Nature Genetics
10, 261 - 268 (1995)
doi:10.1038/ng0795-261
Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiaeYasufumi Murakami1, Masanori Naitou1, Hiroko Hagiwara1, 2, Takehiko Shibata2, 3, Masashi Ozawa1, Syun-ichi Sasanuma1, Motoe Sasanuma1, Yukari Tsuchiya1, Eiichi Soeda5, Kazushige Yokoyama5, Masaaki Yamazaki4, Hiroyuki Tashiro4
& Toshihiko Eki1
1Division of Human Genome Research, Tsukuba Life Science Center, The Institute of Physical and Chemical Research (RIKEN), 3-1-1 Koyadai, Tsukuba, Ibaraki 305, Japan
2Graduate School of Science and Engineering, Saitama University, 255 Shimo-okubo, Urawa, Saitama 338, Japan
3Biodesign Research Group, The Institute of Physical and Chemical Research (RIKEN), 2-1 Hirosawa, Wako, Saitama 351-01, Japan
4Bioscience Research Laboratory, Fujiya, Co., 228 Soya, Hatano, Kanagawa 257, Japan
5Gene Bank, Tsukuba Life Science Center, The Institute of Physical and Chemical Research (RIKEN), 3-1-1 Koyadai, Tsukuba, Ibaraki 305, Japan Correspondence should be addressed to Y.M. The complete nucleotide sequence of Saccharomyces cerevisiae chromosome VI (270 kb) has revealed that it contains 129 predicted or known genes (300 bp or longer). Thirty−seven (28%) of which have been identified previously. Among the 92 novel genes, 39 are highly homologous to previously identified genes. Local sequence motifs were compared to active ARS regions and inactive loci with perfect ARS core sequences to examine the relationship between these motifs and ARS activity. Additional ARS sequences were predominantly observed in 3' flanking sequences of active ARS loci. REFERENCES
- Olson, M.V. Genome structure and organization in Saccharomyces cerevisiae. in The molecular and cellular biology of the yeast Saccharomyces: genome dynamics, protein synthesis and energetics (eds. Broach, J.R., Jones, E.W., and J.R. Pringle, J.R.) 1−39 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, 1991). | ChemPort |
- Oliver, S.G. et al. The complete DNA sequence of yeast chromosome III. Nature 357, 38−46 (1992). | Article | PubMed | ISI | ChemPort |
- Dujon, B. et al. Complete DNA sequence of yeast chromosome XI. Nature 369, 371−378 (1994). | Article | PubMed | ISI | ChemPort |
- Johnston, M. et al. Complete nucleotide sequence of Saccharomyces cerevisiae Chromosome VIII. Science 265, 2077−2082 (1994). | PubMed | ISI | ChemPort |
- Feldmann, H. et al. Complete DNA sequence of yeast chromosome II. EMBO J. 13, 5795−5809. | PubMed | ChemPort |
- Bussey, H. et al. The nucleotide sequence of chromosome I from Saccharomyces cerevisiae. Proc. natl. Acad. Sci. U.S.A 92, 3809−3813 (1995). | PubMed | ChemPort |
- Shirahige, K., Iwasaki, T., Rashid, M.B., Ogasawara, N. & Yoshikawa, H. Localization and characterization of autonomously replicating sequence from chromosome VI of Saccnaromyces cerevisiae. Molec. cell. Biol. 13, 5043−5056 (1993). | PubMed | ISI | ChemPort |
- Campbell, J.L. & Newlon, C.S. Chromosomal DNA replication in Saccharomyces cerevisiae. in The molecular and cellular biology of the yeast Saccharomyces: genome dynamics, protein synthesis and energetics (eds Broach, J.R., Jones, E.W. & J.R. Pringle, J.R.) 41−146 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor,1991). | ChemPort |
- Deshpande, A.M. & Newlon, C.S. The ARS consensus sequence is required for chromosomal origin function in Saccharomyces cerevisiae. Molec. cell. Biol. 12, 4305−4313 (1992). | PubMed | ISI | ChemPort |
- Riles, L. et al. Physical maps of the six smallest chromosomes of Saccharomyces cerevisiae at a resolution of 2.6 kilobase pairs. Genetics 134, 81−150 (1993). | PubMed | ISI | ChemPort |
- Iwasaki, T., Shirahige, K., Yoshikawa, H. & Ogasawara, N. The direct cloning of the yeast genome using the gap-filling method and the complete physical mapping of Saccharomyces cerevsiae chromosome VI. Gene 11, 81−87 (1992).
