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Sequence-tagged sites (STSs) as standard landmarkers in the rice genome

Theoretical and Applied Genetics volume 89, pages 728–734 (1994)Cite this article

Abstract

Generating sequence-tagged sites (STSs) is a prerequisite to convert a genetic map to a physical map. With the help of sequence information from these STSs one can also isolate specific genes. For these purposes, we have designed PCR primer sets, of 20 bases each, by reference to sequences of restriction fragment length polymorphism (RFLP) landmarkers consisting of rice genomic clones. These markers were evenly distributed over the 12 chromosomes and were shown to be single copy by Southern-blot analysis. With improved PCR protocols, 63 standard STS landmarkers in the rice genome were generated. Similarity searches of all partial sequences of RFLP landmarkers by the FASTA algorithm showed that 2 of the 63 RFLP landmarkers, G357 and G385, contained part of the ORFs of aspartate aminotransferase and protein kinase, respectively.

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Affiliations

  1. Rice Genome Research Program, National Institute of Agrobiolog-cal Resources/Institute of Society for Techno-Innovation of Agriculture, Forestry and Fisheries, 1-2 Kannondai 2-chome, Tsukuba, 305, Ibaraki, Japan

    T. Inoue, H. S. Zhong, A. Miyao, I. Ashikawa, L. Monna, S. Fukuoka, N. Miyadera, Y. Nagamura, N. Kurata, T. Sasaki & Y. Minobe

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  1. T. Inoue
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  2. H. S. Zhong
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  3. A. Miyao
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  4. I. Ashikawa
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  5. L. Monna
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  6. S. Fukuoka
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  7. N. Miyadera
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  8. Y. Nagamura
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  9. N. Kurata
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  10. T. Sasaki
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  11. Y. Minobe
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Communicated by G. S. Khush

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Inoue, T., Zhong, H.S., Miyao, A. et al. Sequence-tagged sites (STSs) as standard landmarkers in the rice genome. Theoret. Appl. Genetics 89, 728–734 (1994). https://doi.org/10.1007/BF00223712

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  • DOI: https://doi.org/10.1007/BF00223712

Key words

  • STS
  • RFLP
  • Rice
  • Genetic map
  • Coding region