The complete DNA sequence of yeast chromosome III

Oliver, Stephen G.; Aart, Quirina J. M. Van Der; Agostoni-Carbone, M. L.; Aigle, Michel; Alberghina, Lilia; Alexandraki, Despina; Antoine, Gerhard; Anwar, Rashida; Ballesta, Juan P. G.; Bénit, Paule; Berben, Gilbert; Bergantino, Elisabetta; Biteau, Nicolas; Bolle, P. A.; Bolotin‐Fukuhara, Monique; Brown, A. J. P.; Buhler, Jean‐Marie; Carcano, C.; Carignani, Giovanna; Cederberg, Håkan; Chanet, Roland; Contreras, Roland; Crouzet, Marc; Daignan‐Fornier, Bertrand; Defoor, E.; Delgado, Marco A.; Demolder, Jan; Doira, C.; Dubois, Evelyne; Dujon, Bernard; Düsterhöft, Andreas; Erdmann, Dirk; Esteban, M.; Fabre, Francis; Fairhead, Cécile; Faye, Gérard; Feldmann, Horst; Fiers, Walter; Francingues-Gaillard, Marie Claude; Franco, Luís; Frontali, Laura; Fukuhara, Hiroshi; Fuller, Linda J.; Galland, Paul; Gent, Manda E.; Gigot, Daniel; Gilliquet, Véronique; Glansdorff, Nicolas; Goffeau, André; Grenson, Marcelle; Grisanti, Paola; Grivell, L.A.; Haan, M. de; Haasemann, M; Hatat, D.; Hoenicka, Janet; Hegemann, Johannes H.; Herbert, Christopher J.; Hilger, François; Höhmann, Susanne; Hollenberg, C. P.; Huse, Kanutte; Iborra, François; Indje, K. J.; Isono, Katsumi; Jacq, Claude; Jacquet, Michel; James, C. M.; Jauniaux, J. C.; Jia, Yankai; Jiménez, Antonio Moreno; Kelly, Alan J.; Kleinhans, Ulrich; Kreisl, Peter; Lanfranchi, Gerolamo; Lewis, Clare M.; vanderLinden, C. G.; Lucchini, Giorgio; Lützenkirchen, Katja; Maat, M.J.; Mallet, Laurent; Mannhaupet, G.; Martegani, Enzo; Mathieu, Aurélie; Maurer, C.T.C.; McConnell, David J.; McKEE, R. K.; Messenguy, Francine; Mewes, Hans‐Werner; Molemans, Francis; Montague, Michelle; Muzi-Falconi, Marco; Navas, Laura Emilce; Newlon, Carol S.; Noone, David; Pallier, C.; Panzeri, L.; Pearson, Bruce M.; Perea, Javier; Philippsen, Peter; Pierard, André; Planta, Rudi J.; Plevani, Paolo; Poetsch, Bettina; Pohl, Fritz M.; Purnelle, Bénédicte; Rad, Massoud Ramezani; Rasmussen, Søren W.; Raynal, Alain; Remacha, Miguel; Richterich, Peter; Roberts, A.; Rodriguez, Francesco; Sanz, E.; Schaaff-Gerstenschläger, Ine; Scherens, Bart; Schweitzer, Bert; Shu, Youmin; Skála, J; Słonimski, Piotr P.; Sor, Frédéric; Soustelle, Christine; Spiegelberg, R; Stateva, Lubomira; Steensma, H. Yde; Steiner, Sabine; Thierry, Agnès; Thireos, George; Tzermia, Maria; Urrestarazu, L. A.; Valle, Giorgio; Vetter, I.R.; Vliet-Reedijk, J. C. van; Voet, Marleen; Volckaert, Guido; Vreken, P.; Wang, H.; Warmington, John R.; Wettstein, Diter von; Wicksteed, Barton; Wilson, Cathal; Wurst, Helmut; Xu, Gang; Yoshikawa, Akikazu; Zimmermann, Friedrich K.; Sgouros, John G.

doi:10.1038/357038a0

Cited by 817 publications

(522 citation statements)

References 45 publications

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“…Sophianopoulou and G. Diallinas, unpublished). Putative GCN4-binding sites are present upstream of HIP1, YCC5 (a putative amino acid transporter gene of unknown specificity; Oliver et al, 1992) and TAT2 (tryptophan-specific transporter gene) (Schmidt et al, 1994;V. Sophianopoulou and G. Diallinas, unpublished).…”

Section: Introductionmentioning

confidence: 99%

The gene encoding the major proline transporter of Aspergillus nidulans is upregulated during conidiospore germination and in response to proline induction and amino acid starvation

