Saturation mapping of QTL regions and identification of putative candidate genes for drought tolerance in rice

Molecular Genetics and Genomics

Volumn 272, Issue 1, 2004, Pages 35-46

  Nguyen, T T T ^a,c   Klueva, N ^a   Chamareck, V ^a   Aarti, A ^a,d   Magpantay, G ^a,e   Millena, A C M ^a,f   Pathan, M S ^a,b   Nguyen, H T ^a,b  

^a TEXAS TECH UNIVERSITY   (United States)

^b UNIVERSITY OF MISSOURI   (United States)

^c NATIONAL AGRICULTURAL RESEARCH CENTER   (Japan)

^d CCS HARYANA AGRICULTURAL UNIVERSITY   (India)

^e Ceres Inc   (United States)

^f TEXAS TECH UNIVERSITY HEALTH SCIENCES CENTER   (United States)

Author keywords

Differential display (DD); Drought; Osmotic adjustment (OA); Quantitative trait loci (QTL); Rice

Indexed keywords

COMPLEMENTARY DNA; DNA FRAGMENT; ELONGATION FACTOR 1BETA; GLUTATHIONE TRANSFERASE; MARKER; PROTEINASE; PROTEINASE INHIBITOR; RECOMBINASE; RIBOSOME RNA; URIDINE DIPHOSPHATE GLUCOSE 4 EPIMERASE; ZINC FINGER PROTEIN;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARTICLE; BIOGENESIS; CELL WALL; CHROMOSOME 1; CHROMOSOME 10; CHROMOSOME 12; CHROMOSOME 14; CHROMOSOME 2; CHROMOSOME 3; CHROMOSOME 5; CHROMOSOME 6; CHROMOSOME 7; CHROMOSOME 8; CHROMOSOME 9; DIFFERENTIAL DISPLAY; DNA ISOLATION; DROUGHT TOLERANCE; GENE FUNCTION; GENE IDENTIFICATION; GENE MAPPING; GENE TARGETING; GENETIC LINKAGE; GENETIC TRAIT; MOLECULAR CLONING; NONHUMAN; OSMOSIS; PLANT LEAF; PLANT ROOT; PRIORITY JOURNAL; PROTEIN EXPRESSION; QUANTITATIVE TRAIT LOCUS MAPPING; REGULATORY MECHANISM; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RICE; SEQUENCE HOMOLOGY; STRESS; THICKNESS; WHEAT;

BLOTTING, NORTHERN; CHROMOSOME MAPPING; CHROMOSOMES, ARTIFICIAL, BACTERIAL; DEHYDRATION; GENETIC MARKERS; ORYZA SATIVA; PLANT ROOTS; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; QUANTITATIVE TRAIT LOCI;

TRITICUM AESTIVUM;

EID: 4544330450     PISSN: 16174615     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00438-004-1025-5     Document Type: Article

References (42)

