Germplasm-regression-combined (GRC) marker-trait association identification in plant breeding: A challenge for plant biotechnological breeding under soil water deficit conditions

Critical Reviews in Biotechnology

Volumn 30, Issue 3, 2010, Pages 192-199

  Ruan, Cheng Jiang ^a,c   Xu, Xue Xuan ^b   Shao, Hong Bo ^a,b,d   Jaleel, Cheruth Abdul ^e,f  

^a YANTAI INSTITUTE OF COASTAL ZONE RESEARCH   (China)

^b INSTITUTE OF SOIL AND WATER CONSERVATION   (China)

^c DALIAN NATIONALITIES UNIVERSITY   (China)

^d QINGDAO UNIVERSITY OF SCIENCE AND TECHNOLOGY   (China)

^e UNITED ARAB EMIRATES UNIVERSITY   (United Arab Emirates)

^f ANNAMALAI UNIVERSITY   (India)

Author keywords

Abiotic stress; Association analysis; Biotechnological breeding; Germplasm regression; MAS; Molecular marker; Quantitative trait; Sea buckthorn

Indexed keywords

ABIOTIC STRESS; ASSOCIATION ANALYSIS; BIOTECHNOLOGICAL BREEDING; GERMPLASMS; MAS; MOLECULAR MARKER; QUANTITATIVE TRAITS; SEA BUCKTHORN;

AGRICULTURE; BIOTECHNOLOGY; GENES; MOLECULAR BIOLOGY; PLANTS (BOTANY); SOIL MOISTURE; UNDERWATER SOILS;

REGRESSION ANALYSIS;

MOLECULAR MARKER;

GENETIC ASSOCIATION; GENETIC LINKAGE; GENETIC TRAIT; NONHUMAN; PLANT BREEDING; PLANT GENETICS; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; REVIEW; SOIL WATER CONTENT; WATER DEFICIT;

BIOTECHNOLOGY; BREEDING; DROUGHTS; GENETIC ASSOCIATION STUDIES; GENETIC MARKERS; PLANTS; QUANTITATIVE TRAIT LOCI; REGRESSION ANALYSIS; STRESS, PHYSIOLOGICAL;

RHAMNACEAE;

EID: 77956074813     PISSN: 07388551     EISSN: 15497801     Source Type: Journal    
DOI: 10.3109/07388551003649062     Document Type: Review

References (63)