- Mortimer, R.K. et al. Fungi: S. cerevisiae (Nuclear genes). in Genetic maps locus maps of complex genome, Sixth Edition Book 3, Lower Eukaryotes (ed. O'Brien, S.J.) 36−56 (Cold Spring Harbor Laboratory Press, New York,1993).
- van Houten, J.V. & Newlon, C.S. Mutational Analysis of the consensus sequence of replication origin from yeast chromosome III. Molec. cell. Biol. 8, 3917−3925 (1990).
- Kipling, D. & Kearsey, S. Reversion of autonomous replicating sequence mutations in Saccharomyces cerevsiae: Creation of eukaryotic replication origin with prokayotic vector DNA. Molec. cell. Biol. 10, 265−272 (1990). | PubMed | ISI | ChemPort |
- Amati, B.D. & Gasser, S.M. Chromosomal ARS and CEN elements bind specifically to the yeast nuclear scaffold. Cell 54, 967−978 (1988). | Article | PubMed | ISI | ChemPort |
- Hoffman, J.F.-X., Laroche, T., Brand, A.H. & Gasser, S.M. RAP-I factor is necessary for DNA loop formation in vitro at the silent mating type locus HML. Cell 57, 725−737 (1989). | Article | PubMed | ISI | ChemPort |
- Shore, D., Stillman, B.J., Brand, A.H. & Nasmyth, K.A. Identification of silencer binding proteins from yeast: Possible roles in SIR control and DNA replication. EMBO J. 6, 461−467 (1987). | ISI | ChemPort |
- Diffley, J.F.-X. & Stillman, B. Interactions between purified cellular proteins and yeast origin of replication. Cancer Cells 6, 235−243 (1988). | ChemPort |
- Spitzner, J.R. & Muller, M.T. A consensus sequence for cleavage by vertebrate DNA topoisomerase II. Nucl. Acids Res. 16, 5533−5555 (1988). | PubMed | ISI | ChemPort |
- Zorio, D.A.R., Cheng, N.N., Blumenthal, T. & Spieth, J. Operons as a common form of chromosomal organization in C.elgans. Nature 372, 270−272 (1994). | Article | PubMed | ISI | ChemPort |
- Saito, I. & Stark, G.R., Charomids: Cosmid vectors for efficient cloning and mapping of large and small restriction fragments. Proc. natl. Acad. Sci. U.S.A. 83, 8664−8668 (1986). | PubMed | ChemPort |
- Hanahan, D. Studies on transformation of Eschrichia coli with plasmids. J. molec. Biol. 166, 557−580 (1983). | PubMed | ISI | ChemPort |
- Sambrook, J., Fritsch, E.F. & Maniatis, T. Molecular cloning: a laboratory manual. 2nd edn (Cold Spring Harbor Press, Cold Spring Harbor, 1989).
- Hunkapiller, T., Kaiser, R.J., Koop, B.F., Hood, L. Large-scale and automated DNA sequence determination. Science 254, 59−67 (1991). | PubMed | ISI | ChemPort |
- Pearson, W. Rapid and sensitive sequence comparison with FASTP and FASTA. in Methods in Enzymology 183 (ed. Doolittle, R.F.), 63−98 (1990). | ChemPort |
|