Exploration and mapping of microsatellite markers from subtracted drought stress ESTs in Sorghum bicolor (L.) Moench

Theoretical and Applied Genetics

Volumn 118, Issue 4, 2009, Pages 703-717

  Srinivas, G ^a   Satish, K ^a   Madhusudhana, R ^a   Seetharama, N ^a  

^a ICAR INDIAN INSTITUTE OF MILLETS RESEARCH   (India)

Author keywords

[No Author keywords available]

Indexed keywords

CANDIDATE GENES; COMPARATIVE GENOMICS; DROUGHT STRESS; FUNCTIONAL DIVERSITIES; FUNCTIONAL PROTEINS; GENES CODING; GENETIC DISTANCES; LINKAGE GROUPS; LINKAGE MAPS; MICRO-SATELLITES; MICROSATELLITE LOCUS; MICROSATELLITE MARKERS; MOLECULAR VARIATIONS; PHYSIOLOGICAL FUNCTIONS; POACEAE; REGULATORY PROTEINS; SORGHUM BICOLOR;

BIOCHEMISTRY; DROUGHT; GENES; PROTEINS; SEMICONDUCTOR RELAYS;

OPTICAL TOMOGRAPHY;

MICROSATELLITE DNA; PRIMER DNA;

ADAPTATION; AGAR GEL ELECTROPHORESIS; ARTICLE; CHROMOSOME MAP; DROUGHT; EXPRESSED SEQUENCE TAG; GENETIC POLYMORPHISM; GENETICS; SORGHUM;

ADAPTATION, BIOLOGICAL; CHROMOSOME MAPPING; DNA PRIMERS; DROUGHTS; ELECTROPHORESIS, AGAR GEL; EXPRESSED SEQUENCE TAGS; MICROSATELLITE REPEATS; POLYMORPHISM, GENETIC; SORGHUM;

POACEAE; SORGHUM BICOLOR;

EID: 60449085226     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-008-0931-z     Document Type: Article

References (72)

