Distributed simple sequence repeat markers for efficient mapping from maize public mutagenesis populations

Theoretical and Applied Genetics

Volumn 121, Issue 4, 2010, Pages 697-704

  Martin, Federico ^a   Dailey, Sarah ^a   Settles, A Mark ^a  

^a UNIVERSITY OF FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GENETIC BACKGROUNDS; GENETIC MAP; GENETIC VARIANTS; GENOME SEQUENCES; MAP-BASED CLONING; MEAN DISTANCES; MOLECULAR GENETICS; MOLECULAR MARKER; POLYMORPHIC MARKERS; PUBLIC RESOURCES; RAPID MAPPING; SEED MUTANT; SIMPLE SEQUENCE-REPEAT MARKERS; THERMOCYCLING;

CLONING; MUTAGENESIS; POLYMORPHISM;

MAPPING;

ZEA MAYS;

ARTICLE; CHROMOSOME MAP; CHROMOSOME SEGREGATION; CROSS BREEDING; GENE LOCUS; GENETIC DATABASE; GENETIC MARKER; GENETIC POLYMORPHISM; GENETICS; INBREEDING; MAIZE; METHODOLOGY; MUTAGENESIS; PLANT CHROMOSOME; VARIABLE NUMBER OF TANDEM REPEAT;

CHROMOSOME MAPPING; CHROMOSOME SEGREGATION; CHROMOSOMES, PLANT; CROSSES, GENETIC; DATABASES, GENETIC; GENETIC LOCI; GENETIC MARKERS; INBREEDING; MINISATELLITE REPEATS; MUTAGENESIS; PHYSICAL CHROMOSOME MAPPING; POLYMORPHISM, GENETIC; ZEA MAYS;

EID: 78049369148     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-010-1341-6     Document Type: Article

References (36)

