Genetic, physical, maps, and database resources for maize

Maydica

Volumn 50, Issue 3-4, 2005, Pages 285-303

  Coe, E H ^a   Schaeffer, M L ^a  

^a UNIVERSITY OF MISSOURI   (United States)

Author keywords

Databases; Genetic maps; Genome sequencing; Informatics; Mutants; Physical maps; Variations

Indexed keywords

ZEA MAYS;

EID: 33846101250     PISSN: 00256153     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (48)

1. ARIZONA GENOMICS COMPUTATIONAL LABORATORY (AGCoL), 2005 http://www.agcol.arizona.edu/ (accessed 26 April 2005).
2. ARIZONA GENOMICS INSTITUTE (AGI), 2005 http://genome.arizona.edu/(accessed 26 April 2005).
3. BENNETZEN J.L., V.L. CHANDLER, P. SCHNABLE, 2001 National Science Foundation-sponsored workshop report. Maize Genome Sequencing. Plant Physiol. 127: 1572-1578.
4. BURR B., F. BURR, 1991 Recombinant inbreds for molecular mapping in maize - theoretical and practical considerations. Trends Genet 7: 55-60.
5. BURR B., F. BURR, K.H. THOMPSON, M.C. ALBERTSEN, C.W. STUBER, 1988 Gene mapping with recombinant inbreds in maize. Genetics 118: 519-526.
6. CHANDLER V., V. BRENDEL, 2002 The maize genome sequencing project. Plant Physiol. 130: 1594-1597.
7. CHILDREN'S HOSPITAL OAKLAND RESEARCH INSTITUTE (CHORI), 2005 http://bacpac.chori.org/maize201.htm (accessed 26 April 2005).
8. CIMMYT SEED INSPECTION AND DISTRIBUTION UNIT, 2005 http://148.223.253.105/ (accessed 26 April 2005).
9. CLEMSON UNIVERSITY GENOMICS INSTITUTE (CUGI), 2005 https://www.genome.clemson.edu/ (accessed 26 April 2005).
10. COE E., 1998 Potentials of the National Corn Genome Initiative. Proc. Natl. Acad. Sci, USA. 95: 2029-2032.
11. COE E., 2005 Genetic 2005 maps, http://maizegdb.org/cgi-bin/ displaymaprecord.cgi?id=940880 through 940889 (accessed 26 April 2005).
12. COE E., K.C. CONE, M. MCMULLEN, S.S. CHEN, G. DAVIS, J. GARDINER, E. LISCUM, M.L. POLACCO, H. SANCHEZ-VILLEDA, Z. FANG, S. SCHROEDER, S. HAVERMANN, J. E. BOWERS, A.H. PATERSON, C.A. SODERLUND, R. WING, 2002 Access to the maize genome: an integrated physical and genetic map. Plant Physiol. 128: 9-12.
13. CONE K.C., M. MCMULLEN, I. VROH BI, G. DAVIS, Y.S. YIM, J. GARDINER, M.L. POLACCO, H. SANCHEZ-VILLEDA, Z. FANG, S. SCHROEDER, S. HAVERMANN, J. E. BOWERS, A.H. PATERSON, C.A. SODERLUND, F. ENGLER, R. WING, E.H. COE, 2002 Genetic, physical, and informatics resources for maize. On the road to an integrated map. Plant Physiol. 130: 1598-1605.
14. DANFORTH CENTER MAIZE GENOME SEQUENCING PROJECTS, 2005 http://www.maizegenome.org/ (accessed 26 April 2005).
15. DAVIS G.L. M. MCMULLEN, C. BAYSDOREER, T. MUSKET, D. GRANT, M.S. STAEBEL, G. 4, M.L. POLACCO, L. KOSTER, S. MELIA-HANCOCK, K. HOUCHINS, S. CHAO, E. COE, 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.
16. DRAYE X., Y.D. LIN, X. QIAN, J.E. BOWERS, G. BUROW, P. MORKELL, D.J. PETERSON, G. PRESTING, S. REN, R. WING, A.H. PATERSON. 2001 Toward integration of comparative genetic, physical, diversity, and cytomolecular maps for grasses and grains, using the sorghum genome as a foundation. Plant Physiol. 125: 1325-1341.
17. EDWARDS M., C.W. STUBER, J.F. WENDEL, 1987 Molecular-marker-facilitated investigations of quantitative-trait loci in maize. I. Numbers, genomic distribution, and types of gene action. Genetics 116: 113-125.