1. G Aubert J Morin F Jacquin K Loridon MC Quillet A Petit C Rameau I Lejeune-Hénaut T Huguet J Burstin 2006 Functional mapping in pea, as an aid to the candidate gene selection and for investigating synteny with the model legume Medicago truncatula Theor Appl Genet 112 1024 1041
2. D Bhattramakki J Dong AK Chhabra GE Hart 2000 An integrated SSR and RFLP linkage map of Sorghum bicolor (L.) Moench Genome 43 988 1002
3. G Binelli L Ginafranceschi ME Pe G Taramino D Busso J Stenhouse E Ottaviano 1992 Similarity of maize and sorghum genomes as revealed by maize RFLP probes Theor Appl Genet 84 10 16
4. HJ Bohnert DE Nelson RG Jensen 1995 Adaptations to environmental stresses Plant Cell 7 1099 1111
5. K Boivin M Deu JF Rami G Trouche P Hamon 1999 Towards a saturated sorghum map using RFLP and AFLP markers Theor Appl Genet 98 320 328
6. EA Bray 1997 Plant responses to water deficit Trends in Plant Sci 2 48 54
7. SM Brown MS Hopkins SE Mitchell ML Senior TY Wang RR Duncan F Gonzales-Candelas S Kresovitch 1996 Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench] Theor Appl Genet 93 190 198
8. Q Chao M Rothenberg R Solano G Roman W Terzaghi JR Ecker 1997 Activation of the ethylene gas response pathway in Arabidopsis by the nuclear protein ETHYLENE-INSENSITIVE3 and related proteins Cell 89 1133 1144
9. LM Chittenden KF Schertz YR Lin RA Wing AH Paterson 1994 A detailed RFLP map of Sorghum bicolor × S. propinquum, suitable for high density mapping, suggests ancestral duplication of sorghum chromosomes or chromosomal segments Theor Appl Genet 87 925 933
10. YG Cho T Ishii S Temnykh X Chen L Lipovich SR McCouch WD Park N Ayres S Cartinhour 2000 Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.) Theor Appl Genet 100 713 722
11. GM Cordeiro R Casu CL McIntyre JM Manners RJ Henry 2001 Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to Erianthus and sorghum Plant Sci 160 1115 1123
12. OR Crasta WW Xu DT Rosenow J Mullet HT Nguyen 1999 Mapping of post-flowering drought resistance traits in grain sorghum: association between QTLs influencing premature senescence and maturity Mol Gen Genet 262 579 588
13. De Vicente C, Metz T, Alercia A (2004) Descriptors for genetic markers technologies. IPGRI
14. LR Dice 1945 Measures of the amount of ecologic association between species Ecology 26 912 920
15. P Dufour M Deu L Grivet A D'Hont F Paulet A Bouet C Lanaud JC Glaszmann P Hamon 1997 Construction of a composite sorghum genome map and comparison with sugarcane, a related complex polyploid Theor Appl Genet 94 409 418
16. I Eujayl ME Sorrells M Baum P Wolters W Powell 2002 Assessment of genotypic variation among cultivated durum wheat based on EST-SSRs Euphytica 119 39 43
17. AK Fritz S Caldwell WD Worral 1999 Molecular mapping of Russian wheat aphid resistance from triticale accession, PI 386156 Crop Sci 39 1707 1710
18. B Hackauf P Wehling 2002 Identification of microsatellite polymorphisms in an expressed portion of the rye genome Plant Breed 121 17 25
19. Z Han C Wang X Song W Guo J Gou C Li X Chen T Zhang 2006 Characteristics, development and mapping of Gossypium hirsutum derived EST-SSRs in allotetraploid cotton Theor Appl Genet 112 430 439
20. BIG Haussmann V Mahalakshmi BVS Reddy N Seetharama CT Hash HH Geiger 2002 QTL mapping of stay-green in two sorghum recombinant inbred populations Theor Appl Genet 106 143 148
21. TA Holton JT Christopher L McClure N Harker RJ Henry 2002 Identification and mapping of polymorphic SSR markers from expressed gene sequences of barley and wheat Mol Breed 9 63 71
22. X Huang A Madan 1999 CAP3: a DNA sequence assembly program Genome Res 9 868 877
23. SH Hulbert TE Richter JD Axtell JL Bennetzen 1990 Genetic mapping and characterization of sorghum and related crops by means of maize DNA probes Proc Natl Acad Sci USA 87 4251 4255
24. RV Kantety M La Rota DE Matthews ME Sorrells 2002 Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat Plant Mol Biol 48 501 510