1. Ahern KR, Deewatthanawong P, Schares J, Muszynski M, Weeks R, Vollbrecht E, Duvick J, Brendel VP, Brutnell TP (2009) Regional mutagenesis using Dissociation in maize. Methods 49: 248-254.
2. Appleby N, Edwards D, Batley J (2009) New technologies for ultra-high throughput genotyping in plants. Methods Mol Biol 513: 19-39.
3. Bortiri E, Jackson D, Hake S (2006) Advances in maize genomics: the emergence of positional cloning. Curr Opin Plant Biol 9: 164-171.
4. Burr B, Burr FA, Thompson KH, Albertson MC, Stuber CW (1988) Gene mapping with recombinant inbreds in maize. Genetics 118: 519-526.
5. Carson C, Robertson J, Coe E (2004) High-volume mapping of maize mutants with simple sequence repeat markers. Plant Mol Biol Rep 22: 131-143.
6. Chang MT, Neuffer MG (1994) Endosperm-embryo interaction in maize. Maydica 39: 9-18.
7. Consonni G, Gavazzi G, Dolfini S (2005) Genetic analysis as a tool to investigate the molecular mechanisms underlying seed development in maize. Ann Bot 96: 353-362.
8. Cowperthwaite M, Park W, Xu Z, Yan X, Maurais SC, Dooner HK (2002) Use of the transposon Ac as a gene-searching engine in the maize genome. Plant Cell 14: 713-726.
9. Davis GL, McMullen MD, Baysdorfer C, Musket T, Grant D, Staebell M, Xu G, Polacco M, Koster L, Melia-Hancock S, Houchins K, Chao S, Coe EH Jr (1999) A maize map standard with sequenced core markers, grass genome reference points and 932 expressed sequence tagged sites (ESTs) in a 1736-locus map. Genetics 152: 1137-1172.
10. Erhard KF Jr, Stonaker JL, Parkinson SE, Lim JP, Hale CJ, Hollick JB (2009) RNA polymerase IV functions in paramutation in Zea mays. Science 323: 1201-1205.
11. Falque M, Decousset L, Dervins D, Jacob AM, Joets J, Martinant JP, Raffoux X, Ribiere N, Ridel C, Samson D, Charcosset A, Murigneux A (2005) Linkage mapping of 1454 new maize candidate gene Loci. Genetics 170: 1957-1966.
12. Fernandes J, Dong Q, Schneider B, Morrow DJ, Nan GL, Brendel V, Walbot V (2004) Genome-wide mutagenesis of Zea mays L. using RescueMu transposons. Genome Biol 5: R82.
13. Fu Y, Wen TJ, Ronin YI, Chen HD, Guo L, Mester DI, Yang Y, Lee M, Korol AB, Ashlock DA, Schnable PS (2006) Genetic dissection of intermated recombinant inbred lines using a new genetic map of maize. Genetics 174: 1671-1683.
14. Gallavotti A, Barazesh S, Malcomber S, Hall D, Jackson D, Schmidt RJ, McSteen P (2008) sparse inflorescence1 encodes a monocot-specific YUCCA-like gene required for vegetative and reproductive development in maize. Proc Natl Acad Sci USA 105: 15196-15201.
15. Gutierrez-Marcos JF, Dal Pra M, Giulini A, Costa LM, Gavazzi G, Cordelier S, Sellam O, Tatout C, Paul W, Perez P, Dickinson HG, Consonni G (2007) empty pericarp4 encodes a mitochondrion-targeted pentatricopeptide repeat protein necessary for seed development and plant growth in maize. Plant Cell 19: 196-210.
16. Haldane JBS (1919) The combination of linkage values and the calculation of distance between the loci of linked factors. J Genet 8: 299-309.
17. Hamblin MT, Warburton ML, Buckler ES (2007) Empirical comparison of simple sequence repeats and single nucleotide polymorphisms in assessment of maize diversity and relatedness. PloS One 2: e1367.
18. Heckel T, Werner K, Sheridan WF, Dumas C, Rogowsky PM (1999) Novel phenotypes and developmental arrest in early embryo specific mutants of maize. Planta 210: 1-8.
19. Jander G, Norris SR, Rounsley SD, Bush DF, Levin IM, Last RL (2002) Arabidopsis map-based cloning in the post-genome era. Plant Physiol 129: 440-450.
20. Jones ES, Sullivan H, Bhattramakki D, Smith JS (2007) A comparison of simple sequence repeat and single nucleotide polymorphism marker technologies for the genotypic analysis of maize (Zea mays L.). Theor Appl Genet 115: 361-371.
21. Kiesselbach TA (1949) The structure and reproduction of corn. Research Bulletin 161, University of Nebraska College of Agriculture.
22. Kolkman JM, Conrad LJ, Farmer PR, Hardeman K, Ahern KR, Lewis PE, Sawers RJ, Lebejko S, Chomet P, Brutnell TP (2005) Distribution of Activator (Ac) throughout the maize genome for use in regional mutagenesis. Genetics 169: 981-995.
23. Lawrence CJ, Harper LC, Schaeffer ML, Sen TZ, Seigfried TE, Campbell DA (2008) MaizeGDB: the maize model organism database for basic, translational, and applied research. Int J Plant Genomics 2008: 496957.
24. Lee M, Sharopova N, Beavis WD, Grant D, Katt M, Blair D, Hallauer A (2002) Expanding the genetic map of maize with the intermated B73 × Mo17 (IBM) population. Plant Mol Biol 48: 453-461.
25. Liu S, Chen HD, Makarevitch I, Shirmer R, Emrich SJ, Dietrich CR, Barbazuk WB, Springer NM, Schnable PS (2009) High-throughput genetic mapping of mutants via quantitative SNP-typing. Genetics 184: 19-26.
26. May BP, Liu H, Vollbrecht E, Senior L, Rabinowicz PD, Roh D, Pan X, Stein L, Freeling M, Alexander D, Martienssen R (2003) Maize-targeted mutagenesis: a knockout resource for maize. Proc Natl Acad Sci USA 100: 11541-11546.
27. McCarty DR, Settles AM, Suzuki M, Tan BC, Latshaw S, Porch T, Robin K, Baier J, Avigne W, Lai J, Messing J, Koch KE, Hannah LC (2005) Steady-state transposon mutagenesis in inbred maize. Plant J 44: 52-61.
28. McMullen MD, Kresovich S, Villeda HS, Bradbury P, Li H, Sun Q, Flint-Garcia S, Thornsberry J, Acharya C, Bottoms C, Brown P, Browne C, Eller M, Guill K, Harjes C, Kroon D, Lepak N, Mitchell SE, Peterson B, Pressoir G, Romero S, Oropeza Rosas M, Salvo S, Yates H, Hanson M, Jones E, Smith S, Glaubitz JC, Goodman M, Ware D, Holland JB, Buckler ES (2009) Genetic properties of the maize nested association mapping population. Science 325: 737-740.
29. Neuffer MG, England D (1995) Induced mutations with confirmed locations. Maize Genetics Coop News Lett 69: 43-46.
30. Scanlon MJ, Stinard PS, James MG, Myers AM, Robertson DS (1994) Genetic-analysis of 63 mutations affecting maize kernel development isolated from mutator stocks. Genetics 136: 281-294.
31. Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, van Buren P, Vaughn MW, Ying K, Yeh C-T, Emrich SJ, Jia Y, Kalyanaraman A, Hsia A-P, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia J-M, Deragon J-M, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK (2009) The B73 maize genome: complexity, diversity, and dynamics. Science 326: 1112-1115.
32. Settles AM (2009) Transposon tagging and reverse genetics. In: Kriz A, Larkens B (eds) Molecular genetic approaches to maize improvement. Springer, Berlin, pp 143-160.
33. Settles AM, Latshaw S, McCarty DR (2004) Molecular analysis of high-copy insertion sites in maize. Nucleic Acids Res 32: e54.
34. Sharopova N, McMullen MD, Schultz L, Schroeder S, Sanchez-Villeda H, Gardiner J, Bergstrom D, Houchins K, Melia-Hancock S, Musket T, Duru N, Polacco M, Edwards K, Ruff T, Register JC, Brouwer C, Thompson R, Velasco R, Chin E, Lee M, Woodman-Clikeman W, Long MJ, Liscum E, Cone K, Davis G, Coe EH Jr (2002) Development and mapping of SSR markers for maize. Plant Mol Biol 48: 463-481.
35. Thompson BE, Bartling L, Whipple C, Hall DH, Sakai H, Schmidt R, Hake S (2009) Bearded-ear encodes a MADS box transcription factor critical for maize floral development. Plant Cell 21: 2578-2590.
36. Till BJ, Reynolds SH, Weil C, Springer N, Burtner C, Young K, Bowers E, Codomo CA, Enns LC, Odden AR, Greene EA, Comai L, Henikoff S (2004) Discovery of induced point mutations in maize genes by TILLING. BMC Plant Biol 4: 12.