1. Ali ML, Pathan MS, Zhang J, Bai G, Sarkarung S, Nguyen HT (2000) Mapping QTLs for root traits in a recombinant inbred population from two indica ecotypes in rice. Theor Appl Genet 101:756-766
2. Baszczynski CL, Barbour E, Zeka BL, Maddock SE, Swenson JL (1997) Characterization of a genomic clone for a maize DnaJ-related gene, ZmdJ1, and expression analysis of its promoter in transgenic plants. Maydica 42:189-201
3. Bray EA (1993) Molecular responses to water deficit. Plant Physiol 103:1035-1040
4. Bray EA (1998) Plant responses to water deficit. Trends Plant Sci 2:48-54
5. Campbell JL, Klueva NY, Zheng H, Nieto-Sotelo J, Ho THD, Nguyen HT (2001) Cloning of new members of heat shock protein HSP101 gene family in wheat (Triticum aestivum (L.) Moench) inducible by heat, dehydration, and ABA. Biochim Biophys Acta 1517:270-277
6. Causse MA, Fulton TM, Chao YG, Chunwongse J, We K, Xiao J, Yu Z, Ronald PC, Harrington SE, Second G, McCouch SR, Tanksley SD (1994) Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138:1251-1274
7. Champoux MC, Wang G, Sarkarung S, Mackill DJ, O'Toole JC, Huang N, McCouch SR (1995) Locating genes associated with root morphology and drought avoidance in rice via linkage to molecular markers. Theor Appl Genet 90:969-981
8. Chen XS, Temnykh Y, Xu YG, Cho SR, McCouch SR (1997) Development of a microsatellite map providing genome-wide coverage in rice (Oryza sativa L.). Theor Appl Genet 95:553-567
9. Claes B, Dekeyser R, Villarroel R, Vanden Bulcke M, Bauw G, Van Montagu M, Caplan A (1990) Characterization of a rice gene showing organ-specific expression in response to salt stress and drought. Plant Cell 2:19-27
10. Cruz RT, Jordan WR, Drew MC (1992) Structural changes and associated reduction of hyraulic conductance in root of Sorghum biocolor L. following exposure to water deficit. Plant Physiol 99:203-212
11. Fukai S, Cooper M (1995) Development of drought resistant cultivars using physio-morphological traits in rice. Field Crop Res 40:67-86
12. Gorlach J, Volrath S, Knauf-becker G, Hengy G, Beckhove U, Kogel KH, Oostendorp M, Staub M, Ward E, Kessmann H, Ryals J (1996) Benzothiadiazole, a novel class of inducers of systemic acquired resistance, activate gene expression and disease resistance in wheat. Plant Cell 8:629-643
13. 2population. Genetics 148:479-494
14. Kleber-Janke T, Krupinska K (1997) Isolation of cDNA clones for genes showing enhanced expression in barley leaves during dark-induced senescence, as well as during senescence under filed conditions. Planta 203:332-340
15. Leprince O, Hendry GAF, McKersie BD (1993) The mechanisms of desiccation tolerance in developing seeds. Seed Sci Res 3:231-246
16. Liang P, Pardee AB (1992) Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction. Science 257:967-971
17. Lilley JM, Ludlow MM, McCouch SR, O'Toole JC (1996) Locating QTL for osmotic adjustment and dehydration tolerance in rice. J Exp Bot 47:1427-1436
18. Lincoln SE, Daly MJ, Lander ES (1993) Mapping genes controlling quantitative traits using MapMaker/QTL version 1.1: a tutorial and reference manual. Whitehead Institute for Biomedical Research Technical Report (2nd edn). Whitehead Institute, Cambridge, Mass.
19. Logemann J, Schell J, Willmitzer L (1987) Improved method for the isolation of RNA from plant tissues. Anal Biochem 163:16-20
20. Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes: a rapid method to detect markers in specific genomic regions by segregating populations. Proc Natl Acad Sci 88:9828-9832
21. Morgan JM (1984) Osmoregulation and water stress in higher plants. Annu Rev Plant Physiol 35:299-319
22. Morgan TM, Tan MK (1996) Chromosomal location of a wheat osmoregulation gene using RFLP analysis. Aust J Plant Physiol 23:803-806
23. Morgan JM, Rodriguez Maribona B, Knight EJ (1991) Adaptation to water-deficit in chickpea breeding lines by osmoregulation: relationship to grain-yield in the field. Field Crops Res 27:61-70
24. Moustafa MA, Boersma L, Kronstad WE (1996) Response of four spring wheat cultivars to drought stress. Crop Sci 36:982-986
25. Nelson J (1997) Qgene: software for marker-based genomic and breeding. Mol Breeding 3:239-245
26. Nguyen HT, Babu RC, Blum A (1997) Breeding for drought resistance in rice: physiology and molecular genetics consideration. Crop Sci 37:1426-1434
27. O'Toole JC, Chang TT (1979) Drought resistance in cereals. Rice: a case study. In: Mussel H, Staples RC (eds) Stress physiology of crop plants. Wiley InterScience, New York, pp 374-405
28. Panaud O, Chen X, McCouch SR (1996) Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol Gen Genet 252:597-607
29. Price AH, Tomos AD (1997) Genetic dissection of root growth in rice (Oryza sativa L.). II. Mapping quantitative trait loci using molecular markers. Theor Appl Genet 95:143-152
30. Price AH, Steele KA, Moore BJ, Barraclough PB, Clark J (2000) A combined RFLP and AFLP linkage map of upland rice (Oryza sativa L.) used to identify QTLs for root-penetration ability. Theor Appl Genet 100:49-56
31. Quick P, Siegl G, Neuhaus E, Feil R, Stitt M (1989) Short-term water stress leads to stimulation of sucrose synthesis by activating sucrose phosphate synthase. Planta 177:535-546
32. Ray JD, Yu L, McCouch SR, Champoux MC, Wang G, Nguyen TN (1996) Mapping quantitative trait loci associated with root penetration ability in rice (Oryza sativa L.). Theor Appl Genet 92:627-636
33. Reiter WD, Vanzin GF (2001) Molecular genetics of nucleotide sugar interconversion pathways in plants. Plant Mol Biol 47:95-113
34. Skriver K, Mundy J (1990) Gene expression in response to abscisic acid and osmotic stress. Plant Cell 2:503-512
35. Teulat B, This D, Khairallah M, Borries C, Ragot C, Sourdille P, Leroy P, Monneveux P, Charrier A (1998) Several QTLs involved in osmotic adjustment trait variation in barley (Hordeum vulgare L.). Theor Appl Genet 96:688-698
36. Thomas CM, Vos P, Zabeau M, Jones AD, Norcott KA, Chadwick BP, Jones JDG (1995) Identification of amplified restriction fragment polymorphism (AFLP) markers tightly linked to the tomato Cf-9 gene for resistance to Cladosporium fulvum. Plant J 8:785-794
37. Ulmasov T, Ohmiya A, Hagen G, Guilfoyle T (1995) The soybean GH2/4 gene that encodes a glutathione S-transferase has a promoter that is activated by a wide range of chemical agents. Plant Physiol 108:919-927
38. Yadav R, Courtois, Huang N, Melaren G (1997) Mapping genes controlling root morphology and root distribution in a doubled-haploid population of rice. Theor Appl Genet 94:619-632
39. Watanabe H, Abe K, Emori Y, Hosoyama H, Arai S (1991) Molecular cloning and gibberellin-induced expression of multiple cysteine proteinases of rice seeds (oryzains) J Biol Chem 266:16897-16902
40. Zabeau M, Vos P (1993) Selective restriction fragment amplification: a general method for DNA fingerprinting. European Patent Application No. 92402629.7. Publication No. 0534858 A1
41. Zhang J, Zheng HG, Aarti A, Pantuwan G, Nguyen TT, Tripathy TN, Sarial AK, Robin S, Babu RC, Nguyen DB, Sarkarung S, Blum A, Nguyen HT (2001) Locating genomic regions associated with components of drought resistance in rice: comparative mapping within and across species. Theor Appl Genet 103:19-29
42. Zheng HG, Babu RC, Pathan MS, Ali ML, Huang N, Courtois B, Nguyen TH (1999) Quantitative trait loci for root penetration ability and root thickness in rice: Comparison of genetic backgrounds. Genome 43:53-61