18. EMERSON R.A., G.W. BEADLE. A.C. FRASER, 1935 A summary of linkage studies in maize. Cornell Univ. Agric. Exp. Stn. Memoir 180: 1-83.
19. ENGLER F.W., J. HATFIELD, W. NELSON, C.A. SODERLUND, 2003 Locating sequence on FPC maps and selecting a minimal tiling path. Genome Res. 13: 2152-2163.
20. FANG Z., K.C. CONE, H. SANCHEZ-V ILLEDA, M.L. POLACCO, M. MCMULLEN, S. SCHROEDER, J. GARDINER, G. DAVIS, S. HAVERMANN, Y.-S. YIM, I. VROH BI, E. COE, 2003 iMap: a database-driven utility to integrate and access the genetic and physical maps of maize. Bioinformatics 19: 2105-2111.
21. GARDINER J., E. COE, S. MELIA-HANCOCK, D. HOISINGTON, S. CHAO, 1993 Development of a core RFLP map in maize using an Immortalized-F2 population. Genetics 134: 917-930.
22. GARDINER J., S. SCHROEDER, M.L. POLACCO, H. SANCHEZ-VILLEDA, Z. FANG, M. MORGANTE, T. LANDEWE, K. FENGLER, F. USECHE, M. HANAFEY, S.V. TINGEY, H. CHOU, R. WING, C.A. SODERLUND, E. COE, 2004 Anchoring 9,3971 maize expressed sequence tagged unigenes to the bacterial artificial chromosome contig map by two-dimensional overgo hybridization. Plant Physiol. 134: 1317-1326.
23. GOODMAN M.M., C.W. STUBER, K. NEWTON, 1982 Isozyme loci in maize. pp. 53-60. In: W.F. Sheridan (Ed.), Maize for Biological Research. 1982. Plant Molec. Biol. Assoc., Charlottesville, Virginia.
24. INTERAGENCY WORKING GROUP ON PLANT GENOMES (IWG), 1998 http://www.ostp.gov/NSTC/html/npgireport.html (accessed 26 April 2005).
25. INTERNATIONAL HUMAN GENOME SEQUENCING CONSORTIUM, 2001 Initial sequencing and analysis of the human genome. Nature 409: 860-921.
26. JORGENSEN R.A., 2004 Sequencing maize: just sample the salsa or go for the whole enchilada? Plant Cell 16: 787-788.
27. KLEIN P.E., R.R. KLEIN, S. CARTINHOUR, P. ULANCH, J. DONG, J. OBERT, D.T. MORISHIGE, S. SCHLUETER, K. CHILDS, M. ALE, J.E. MULLET, 2000 A high-throughput AFLP-based method for constructing integrated genetic and physical maps: progress toward a sorghum genome map. Genome Res. 10: 789-807.
28. LEE M., N. SHAROPOVA, W.D. BEAVIS, D. GRANT, M. KATT, D.L. BLAIR, A.R. HALLAUER, 2002 Expanding the genetic map of maize with the intermated B73 x Mo17, IBM population. Plant Mol. Biol. 48: 453-461.
29. MAIZE GENETICS COOPERATION STOCK CENTER, 2005 http://w3.ag.uiuc.edu/maize-coop/ (accessed 26 April 2005).
30. MAIZEGENOME.ORG, 2005 http://www.maizegenome.org/ (accessed 26 April 2005).
31. MAIZE MAPPING PROJECT (MMP), 2005 http://maizemap.org (accessed 26 April 2005).
32. MAIZE GENOME DATABASE (MAIZEGDB), 2005 http://www.maizegdb.org (accessed 26 April 2005).
33. MARRA M.A., T.A. KUCABA, N.L. DIETRICH, E.D. GREEN, B. BROWNSTEIN, R.K. WILSON, K.M. MCDONALD, L.W. HILLIER, J.D. MCPHERSON, R.H. WATERSTON, 1997 High throughput fingerprint analysis of large-insert clones. Genome Res. 7: 1072-1084.
34. MURRAY M.G., Y. MA, D.P. WEST, J. ROMERO-SEVERSON, J. CRAMER, J.M. PITAS, J. KIRSCHMAN, S. DEMARS, L. VILBRANDT, 1989 General considerations on building an RFLP linkage map with specific reference to maize, pp. 5-9. In: T. Helentjaris, B. Burr (Eds.), Development and Application of Molecular Markers to Problems in Plant Genetics. Cold Spring Harbor Laboratory, New York.
