Sequence analysis of a 40·7 kb segment from the left arm of yeast chromosome X reveals 14 known genes and 13 new open reading frames including homologues of genes clustered on the right arm of chromosome XI

Yeast

Volumn 12, Issue 8, 1996, Pages 787-797

  Katsoulou, Christina ^a   Tzermia, Maria ^a   Tavernarakis, Nektarios ^a,b   Alexandraki, Despina ^a,b  

^a INSTITUTE OF MOLECULAR BIOLOGY AND BIOTECHNOLOGY   (Greece)

^b UNIVERSITY OF CRETE   (Greece)

Author keywords

Chromosome X; Chromosome XI; Genome sequencing; Glycogenin glycosyltransferase; Human phospholipase D; INO1; Leucine zippers; Membrane proteins; MP12; MRS3; RPB4; RSP25 homologue; Saccharomyces cerevisiae; SnR128; SnR190; TIF2; URA2; VPS35; YAK1; YUR1

Indexed keywords

MAMMALIA; SACCHAROMYCES CEREVISIAE;

GLYCOSYLTRANSFERASE; LEUCINE ZIPPER PROTEIN; PHOSPHOLIPASE D;

ARTICLE; COMPUTER ANALYSIS; COSMID; GENE CLUSTER; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; X CHROMOSOME;

AMINO ACID SEQUENCE; ANIMALS; CHROMOSOMES, FUNGAL; CONSERVED SEQUENCE; GENES, FUNGAL; HUMANS; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; OPEN READING FRAMES; RESTRICTION MAPPING; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY, AMINO ACID;

EID: 0029943523     PISSN: 0749503X     EISSN: None     Source Type: Journal    
DOI: 10.1002/(sici)1097-0061(19960630)12:8<787::aid-yea954>3.0.co;2-4     Document Type: Article

References (33)