1. Achleitner A, Tinker NA, Zechner E, Buerstmayr H. 2008. Genetic diversity among oat varieties of worldwide origin and associations of AFLP markers with quantitative traits. Teor Appl Genet 117: 1041-1053.
2. Aff AA, Clark V. 1984. Computer-Aided Multivariate Analysis. New York: Van Nostrand Reinhold.
3. Ashraf M. 2009. Biotechnological approach of improving plant salt tolerance using antioxidants as markers. Biotechnol Adv 27: 84-93.
4. Ashikari M, Sakakibara H, Lin S, et al. 2005. Cytokinin oxidase regulates rice grain production. Science 309: 741-745.
5. Asins MJ. 2002. Present and future of quantitative trait locus analysis in plant breeding. Plant Breeding 121: 281-291.
6. Barloy D, Lemoine J, Abelard P, Tanguy AM, Rivoal R, Jahier J. 2007. Marker-assisted pyramiding of two cereal cyst nematode resistance genes from Aegilops variabilis in wheat. Mol Breeding 20: 31-40.
7. Benchimol LL, de Souza CL, de Souza AP. 2005. Microsatellite assisted back-cross selection in maize. Genet Mol Biol 28: 789-797.
8. Bouchez A, Hospital F, Causse M, Gallais A, Charcosset A. 2002. Marker-assisted introgression of favorable alleles at quantitative trait loci between maize elite lines. Genetics 162: 1945-1959.
9. Chatterjee SN, Mohandas TP. 2003. Identifcation of ISSR markers associated with productivity traits in silkworm, Bombyx moni L. Genome 46: 438-447.
10. Chatterjee SN, Pradeep AR. 2003. Molecular markers (RAPD) associated with growth, yield, and origin of the silkworm, Bombyx mori L. in India. Russ J Genet 39: 1365-1377.
11. Collard BC, Mackill DJ. 2008. Marker-assisted selection: an approach for precision plant breeding in the twenty-frst century. Philos Trans R Soc Lond, B, Biol Sci 363: 557-572.
12. Collard BCY, Jahufer MZZ, Brouwer JB, Pang ECK. 2005. An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: the basic concepts. Euphytica 142: 169-196.
13. Davies J, Berzonsky WA, Leach GD. 2006. A comparison of marker-assisted and phenotypic selection for high grain protein content in spring wheat. Euphytica 152: 117-134.
14. Ender M, Terpstra K, Kelly JD. 2008. Marker-assisted selection for white mold resistance in common bean. Mol Breeding 21: 149-157.
15. Gebhardt C, Ballvora A, Walkemeier B, Oberhagemann P, Schüler K. 2004. Assessing genetic potential in germplasm collections of crop plants by marker-trait association: a case study for potatoes with quantitative variation of resistance to late blight and maturity type. Mol Breeding 13: 93-102.
16. Gupta V, Mathur S, Solanke AU, et al. 2009. Genome analysis and genetic enhancement of tomato. Crit Rev Biotechnol 29: 152-181.
17. Hansen BG, Halkier BA, Kliebenstein DJ. 2008. Identifying the molecular basis of QTLs: eQTLs add a new dimension. Trends Plant Sci 13: 72-77.
18. Helguera M, Khan IA, Kolmer J, Lijavetzky D, Zhong-qi L, Dubcovsky J. 2003. PCR assays for the Lr37-Yr17-Sr38 cluster of rust resistance genes and their use to develop isogenic hard red spring wheat lines. Crop Sci 43: 1839-1847.
19. Holland JB. 2007. Genetic architecture of complex traits in plants. Curr Opin Plant Biol 10: 156-161.
20. Hospital F. 2009. Challenges for efective marker-assisted selection in plants. Genetica 136: 303-310.
21. Jannink JL, Moreau L, Charmet G, Charcosset A. 2009. Overview of QTL detection in plants and tests for synergistic epistatic interactions. Genetica 136: 225-236.
22. Kar PK, Srivastava PP, Awasthi AK, Urs SR. 2008. Genetic variability and association of ISSR markers with some biochemical traits in mulberry (Morus spp.) genetic resources available in India. Tree Genet Genomes 4: 75-83.
23. Kearsey MJ, Farquhar AG. 1998. QTL analysis in plants; where are we now? Heredity 80: 137-142.
24. Knoll J, Ejeta G. 2008. Marker-assisted selection for early-season cold tolerance in sorghum: QTL validation across populations and environments. Teor Appl Genet 116: 541-553.
25. Koebner RM, Summers RW. 2003. 21st century wheat breeding: plot selection or plate detection? Trends Biotechnol 21: 59-63.
26. Liao CY, Wu P, Hu B, Yi KK. 2001. Efects of genetic background and environment on QTLs and epistasis for rice (Oryza sativa L.) panicle number. Teor Appl Genet 103: 104-111.
27. Maureira-Butler IJ, Udall JA, Osborn TC. 2007. Analyses of a multi-parent population derived from two diverse alfalfa germplasms: Testcross evaluations and phenotype-DNA associations. Teor Appl Genet 115: 859-867.
28. Mishra RK, Sen-Mandi S. 2004. Molecular profling and development of DNA marker associated with drought tolerance in tea clones growing in Darjeeling. Curr Sci 87: 60-66.
29. Misztal I. 2006. Challenges of application of marker assisted selection; a review. Animal Sci Papers and Rep 24: 5-10.
30. Mohler V, Singrün C. 2005. General considerations: Marker-assisted selection. In Lorz H, Wenzel G, ed. Molecular Marker Systems in Plant Breeding and Crop Improvement (Section III) (pp. 305-317). Berlin: Springer.
31. Ni FT, Chu LY, Shao HB, Liu ZH. 2009. Gene expression and regulation of higher plants under soil water stress. Curr Genomics 10: 269-280.
32. Obert DE, Skinner DZ, Stuteville DL. 2000. Association of AFLP markers with downy mildew resistance in autotetraploid alfalfa. Mol Breeding 6: 287-294.
33. Pradeep AR, Jingade AH, Urs RS. 2007. Molecular markers for biomass traits: association, interaction and genetic divergence in silkworm Bombyx mori. Biomark Insights 2: 197-217.
