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Proc Natl Acad Sci U S A. May 9, 1995; 92(10): 4487–4491.
PMCID: PMC41969

Metaphase and interphase fluorescence in situ hybridization mapping of the rice genome with bacterial artificial chromosomes.

Abstract

Fluorescence in situ hybridization (FISH) is a powerful tool for physical mapping in human and other mammalian species. However, application of the FISH technique has been limited in plant species, especially for mapping single- or low-copy DNA sequences, due to inconsistent signal production in plant chromosome preparations. Here we demonstrate that bacterial artificial chromosome (BAC) clones can be mapped readily on rice (Oryza sativa L.) chromosomes by FISH. Repetitive DNA sequences in BAC clones can be suppressed efficiently by using rice genomic DNA as a competitor in the hybridization mixture. BAC clones as small as 40 kb were successfully mapped. To demonstrate the application of the FISH technique in physical mapping of plant genomes, both anonymous BAC clones and clones closely linked to a rice bacterial blight-resistance locus, Xa21, were chosen for analysis. The physical location of Xa21 and the relationships among the linked clones were established, thus demonstrating the utility of FISH in plant genome analysis.

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  • Viegas-Péquignot E, Berrard S, Brice A, Apiou F, Mallet J. Localization of a 900-bp-long fragment of the human choline acetyltransferase gene to 10q11.2 by nonradioactive in situ hybridization. Genomics. 1991 Jan;9(1):210–212. [PubMed]
  • Lawrence JB, Villnave CA, Singer RH. Sensitive, high-resolution chromatin and chromosome mapping in situ: presence and orientation of two closely integrated copies of EBV in a lymphoma line. Cell. 1988 Jan 15;52(1):51–61. [PubMed]
  • Trask B, Pinkel D, van den Engh G. The proximity of DNA sequences in interphase cell nuclei is correlated to genomic distance and permits ordering of cosmids spanning 250 kilobase pairs. Genomics. 1989 Nov;5(4):710–717. [PubMed]
  • Inazawa J, Ariyama T, Tokino T, Tanigami A, Nakamura Y, Abe T. High resolution ordering of DNA markers by multi-color fluorescent in situ hybridization of prophase chromosomes. Cytogenet Cell Genet. 1994;65(1-2):130–135. [PubMed]
  • Ried T, Baldini A, Rand TC, Ward DC. Simultaneous visualization of seven different DNA probes by in situ hybridization using combinatorial fluorescence and digital imaging microscopy. Proc Natl Acad Sci U S A. 1992 Feb 15;89(4):1388–1392. [PMC free article] [PubMed]
  • Lichter P, Tang CJ, Call K, Hermanson G, Evans GA, Housman D, Ward DC. High-resolution mapping of human chromosome 11 by in situ hybridization with cosmid clones. Science. 1990 Jan 5;247(4938):64–69. [PubMed]
  • Kunz J, Scherer SW, Klawitz I, Soder S, Du YZ, Speich N, Kalff-Suske M, Heng HH, Tsui LC, Grzeschik KH. Regional localization of 725 human chromosome 7-specific yeast artificial chromosome clones. Genomics. 1994 Jul 15;22(2):439–448. [PubMed]
  • Zheng CJ, Ma NS, Dorman TE, Wang MT, Braunschweiger K, Soares L, Schuster MK, Rothschild CB, Bowden DW, Torrey D, et al. Development of 124 sequence-tagged sites and cytogenetic localization of 217 cosmids for human chromosome 10. Genomics. 1994 Jul 1;22(1):55–67. [PubMed]
  • Gustafson JP, Dillé JE. Chromosome location of Oryza sativa recombination linkage groups. Proc Natl Acad Sci U S A. 1992 Sep 15;89(18):8646–8650. [PMC free article] [PubMed]
  • Ronald PC, Albano B, Tabien R, Abenes L, Wu KS, McCouch S, Tanksley SD. Genetic and physical analysis of the rice bacterial blight disease resistance locus, Xa21. Mol Gen Genet. 1992 Dec;236(1):113–120. [PubMed]
  • Richards EJ, Ausubel FM. Isolation of a higher eukaryotic telomere from Arabidopsis thaliana. Cell. 1988 Apr 8;53(1):127–136. [PubMed]
  • Causse MA, Fulton TM, Cho YG, Ahn SN, Chunwongse J, Wu K, Xiao J, Yu Z, Ronald PC, Harrington SE, et al. Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics. 1994 Dec;138(4):1251–1274. [PMC free article] [PubMed]
  • Khush GS, Singh RJ, Sur SC, Librojo AL. Primary trisomics of rice: origin, morphology, cytology and use in linkage mapping. Genetics. 1984 May;107(1):141–163. [PMC free article] [PubMed]
  • Deshpande VG, Ranjekar PK. Repetitive DNA in three Gramineae species with low DNA content. Hoppe Seylers Z Physiol Chem. 1980 Aug;361(8):1223–1233. [PubMed]
  • Woo SS, Jiang J, Gill BS, Paterson AH, Wing RA. Construction and characterization of a bacterial artificial chromosome library of Sorghum bicolor. Nucleic Acids Res. 1994 Nov 25;22(23):4922–4931. [PMC free article] [PubMed]
  • Haldi M, Perrot V, Saumier M, Desai T, Cohen D, Cherif D, Ward D, Lander ES. Large human YACs constructed in a rad52 strain show a reduced rate of chimerism. Genomics. 1994 Dec;24(3):478–484. [PubMed]
  • Ballard SG, Ward DC. Fluorescence in situ hybridization using digital imaging microscopy. J Histochem Cytochem. 1993 Dec;41(12):1755–1759. [PubMed]
  • Werner JE, Endo TR, Gill BS. Toward a cytogenetically based physical map of the wheat genome. Proc Natl Acad Sci U S A. 1992 Dec 1;89(23):11307–11311. [PMC free article] [PubMed]

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