25. H Kebede PK Subudhi DT Rosenow HT Nguyen 2001 Quantitative trait loci influencing drought tolerance in grain sorghum (Sorghum bicolor L. Moench) Theor Appl Genet 103 266 276
26. JS Kim PE Klein RR Klein HJ Price JE Mullet DM Stelly 2005 Chromosome identification and nomenclature of Sorghum bicolor Genetics 169 1169 1173
27. L Kong J Dong GE Hart 2000 Characteristics, linkage map positions, and allelic differentiation of Sorghum bicolor (L.) Moench DNA simple-sequence repeats (SSRs) Theor Appl Genet 101 438 448
28. X Li Y Song K Century S Straight P Ronald X Dong M Lassner Y Zhang 2001 A fast neutron deletion mutagenesis-based reverse genetics systems for plants Plant J 27 235 242
29. BF Matthews TE Devine JM Weisemann HS Beard KS Lewers MH McDonald Y-B Park R Maiti J-J Lin J Kuo MJ Pedroni PB Cregan JA Saunders 2001 Incorporation of sequenced cDNA and genomic markers into the soybean genetic map Crop Sci 41 516 521
30. MA Menz RR Klein JE Mullet JA Obert NC Unruh PE Klein 2002 A high-density genetic map of Sorghum bicolor (L.) Moench based on 2926 AFLP, RFLP and SSR markers Plant Mol Biol 48 483 499
31. MC Moretzsohn L Leoi K Proite PM Guimaraes SC Leal-Bertioli MA Gimenes WS Martins JF Valls D Grattapaglia DJ Bertioli 2005 A microsatellite-based, gene-rich linkage map for the AA genome of Arachis (Fabaceae) Theor Appl Genet 111 1060 1071
32. HT Nguyen RC Babu A Blum 1997 Breeding for drought resistance in rice: physiology and molecular genetics considerations Crop Sci 37 1426 1434
33. N Nicot V Chiquet B Gandon L Amilhat F Legeai P Leroy M Bernard P Sourdille 2004 Study of simple sequence repeat (SSR) markers from wheat expressed sequence tags (ESTs) Theor Appl Genet 109 800 805
34. JD Peleman JR van der Voort 2003 Breeding by design Trends Plant Sci 8 330 334
35. LH Pratt C Liang M Shah F Sun H Wang SP Reid RG Alan AH Paterson R Wing R Dean R Klein HT Nguyen Ma Hi X Zhao TM Daryl JE Mullet M Cordonnier-Pratt 2005 Sorghum expressed sequence tags identify signature genes for drought, pathogenesis, and skotomorphogenesis from a milestone set of 16,801 unique transcripts Plant Physiol 139 869 884
36. JL Prioul S Pelleschi M Séne C Thévenot M Causse D de Vienne A Leonard 1999 From QTLs for enzyme activity to candidate genes in maize J Exp Bot 50 1281 1288
37. A Rafalski 2002 Applications of single nucleotide polymorphisms in crop genetics Curr Opin Plant Biol 5 94 1000
38. Rohlf FJ (2000) NTSYS-pc, numerical taxonomy and multivariate analysis system, version 2.10e. Applied Biostatistics, New York
39. Rosenow DT (1987) Breeding sorghum for drought resistance. In: Menyonga JM, Bezune T, Yuodeowei A (eds) Proceedings of the international drought symposium. OAU/STRCSAFGRAD Coordination Office, Ouagadougou, Burkina Faso, pp 19-23
40. Rosenow DT, Clark LE (1981) Drought tolerance in sorghum. In: Loden HD, Wilkinson D (eds) Proceedings of the 36th annual corn and sorghum research conference (Chicago, IL, 9-11 December 1981), pp 18-31
41. D Rosenow JE Quisenberry CE Wendt LE Clark 1983 Drought tolerant sorghum and cotton germplasm Agric Water Manag 7 207 222
42. MA Saghai-Maroof KM Soliman RA Jordensen RW Allard 1984 Ribosomal DNA spacer-length polymorphism in barley: Mendelian inheritance, chromosomal location, and population dynamics Proc Natl Acad Sci 81 8014 8018
43. KD Scott P Eggler G Seaton M Rosetto EM Ablett LS Lee RJ Henry 2000 Analysis of SSRs derived from grape ESTs Theor Appl Genet 100 723 726
44. M Seki M Narusaka J Ishida T Nanjo M Fujita Y Oono A Kamiya M Nakajima A Enju T Sakurai M Satou K Akiyama T Taji K Yamaguchi-Shinozaki P Carninci J Kawai Y Hayashizaki Shinozaki Kazuo 2003 Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray Plant J 31 279 292
45. K Shinozaki K Yamaguchi-Shinozaki 1996 Molecular responses to drought and cold stress Curr Opin Biotechnol 7 161 167
46. K Shinozaki K Yamaguchi-Shinozaki 1997 Gene expression and signal transduction in water-stress response Plant Physiol 115 327 334
