja N, Tiburcio AF, Fortes AM, Bartels D (2011) Special issue: plant abiotic stress. Plant Signal Behav 6: 173-174
62. Veronesi F, Brummer EC, Huyghe C (2010) Alfalfa. In: Boller B, Posselt UK, Veronesi F (eds) Fodder Crops and Amenity Grasses. Handbook of Plant Breeding, Vol. 5. Springer, New York, pp 395-437
63. Volenec JJ, Cunningham SM, Haagenson DM, Berg WK, Joern BC, Wiersma DW (2002) Physiological genetics of alfalfa improvement: past failures, future prospects. Field Crops Res 75: 97-110
64. Wei Y, Li X, Brummer EC, Jiang Q, Kang J (2011) Genotyping by sequencing (GBS) in alfalfa ( Medicago sativa ). Fundamental for life: soil, crop, & environmental sciences, ASA-CSSA-SSSA International Annual Meetings, San Antonio, TX. Available at http://a-c-s.confex.com/crops/2011am/webprogram/Paper67793.html (accessed 19 October 2011)
65. Weising K, Nybom H, Wolff K, Kahl G (2005) DNA Fingerprinting in Plants: Principles, Methods, and Applications. CRC Press, Boca Raton, FL, pp 444
66. Wisser RJ, Balint-Kurti PJ, Holland JB (2011) A novel genetic framework for studying response to artificial selection. Plant Genet Resour 9: 281-283
67. Xiao H, Nassuth A (2006) Stress- and development-induced expression of spliced and unspliced transcripts from two highly similar dehydrin 1 genes in V. riparia and V. vinifera. Plant Cell Rep 25: 968-977
68. Yamada T, Skøt L (2010) Allelic diversity for candidate genes and association studies: Methods and results. In: Huyghe C (ed) Sustainable Use of Genetic Diversity in Forage and Turf Breeding. Springer, Dordrecht, pp 391-396
69. Zhang L-L, Zhao M-G, Tian Q-Y, Zhang W-H (2011) Comparative studies on tolerance of Medicago truncatula and Medicago falcata to freezing. Planta 234: 445-457