35. NEUFFER M.G, E. COE, S. WESSLER, 1997 Mutants of Maize. Cold Spring Harbor Laboratory, New York. 468 pp.
36. OTTAVIANO E., M. SARI GORLA, E. PE, C. FROVA, 1991 Molecular markers (RFLPs and HSPs) for the genetic dissection of thermotolerance in maize. Theor. Appl. Genet. 81: 713-719.
37. RUTGERS PLANT GENOME INITIATIVE (PGIR), 2005 http://pgir.rutgers.edu/ (accessed 26 April 2005).
38. SANCHEZ-VILLEDA H., S. SCHROEDER, M.L. POLACCO, M. MCMULLEN, S. HAVERMANN, G. DAVIS, I. VROH BI, K.C. CONE, N. SHAROPOVA, Y.-S. YIM, L. SCHULTZ, N. DURU, T. MUSKET, K. HOUCHINS, Z. FANG, J. GARDINER, E. COE, 2003 Development of an integrated laboratory information management system for the maize mapping project. Bioinformatics 19: 2022-2030.
39. SHAROPOVA N., M. MCMULLEN, L. SCHULTZ, S. SCHROEDER, H. SANCHEZ-VILLEDA, J. GARDINER, D. BERGSTROM, K. HOUCHINS, S. MELIA-HANCOCK, T. MUSKET, N. DURU, M.L. POLACCO, K. EDWARDS, T. G. RUFF, J.C. REGISTER, C.R. BROUWER, R.D. THOMPSON, R. VELASCO, E. CHIN, M. LEE, W. WOODMAN- CLIKEMAN, M.J. LONG, E. LISCUM, K.C. CONE, G. DAVIS, E. COE, 2002 Development and mapping of SSR markers for maize. Plant Mol. Biol. 48: 463-481.
40. SODERLUND C., I. LONGDEN, R. MOTT, 1997 FPC: a system for building contigs from restriction fingerprinted clones. Comput. Appl. Biosci. 13: 523-535.
41. SODERLUND C., S. HUMPHRAY, A. DUNHAM, L. FRENCH, 2000 Contigs built with fingerprints, markers, and FPC V4.7. Genome Res. 10: 1772-1787. http://www.agcol.arizona.edu/software/fpc/ (accessed 26 April 2005).
42. STUBER C.W., R.H. MOLL, 1972 Frequency changes of isozyme alleles in a selection experiment for grain yield in maize (Zea mays L.). Crop Sci 12: 337-341.
43. THE INSTITUTE FOR GENOMIC RESEARCH (TIGR), 2005 http://maize.tigr.org/ (accessed 2 May 2005).
44. TOMKINS J.P., G. DAVIS, D. MAIN, Y.-S. YIM, N. DURU, T. MUSKET, J.L. GOICOECHEA, D. FRISCH, E. COE, R. WING, 2002 Construction and characterization of a deep-coverage bacterial artificial chromosome library for maize. Crop Sci. 42: 928-933.
45. USDA, ARS, NATIONAL GENETIC RESOURCES PROGRAM. GERMPLASM RESOURCES INFORMATION NETWORK - (GRIN), 2005 http://www.ars-grin.gov/cgi-bin/npgs/html/crop. pl?89 (accessed 26 April 2005).
46. WHITELAW C.A., W.B. BARBAZUK, G. PERTEA, A. CHAN, F. CHEUNG, Y. LEE, L. ZHENG, S. VAN HEERINGEN, S. KARAMYCHEVA, J. BENNETZEN, P.J. SANMIGUEL, N. LAKEY, J. BEDELL, Y. YUAN, M.A. BUDIMAN, A. RESNICK, S. VAN AKEN, T. UTTERBACK, S. RIEDMULLER, M. WILLIAMS, T. FELDBLYUM, K. SCHUBERT, R.N. BEACHY, C. FRASER, J. QUACKENBUSH, 2003 Enrichment of gene-coding sequences in maize by genome filtration. Science 302: 2118-2120.
47. WINKLER C.R., N. JENSEN, M. COOPER, D. PODLICH, O.S. SMITH, 2003 On the determination of recombination rates in intermated recombinant inbred populations. Genetics 164: 741-745.
48. YIM Y.S., G. DAVIS, N. DURU, T. MUSKET, E. LINTON, J. MESSING, M. MCMULLEN, C.A. SODERLUND, M.L. POLACCO, J. GARDINER, E. COE, 2002 Characterization of three maize bacterial artificial chromosome libraries toward anchoring of the physical map to the genetic map using high-density bacterial artificial chromosome filter hybridization. Plant Physiol. 130: 1686-1696.