34. Rao DE, Rao KV, Reddy TP, Reddy VD. 2009. Molecular characterization, physi-cochemical properties, known and potential applications of phytases: an overview. Crit Rev Biotechnol 29: 182-198.
35. Ren ZH, Gao J P, Li LG, et al. 2005. A rice quantitative trait locus for salt tolerance encodes a sodium transporter. Nat Genet 37: 1141-1146.
36. Ribaut JM, Hoisington DA. 1998. Marker assisted selection: new tools and strategies. Trends Plant Sci 3: 236-239.
37. Roy JK, Bandopadhyay R, Rustgi S, Balyan HS, Gupta PK. 2006. Association analysis of agronomically important traits using SSR, SAMPL and AFLP markers in bread wheat. Curr Sci 90: 683-689.
38. Roy SN, Bargmann RE. 1957. Tests of multiple independence and the associated condence-bounds. North Carolina Inst Stat Mimeogr Ser 175.
39. Ruan CJ, Zhang J, Zhou ZZ. 2008. Symptom & pathogenous law of dried-shrink disease of Hippophae L. and primary selection of resistant varieties. J Dalian National Univ 10: 390-393 (in Chinese with an English abstract).
40. Ruan CJ, Li H, Mopper S. 2009. Characterization and identifcation of ISSR markers associated with resistance to dried-shrink disease in sea buckthorn. Mol Breeding 24: 255-268.
41. Sanchez AC, Brar DS, Huang N, Li Z, Khush GS. 2000. Sequence tagged site marker-assisted selection for three bacterial blight resistance genes in rice. Crop Sci 40: 792-797.
42. Shalini KV, Manjunatha S, Lebrun P, et al. 2007. Identifcation of molecular markers associated with mite resistance in coconut (Cocos nucifera L.). Genome 50: 35-42.
43. Shao HB, Chu LY, Shao MA, Li SQ, Yao JC. 2008a. Bioengineering plant resistance to abiotic stresses by the global calcium signal system. Biotech Adv 26: 503-510.
44. Shao HB, Chu LY, Shao MA, Zhao CX. 2008b. Advances in functional regulation mechanisms of plant aquaporins: their diversity, gene expression, localization, structure and roles in plant soil-water relations (Review). Mol Membr Biol 25: 179-191.
45. Shao HB, Chu LY, Jaleel CA, Manivannan P, Panneerselvam R, Shao MA. 2009. Understanding water defcit stress-induced changes in the basic metabolism of higher plants-biotechnologically and sustainably improving agriculture and the ecoenvironment in arid regions of the globe. Crit Rev Biotechnol 29: 131-151.
46. Sharp PJ, Johnston S, Brown G, et al. 2001. Validation of molecular markers for wheat breeding. Aust J Agric Res 52: 1357-1366.
47. 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.
48. Srivastava PP, Kar PK, Awasthi AK, Urs SR. 2007. Identifcation and association of ISSR markers for thermal stress in polyvoltine silkworm Bombyx mori. Russ J Genet 43: 858-864.
49. Steele KA, Price AH, Shashidhar HE, Witcombe JR. 2006. Marker-assistedselection to introgress rice QTLs controlling root traits into an Indianupland rice variety. Teor Appl Genet 112: 208-221.
50. Teixeira da Silva JA, Nhut DT, Giang DTT, Rashid SZ. 2005. The phyl-ogeny, breeding and ecology of trees using molecular markers.In Tangadurai D, Pullaiah T, Tripathy L, eds. Genetic Resourcesand Biotechnology (vol. III) (pp. 279-308). New Delhi: RegencyPublications.
51. Tomas W. 2003. Prospects for molecular breeding of barley. Ann Appl Biol142: 1-12.
52. Toldi O, Tuba Z, Scott P. 2009. Vegetative desiccation tolerance: Is it a goldminefor bioengineering crops? Plant Sci 176: 187-199.
53. Verslues PE, Agarwal M, Katiyar-Agarwal S, Zhu J, Zhu JK. 2006. Methods andconcepts in quantifying resistance to drought, salt and freezing, abioticstresses that afect plant water status. Plant J 45: 523-539.
54. Vijayan K, Srivatsava PP, Nair CV, et al. 2006. Molecular characterization andidentifcation of markers associated with yield traits in mulberry usingISSR markers. Plant Breeding 125: 298-301.
55. Virk PS, Ford-Lloyd BV, Jackson MT, Pooni HS, Clemeno TP, Newbury HJ. 1996.Predicting quantitative variation within rice germplasm using molecularmarkers. Heredity 76: 296-304.
56. Wang D, Wei ZG, Yang CP, Liu GJ. 2008. Analysis and identifcation of SCARmolecular markers associated with birch fber length trait. J Forest Res19: 288-292.
57. Wang YQ. 2007. Study on Betula platyphylla long fber trait by SSR markertechnology. Dissertation for the Degree of Master, Northeast ForestryUniversity (in Chinese with an English abstract).
58. Wilde F, Korzun V, Ebmeyer E, Geiger HH, Miedaner T. 2007. Comparisonof phenotypic and marker-based selection for Fusarium head blightresistance and DON content in spring wheat. Mol Breeding 19:357-370.
59. Wright AJ, Mowers RP. 1994. Multiple regression for molecular-marker, quantitative trait data from large F2 a populations. Teor Appl Genet 89:305-312.
60. Xia DA, Wei ZG, Yang CP, Liu GJ. 2008. Analysis of ISSR and SCAR Markersassociated with birch fber length trait. J Northeast For Univ 39: 1-4 (inChinese with an English abstract).
61. Yonash N, Heller ED, Hillel J, Cahaner A. 2000. Detection of RFLP markersassociated with antibody response in meat-type chickens: haplotype/genotype, single-band, and multiband analyses of RFLP in the majorhistocompatibility complex. J Hered 91: 24-30.
62. Zhang J, Li X, Jiang G, Xu Y, He Y. 2006. Pyramiding of Xa7 and Xa21 for theimprovement of disease resistance to bacterial blight in hybrid rice. PlantBreeding 125: 600-605.
63. Zhao CX, Guo LY, Jaleel CA, Shao HB, Yang HB. 2008. Prospectives for applyingmolecular and genetic methodology to improve wheat cultivars in droughtenvironments. C R Biol 331: 579-586.