Enrichment of Gene-Coding Sequences in Maize by Genome Filtration

Science

Volumn 302, Issue 5653, 2003, Pages 2118-2120

  Whitelaw, C A ^a   Barbazuk, W B ^b   Pertea, G ^a   Chan, A P ^a   Cheung, F ^a   Lee, Y ^a   Zheng, L ^a   Van Heeringen, S ^a   Karamycheva, S ^a   Bennetzen, J L ^c   SanMiguel, P ^d   Lakey, N ^e   Bedell, J ^e   Yuan, Y ^c   Budiman, M A ^e   Resnick, A ^a   Van Aken, S ^a   Utterback, T ^f   Riedmuller, S ^f   Williams, M ^f   Feldblyum, T ^f   Schubert, K ^b   Beachy, R ^b   Fraser, C M ^a   Quackenbush, J ^a   more..

^a J CRAIG VENTER INSTITUTE   (United States)

^b DONALD DANFORTH PLANT SCIENCE CENTER   (United States)

^c University of Georgia ^*  (United States)

^d PURDUE UNIVERSITY   (United States)

^e Orion Genomics   (United States)

^f J Craig Venter Science Foundation Joint Technology Center   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FILTRATION; PLANTS (BOTANY);

GENE-CODING; GENOME SEQUENCING;

GENES;

DNA;

GENOME; MAIZE;

ARTICLE; CENTROMERE; CEREAL; CHLOROPLAST; CLONE; DNA SEQUENCE; GENOME; GENOME SIZE; MAIZE; MITOCHONDRION; NONHUMAN; NUCLEOTIDE REPEAT; PLANT; PRIORITY JOURNAL; RETROPOSON; RIBOSOME; TELOMERE; TRANSPOSON;

CHROMOSOMES, PLANT; CLONING, MOLECULAR; COMPUTATIONAL BIOLOGY; CONTIG MAPPING; DATABASES, NUCLEIC ACID; DNA METHYLATION; DNA, PLANT; EXPRESSED SEQUENCE TAGS; GENE DOSAGE; GENE LIBRARY; GENES, PLANT; GENOME, PLANT; MOLECULAR SEQUENCE DATA; REPETITIVE SEQUENCES, NUCLEIC ACID; RETROELEMENTS; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; TRANSCRIPTION, GENETIC; ZEA MAYS;

EMBRYOPHYTA; ZEA MAYS;

EID: 0345731466     PISSN: 00368075     EISSN: None     Source Type: Journal    
DOI: 10.1126/science.1090047     Document Type: Article

References (23)

1. K. Arumuganathan, E. D. Earle, Plant Mol. Biol. Rep. 9, 208 (1991).
2. B. C. Meyers, S. V. Tingey, M. Morgante, Genome Res. 11, 1660 (2001).
3. P. S. Springer, K. J. Edwards, J. L. Bennetzen, Proc. Natl. Acad. Sci. U.S.A. 91, 863 (1994).
4. S. Hake, V, Walbot, Chromosoma 79, 251 (1980).
5. M. Freeling, Annu. Rev. Plant Physiol. 35, 277 (1984).
6. J. L. Bennetzen, K. Schrick, P. S. Springer, W. E. Brown, P. SanMiguel, Genome 37, 565 (1994).
7. P. D. Rabinowicz et al., Nature Genet. 23, 305 (1999).
8. Methylation filtering is marketed as GeneThresher Technology, a registered trademark of Orion Genomics LLC.
9. R. J. Britten, D. E. Khone, Science 161, 529 (1968).
10. R. J. Britten, E. H. Davidson, Proc. Natl. Acad. Sci. U.S.A. 73, 415 (1976).
11. Y. Yuan, P. J. SanMiguel, J. L. Bennetzen, Plant J. 33, 1 (2003).
12. The GenBank accession numbers for the sequences used in this study can be downloaded from ftp:// ftp.tigr.org/pub/data/MAIZE/Release2.0_accessions.
13. Materials and Methods are available as supporting material on Science Online.
14. J. Kent, Genome Res. 12, 656 (2002).
15. J. Quackenbush et al., Nucleic Acids Res. 29, 159 (2001).
16. W. R. Gish, WU BLAST v. 2.0 (2003). Available at http://blast.wustl.edu.
17. M. Morgante, M. Hanafey, W. Powell, Nature Genet. 30, 194 (2002).
18. S. R. McCouch et al., DNA Res. 9, 199 (2002).
19. E. S. Lander, M. S. Waterman, Genomics 2, 231 (1988).
20. J. L. Bennetzen, Genetica 115, 29 (2002).
21. K. M. Devos, M. D. Gale, Plant Cell 12, 637 (2000).
22. C. A. Whitelaw et al., data not shown.
23. We would like to acknowledge C. R. Buell and C. D. Town for critical reading of the manuscript as well as H. Koo, V. Antonescu, J. Tsai, R. Sultana, S. Sunkara, A. Nunberg, D. Robbins, R.W. Citek, C. Tatham, E. R. Flick, J. T. Jones, and the TIGR-JTC Sequencing Core members for their valuable contribution to the Consortium for Maize Genomics project. Supported by the National Science Foundation award DBI-0221536.