Gramene, a tool for grass genomics

Plant Physiology

Volumn 130, Issue 4, 2002, Pages 1606-1613

  Ware, Doreen H ^a   Jaiswal, Pankaj ^b   Ni, Junjian ^b   Yap, Immanuel V ^b   Pan, Xioakang ^a   Clark, Ken Y ^a   Teytelman, Leonid ^a   Schmidt, Steven C ^a   Zhao, Wei ^a   Chang, Kuan ^a   Cartinhour, Sam ^c   Stein, Lincoln D ^a   McCouch, Susan R ^b  

^a Howard Hughes Medical Institute Cold Spring Harbor Laboratory Cold Spring Harbor   (United States)

^b Department of Obstetrics Gynecology   (United States)

^c U S DEPARTMENT OF AGRICULTURE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DATABASE SYSTEMS; GENES; MUTAGENESIS; PROTEINS;

GENE ONTOLOGY;

PLANTS (BOTANY);

AVENA; AVENA SATIVA; EMBRYOPHYTA; HORDEUM; HORDEUM VULGARE; HORDEUM VULGARE SUBSP. VULGARE; ORYZA SATIVA; POACEAE; SORGHUM BICOLOR; TRITICUM; TRITICUM AESTIVUM; ZEA; ZEA MAYS;

EID: 12244283747     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.015248     Document Type: Review

References (20)

1. Ahn S, Tanksley SD (1993) Comparative linkage maps of the rice and maize genomes. Proc Natl Acad Sci USA 90: 7980-7984
2. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT et al. (2000) Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29
3. Bligh H, Till R, Jones C (1995) A microsatellite sequence closely linked to the Waxy gene of Oryza sativa. Euphytica 86: 83-85
4. Causse MA, Fulton TM, Cho YG, Ahn SN, Chunwongse J, Wu K, Xiao J, Yu Z, Ronald PC, Harrington SE et al. (1994) Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138: 1251-1274
5. Chen M, Presting G, Barbazuk WB, Goicoechea JL, Blackmon B, Fang G, Kim H, Frisch D, Yu Y, Sun S et al. (2002) An integrated physical and genetic map of the rice genome. Plant Cell 14: 537-545
6. Feuillet C, Keller B (1999) High gene density is conserved at syntenic loci of small and large grass genomes. Proc Natl Acad Sci USA 96: 8265-8270
7. Gale MD, Devos KM (1998) Comparative genetics in the grasses. Proc Natl Acad Sci USA 95: 1971-1974
8. Harushima Y, Yano M, Shomura A, Sato M, Shimano T, Kuboki Y, Yamamoto T, Lin SY, Antonio BA, Parco Aet al. (1998) A high-density rice genetic linkage map with 2275 markers using a single F2 population. Genetics 148: 479-494
9. Hubbard T, Barker D, Birney E, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T et al. (2002) The Ensembl genome database project. Nucleic Acids Res 30: 38-41
10. Jaiswal P, Ware D, Ni J, Chang K, Zhao W, Schmidt S, Pan X, Clark K, Teytelman L, Cartinhour S et al. (2002) Gramene: Development and integration of trait and gene ontologies for rice. Comp Funct Genom 3: 132-136
11. Matthews DE, Carollo VL, Lazo GR, Anderson OD (2003) GrainGenes, the genome database for small-grain crops. Nucleic Acids Res 31: (in press)
12. Polacco M, Coe E Jr (1999) MaizeDB: The maize genome database. In S Letovsky, ed, Bioinformatics: Databases and Systems. Kluwer Academic Publishers, Boston, pp 151-162
13. Quackenbush J, Cho J, Lee D, Liang F, Holt I, Karamycheva S, Parvizi B, Pertea G, Sultana R, White J (2001) The TIGR gene indices: Analysis of gene transcript sequences in highly sampled eukaryotic species. Nucleic Acids Res 29: 159-164
14. Salamov AA, Solovyev VV (2000) Ab initio gene finding in Drosophila genomic DNA. Genome Res 10: 516-522
15. Sasaki T, Burr B (2000) International Rice Genome Sequencing Project: The effort to completely sequence the rice genome. Curr Opin Plant Biol 3: 138-141
16. Temnykh S, DeClerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S (2001) Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): Frequency, length variation, transposon associations, and genetic marker potential. Genome Res 11: 1441-1452
17. Van Deynze AE, Sorrells ME, Park WD, Ayres Park, Fu HY, Cartinhour SW, Paul E, McCouch SR (1998) Anchor probes for comparative mapping of grass genera. Theor Appl Genet 97: 356-369
18. Ware D, Jaiswal P, Ni J, Pan X, Chang K, Clark K, Teytelman L, Schmidt S, Zhao W, Cartinhour S et al. (2002) Gramene: A resource for comparative grass genomics. Nucleic Acids Res 30: 103-105
19. Wilson WA, Harrington SE, Woodman WL, Lee M, Sorrells ME, McCouch SR (1999) Inferences on the genome structure of progenitor maize through comparative analysis of rice, maize and the domesticated panicoids. Genetics 153: 453-473
20. Yu J, Hu S, Wang J, Wong GK, Li S, Liu B, Deng Y, Dai L, Zhou Y, Zhang X et al. (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296: 79-92