1. Alexandraki, D. and Tzermia, M. (1994). Sequencing of a 13 2 kb segment next to the left telomere of yeast chromosome XI revealed five open reading frames and recent recombination events with the right arms of chromosomes III and V. Yeast 10, S81-S91.
2. Ausubel, F. M., Brent, R., Kingston, R. E., Moore, D. D., Seidman, J. G., Smith, J. A. and Struhl, K. (Eds) (1987). Current Protocols in Molecular Biology. Greene Publishing Associates and Wiley-Interscience, New York.
3. Bairoch, A. (1991). A dictionary of sites and patterns in proteins. Nucl. Acids Res. 16, 2241-2245.
4. Bussey, H., Kaback, D. B., Zhong, W., et al. (1995). The nucleotide sequence of chromosome 1 from Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA, 92, 3809-3813.
5. Dean-Johnson, M. and Henry, S. A. (1989). Biosynthesis of inositol in yeast. Primary structure of myoinositol-1-phosphate synthase and functional analysis of its structural gene, the INO1 locus. J. Biol. Chem. 264, 1274-1283.
6. Dujon, B., et al. (1994). The complete DNA sequence of chromosome XI of Saccharomyces cerevisiae (666 kb). Nature 369, 371-378.
7. Feldmann, H., et al. (1994). Complete DNA sequence of yeast chromosome II. EMBO J. 13, 5795-5809.
8. Garrett, S. and Broach, J. (1989). Loss of Ras activity in Saccharomyces cerevisiae is suppressed by disruptions of a new kinase gene, YAK1, whose product may act downstream of the cAMP-dependent protein kinase. Genes Dev. 3, 1336-1348.
9. Georgatsou, E. and Alexandraki, D. (1994). Two distinctly regulated genes are required for ferric reduction, the first step of iron uptake in Saccharomyces cerevisiae. Molec. Cell. Biol. 14, 3065-3073.
10. Higgins, D. G. and Sharp, P. M. (1988). Clustal: a package for performing multiple sequence alignment on a microcomputer. Gene 73, 237-244.
11. Huang, M.-E., Chuat, J.-C., Thierry, A., Dujon, B. and Galibert, F. (1994). Construction of a cosmid contig and of an EcoRI restriction map of yeast chromosome X. DNA Sequence 4, 293-300.
12. Johnston, M., et al. (1994). Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII. Science 265, 2077-2082.
13. Klein, P., Kanehisa, M. and DeLisi, C. (1985). The detection and classification of membrane-spanning proteins. Biochim. Biophys. Acta 815, 468-416.
14. Klig, L. S., Zobel, P. A., Devry, C. G. and Losberger, C. (1994). Comparison of INO1 gene sequence and products in Candida albicans and Saccharomyces cerevisiae. Yeast 10, 789-800.
15. Kyte, J. and Doolittle, R. F. (1982). A simple method for displaying the hydrophobic character of a protein. J. Mol. Biol. 157, 105-132.
16. Linder, P. and Slonimski, P. P. (1988). Sequence of the genes TIF1 and TIF2 from Saccharomyces cerevisiae coding for a translation initiation factor. Nucl. Acids Res. 16, 10359.
17. Maarse, A. C., Blom, J., Keil, P., Pfanner, N. and Meijer, M. (1994). Identification of the essential yeast protein MIM17, an integral mitochondrial inner membrane protein involved in protein import. FEBS Lett. 349, 215-221.
18. Marck, C. (1988). 'DNA Strider': a 'C' programme for the fast analysis of DNA and protein sequences on the Apple Macintosh family of computers. Nucl. Acids Res. 16, 1829-1836.
19. Mortimer, R. K., Schild, D., Contopoulou, C. R. and Kans, J. A. (1989). Genetic map of Saccharomyces cerevisiae, Edition 10. Yeast 5, 321-403.
20. Oliver, S. G., et al. (1992). The complete DNA sequence of yeast chromosome III. Nature 357, 38-46.
21. Paravicini, G., Horazdovsky, B. F. and Emr, S. D. (1992). Alternative pathways for the sorting of soluble vacuolar proteins in yeast: a vps35 null mutant missorts and secretes only a subset of vacuolar hydrolases. Mol. Biol. Cell 3, 415-427.
22. Pearson, V. R. and Lipman, D. J. (1988). Improved tools for biological sequence analysis. Proc. Natl. Acad. Sci. USA 85, 2444-2448.
23. Pryde, F. A., Huckle, T. C. and Louis, E. J. (1995). Sequence analysis of the right end of chromosome XV in Saccharomyces cerevisiae: an insight into the structural and functional significance of sub-telomeric repeat sequences. Yeast 11, 371-382.
24. Sharp, P. M. and Cowe, E. (1991). Synonymous codon usage in Saccharomyces cerevisiae. Yeast 7, 657-678.
25. Sharp, P. M. and Li, W.-H. (1987). The codon adaptation index - a measure of directional synonymous codon usage bias, and its potential applications. Nucl. Acids Res. 15, 1281-1295.
26. Souciet, J. L., Nagy, M., Le Gouar, M., Lacroute, F. and Potier, S. (1989). Organisation of the yeast URA2 gene: identification of a defective dihydroorotase-like domain in the multifunctional carbamoylphosphate synthetase-aspartate transcarbamylase complex. Gene 79, 59-70.
27. Tsang, T. C., Fung, W. J. C., Levine, J., Metz, C. N., Davitz, M. A., Burns, D. K., Huang, K. S. and Kochan, J. P. (1992). Isolation and expression of two human glycosylphosphatidylinositol phospholipase D (GPI-PLD) cDNAs. FASEB J. 6, 1922.
28. 2-activating protein. Yeast 10, 663-679.
29. Viskupic, E., Cao, Y., Zhang, W., Cheng, C., Depaoli-Roach, A. A. and Roach, P. J. (1992). Rabbit skeletal muscle glycogenin. Molecular cloning and production of fully functional protein in Escherichia coli. J. Biol. Chem. 267, 25759-25763.
30. Von Heijne, G. (1983). Patterns of amino acids near signal-sequence cleavage sites. Eur. J. Biochem. 133, 17-21.
31. Wiesenberger, G., Link, T. A., von Ahsen, U., Waldherr, M. and Schweyen, R. J. (1991). MRS3 and MRS4, two suppressors of mtRNA splicing defects in yeast, are new members of the mitochondrial carrier family. J. Mol. Biol. 217, 23-37.
32. Woychik, N. A. and Young, R. A. (1989). RNA polymerase II subunit RPB4 is essential for high- and low-temperature yeast cell growth. Mol. Cell. Biol. 9, 2854-2859.
33. Zagorski, J., Tollervey, D. and Fournier, M. J. (1988). Characterisation of an SNR gene locus in Saccharomyces cerevisiae that specifies both dispensable and essential small nuclear RNAs. Mol. Cell. Biol. 8, 3282-3290.