Tazebay

Sophianopoulou

Scazzocchio

et al. 1997

Molecular Microbiology

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SummaryIn Aspergillus nidulans a highly specific L-proline transporter is encoded by the prnB gene which is tightly linked to all other genes involved in proline catabolism. In mycelia, the expression of the prn structural genes is finely co-regulated in response to proline induction and nitrogen/carbon catabolite repression. In this study we establish that prnB expression is also activated during germination of conidiospores. This activation persists until the development of 6 h-old mycelia and it is independent of proline induction mediated by the pathway-specific prnA gene product. We then show that, in mycelia, prnB transcription is activated in response to proline or histidine starvation. This process has two components: a prnA-dependent and a prnA-independent component. A cis-acting element that conforms to the consensus target of the GCN4/CPC1 transcriptional activators mediating amino acid biosynthesis activation in other fungi is involved in the activation of prnB transcription in response to amino acid starvation. We also show that the stimulation of prnB expression in germinating conidiospores is not due exclusively to transient internal amino acid starvation occurring during the transition from conidiospore to mycelium. This is the first report that an amino acid transporter gene is upregulated during development and in response to amino acid starvation and specific amino acid induction.

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Section: Introductionmentioning

confidence: 99%

The gene encoding the major proline transporter of Aspergillus nidulans is upregulated during conidiospore germination and in response to proline induction and amino acid starvation

Tazebay

Sophianopoulou

Scazzocchio

et al. 1997

Molecular Microbiology

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“…Most attention has focused on large-scale variation along chromosomes, thought until recently to be restricted to mammals. With the sequencing of yeast chromosomes (Oliver et al 1992;Dujon et al 1994;Feldmann et al 1994) and the rapid accumulation of other DNA sequence data, it now appears that variation in base composition along chromosomes is widespread; it has been documented in mammals (Bernardi et al 1985;Bernardi 1989), Drosophila (Carulli et al 1993;Kliman and Hey 1994), yeast (Sharp and Lloyd 1992;Dujon et al 1994;Feldmann et al 1994), and bacteria (Deschavanne and Filipski 1995).…”

Section: Introductionmentioning

confidence: 99%

Patterns of Base Composition Within the Genes of Drosophila melanogaster

Kliman

Eyre‐Walker

1998

J Mol Evol

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Abstract. Base composition is not uniform across the genome of Drosophila melanogaster. Earlier analyses have suggested that there is variation in composition in D. melanogaster on both a large scale and a much smaller, within-gene, scale. Here we present analyses on 117 genes which have reliable intron/exon boundaries and no known alternative splicing. We detect significant heterogeneity in G+C content among intron segments from the same gene, as well as a significant positive correlation between the intron and the third codon position G+C content within genes. Both of these observations appear to be due, in part, to an overall decline in intron and third codon position G+C content along Drosophila genes with introns. However, there is also evidence of an increase in third codon position G+C content at the start of genes; this is particularly evident in genes without introns. This is consistent with selection acting against preferred codons at the start of genes.

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“…Here we identified a new protein coding gene on the first sequenced eukaryotic chromosome, S. cerevisiae chromosome III (Oliver et al, 1992) by using a comparative genomics approach. Even with database sequence errors, it is still possible to identify previously overlooked genes in S. cerevisiae genome by this method.…”

Section: Discussionmentioning

confidence: 99%

“…Chromosome III, the first eukaryotic chromosome to be completed, was a landmark in the field of genomic sequencing (Oliver et al, 1992). This chromosome more recently became the first to be completely resequenced (http://mips.gsf.de/proj/yeast/info/ sequence.html).…”

Section: Introductionmentioning

confidence: 99%

Verification of a new gene on Saccharomyces cerevisiae chromosome III

Dietrich

2003

Yeast

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We present verification of the existence of a previously unannotated, introncontaining gene of 134 amino acids (predicted molecular weight ∼15.5 kDa) located on chromosome III of Saccharomyces cerevisiae. Strains carrying a deletion of this gene, which we have called YCL012C, reveal no apparent phenotype. Orthologues of YCL012C are present in related species S. bayanus, S. paradoxus and Ashbya gossypii.Comparison with other fungal sequences reveals that orthologues of this gene are likely present in Schizosaccharomyces pombe, Neurospora crassa and Cryptococcus neoformans as well, indicating that YCL012C is a widely conserved fungal gene.

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The complete DNA sequence of yeast chromosome III

Cited by 817 publications

References 45 publications

The gene encoding the major proline transporter of Aspergillus nidulans is upregulated during conidiospore germination and in response to proline induction and amino acid starvation

The gene encoding the major proline transporter of Aspergillus nidulans is upregulated during conidiospore germination and in response to proline induction and amino acid starvation

Patterns of Base Composition Within the Genes of Drosophila melanogaster

Verification of a new gene on Saccharomyces cerevisiae chromosome III

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