47. K Shinozaki K Yamaguchi-Shinozaki 2000 Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways Curr Opin Plant Biol 3 217 223
48. JSC Smith S Kresovich MS Hopkins SE Mitchell RE Dean WL Woodman M Lee K Porter 2000 Genetic diversity among elite sorghum inbred lines assessed with simple sequence repeats Crop Sci 40 226 232
49. R Solano A Stepanova Q Chao JR Ecker 1998 Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1 Genes Dev 12 3703 3714
50. ME Sorrells WA Wilson 1997 Direct classification and selection of superior alleles for crop improvement Crop Sci 37 691 697
51. Stam P, Van Ooijen JW (1995) JOINMAP. software for the calculation of genetic linkage maps. CPRO-DLO, Wageningen
52. PK Subudhi DT Rosenow HT Nguyen 2000 Quantitative trait loci for the stay green trait in sorghum (Sorghum bicolor L. Moench): consistency across genetic backgrounds and environments Theor Appl Genet 101 733 741
53. KP Swarup K Anand Raj Kumar Vivek Dalal KS Nagendra T Mohapatra 2006 Unigene derived microsatellite markers for the cereal genomes Theor Appl Genet 112 808 817
54. YZ Tao RG Henzell DR Jordan DG Butler AM Kelly CL Mcintyre 2000 Identification of genomic regions associated with stay-green in sorghum by testing RILs in multiple environments Theor Appl Genet 100 1225 1232
55. G Taramino R Tarchini S Ferrario M Lee ME Pe 1997 Characterization and mapping of simple sequence repeats (SSRs) in Sorghum bicolor Theor Appl Genet 95 66 72
56. DR Taylor PK Ingvarsson 2003 Common features of segregation distortion in plants and animals Genetica 117 27 35
57. T Thiel W Michalek RK Varshney A Graner 2003 Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.) Theor Appl Genet 106 411 422
58. JM Thornsberry MM Goodman J Doebley S Kresovich D Nielsen ES Buckler IV 2001 Dwarf8 polymorphisms associate with variation in flowering time Nat Genet 28 286 289
59. MR Tuinstra EM Grote PB Goldsbough G Ejeta 1996 Identification of quantitative trait loci associated with pre-flowering drought tolerance in sorghum Crop Sci 36 1337 1344
60. MR Tuinstra EM Grote PB Goldsbrough G Ejeta 1997 Genetic analysis of post-flowering drought tolerance and components of grain development in Sorghum bicolor (L.) Moench Mol Breed 3 439 448
61. Van Ooijen JW, Voorrips RE (2001) JOINMAP 3.0. software for the calculation of genetic linkage maps. Plant Research International, Wageningen
62. V Vance H Vaucheret 2001 RNA silencing in plants-defence and counterdefence Science 292 2277 2280
63. RK Varshney A Graner ME Sorrells 2005 Genomics-assisted breeding for crop improvement Trends Plant Sci 10 621 630
64. E Vierling 1991 The roles of heat shock proteins in plants Annu Rev Plant Physiol Plant Mol Biol 42 579 620
65. R Whitkus J Doebley M Lee 1992 Comparative genome mapping of sorghum and maize Genetics 132 119 130
66. ID Wilson GL Barker KJ Edwards 2003 Genotype to phenotype: a technological challenge Ann Appl Bot 142 33 39
67. YQ Wu Y Huang 2006 An SSR genetic map of Sorghum bicolor (L) Moench and its comparison to a published genetic map Genome 50 84 89
68. W Xu PK Subudhi OR Crasta DT Rosenow JE Mullet NT Nguyen 2000 Molecular mapping of QTLs conferring stay-green in grain sorghum (Sorghum bicolor L. Moench) Genome 43 461 469
69. TF Yang ZH Gonzalez-Carranza MJ Maunders JA Roberts 2008 Ethylene and the regulation of senescence processes in transgenic Nicotiana sylvestris plants Ann Bot 101 301 310
70. WK Zhang YJ Wang GZ Luo JS Zhang CY He XL Wu JY Gai SY Chen 2004 QTL mapping of ten agronomic traits on the soybean (Glycine max L. Merr.) genetic map and their association with EST markers Theor Appl Genet 108 1131 1139
71. LY Zhang M Bernard P Leroy C Feuillet P Sourdille 2005 High transferability of bread wheat EST-derived SSRs to other cereals Theor Appl Genet 111 677 687
72. J Zhu PM Hasegawa RA Bressan 1997 Molecular aspects of osmotic stress in plants Crit Rev Plant Sci 16 253 327