Genomes and Genes
Experts and Doctors on saccharomyces cerevisiae in Finland
Topic: saccharomyces cerevisiae
- Mattila P, Rabina J, Hortling S, Helin J, Renkonen R. Functional expression of Escherichia coli enzymes synthesizing GDP-L-fucose from inherent GDP-D-mannose in Saccharomyces cerevisiae. Glycobiology. 2000;10:1041-7 pubmed..The GDP-L-fucose product could be used as the fucose donor for alpha1,3fucosyltransferase to synthesize sialyl Lewis x (sLex), a glycan crucial for the selectin-dependent leukocyte traffic. ..
- Sharabiani M, Siermala M, Lehtinen T, Vihinen M. Dynamic covariation between gene expression and proteome characteristics. BMC Bioinformatics. 2005;6:215 pubmed
- Mursula A, van Aalten D, Hiltunen J, Wierenga R. The crystal structure of delta(3)-delta(2)-enoyl-CoA isomerase. J Mol Biol. 2001;309:845-53 pubmed
- Brummer M, Richard P, Sundqvist L, Väänänen R, Keranen S. The GDI1 genes from Kluyveromyces lactis and Pichia pastoris: cloning and functional expression in Saccharomyces cerevisiae. Yeast. 2001;18:897-902 pubmed..Both sequences fully complement the S. cerevisiae sec19-1 mutation. They have high degrees of homology with known GDP dissociation inhibitors from yeast species and other eukaryotes. ..
- Falck S, Paavilainen V, Wear M, Grossmann J, Cooper J, Lappalainen P. Biological role and structural mechanism of twinfilin-capping protein interaction. EMBO J. 2004;23:3010-9 pubmed..Our results support a novel model for how sequential interactions between actin monomers, twinfilin, CP, and actin filaments promote cytoskeletal dynamics. ..
- Belogurov G, Malinen A, Turkina M, Jalonen U, Rytk nen K, Baykov A, et al. Membrane-bound pyrophosphatase of Thermotoga maritima requires sodium for activity. Biochemistry. 2005;44:2088-96 pubmed publisher..These results demonstrate that T. maritima PPase belongs to a previously unknown subfamily of Na(+)-dependent H(+)-PPase homologues and may be an analogue of Na(+),K(+)-ATPase...
- Salminen A, Parfenyev A, Salli K, Efimova I, Magretova N, Goldman A, et al. Modulation of dimer stability in yeast pyrophosphatase by mutations at the subunit interface and ligand binding to the active site. J Biol Chem. 2002;277:15465-71 pubmed..Both effects appear to be mediated by a conformational change involving the C-terminal segment that generally shields the Cys(83) residue in the dimer. ..
- Jantti J, Aalto M, Oyen M, Sundqvist L, Keränen S, Ronne H. Characterization of temperature-sensitive mutations in the yeast syntaxin 1 homologues Sso1p and Sso2p, and evidence of a distinct function for Sso1p in sporulation. J Cell Sci. 2002;115:409-20 pubmed..We conclude that a functional difference exists between the Sso1 and Sso2 proteins, with the former being specifically required during sporulation. ..
- Torkko J, Koivuranta K, Miinalainen I, Yagi A, Schmitz W, Kastaniotis A, et al. Candida tropicalis Etr1p and Saccharomyces cerevisiae Ybr026p (Mrf1'p), 2-enoyl thioester reductases essential for mitochondrial respiratory competence. Mol Cell Biol. 2001;21:6243-53 pubmed..We conclude that Etr1p and Ybr026p are novel 2-enoyl thioester reductases required for respiration and the maintenance of the mitochondrial compartment, putatively acting in mitochondrial synthesis of fatty acids. ..
- Autio K, Kastaniotis A, Pospiech H, Miinalainen I, Schonauer M, Dieckmann C, et al. An ancient genetic link between vertebrate mitochondrial fatty acid synthesis and RNA processing. FASEB J. 2008;22:569-78 pubmed
- Andberg M, Hakulinen N, Auer S, Saloheimo M, Koivula A, Rouvinen J, et al. Essential role of the C-terminus in Melanocarpus albomyces laccase for enzyme production, catalytic properties and structure. FEBS J. 2009;276:6285-300 pubmed publisher..cerevisiae showed that the C-terminal mutation had clearly affected the trinuclear site geometry. The results in this study clearly confirm the critical role of the last amino acids in the C-terminus of MaL. ..
- Huuskonen A, Markkula T, Vidgren V, Lima L, Mulder L, Geurts W, et al. Selection from industrial lager yeast strains of variants with improved fermentation performance in very-high-gravity worts. Appl Environ Microbiol. 2010;76:1563-73 pubmed publisher..liter(-1)) than the parent strains, but the sedimentation behavior and profiles of yeast-derived flavor compounds of the survivors were similar to those of the parent strains. ..
- Tammenkoski M, Moiseev V, Lahti M, Ugochukwu E, Brondijk T, White S, et al. Kinetic and mutational analyses of the major cytosolic exopolyphosphatase from Saccharomyces cerevisiae. J Biol Chem. 2007;282:9302-11 pubmed..These results provide an initial step toward understanding the dynamics of scPPX catalysis and reveal significant functional differences between structurally similar scPPX and family II PPase. ..
- Qin Y, Marttila M, Haapalainen A, Siivari K, Glumoff T, Hiltunen J. Yeast peroxisomal multifunctional enzyme: (3R)-hydroxyacyl-CoA dehydrogenase domains A and B are required for optimal growth on oleic acid. J Biol Chem. 1999;274:28619-25 pubmed..The data show that the dehydrogenase domains of yeast MFE-2 have different substrate specificities required to allow the yeast to propagate optimally on fatty acids as the carbon source. ..
- Pispa J, Palmén S, Holmberg C, Jantti J. C. elegans dss-1 is functionally conserved and required for oogenesis and larval growth. BMC Dev Biol. 2008;8:51 pubmed publisher..In contrast to unicellular eukaryotes, the C. elegans dss-1 encodes an essential protein, which is required for embryogenesis, larval growth, and oogenesis, and which is functionally conserved with its yeast and human homologues. ..
- Palmgren S, Vartiainen M, Lappalainen P. Twinfilin, a molecular mailman for actin monomers. J Cell Sci. 2002;115:881-6 pubmed..This is mediated through direct interactions between twinfilin and capping protein. Therefore, twinfilin might serve as a link between rapid actin filament depolymerization and assembly in cells. ..
- Jantti J, Lahdenranta J, Olkkonen V, Soderlund H, Keranen S. SEM1, a homologue of the split hand/split foot malformation candidate gene Dss1, regulates exocytosis and pseudohyphal differentiation in yeast. Proc Natl Acad Sci U S A. 1999;96:909-14 pubmed..These results characterize SEM1 as a regulator of both exocyst function and pseudohyphal differentiation and suggest a unique link between these two cellular functions in yeast. ..
- Kastaniotis A, Autio K, Sormunen R, Hiltunen J. Htd2p/Yhr067p is a yeast 3-hydroxyacyl-ACP dehydratase essential for mitochondrial function and morphology. Mol Microbiol. 2004;53:1407-21 pubmed..The mitochondrial phenotypes of the null and overexpression mutants suggest a crucial role of YHR067w in maintenance of mitochondrial respiratory competence and morphology in yeast. ..
- Toikkanen J, Miller K, Söderlund H, Jantti J, Keränen S. The beta subunit of the Sec61p endoplasmic reticulum translocon interacts with the exocyst complex in Saccharomyces cerevisiae. J Biol Chem. 2003;278:20946-53 pubmed..These findings propose a novel functional and physical link between the endoplasmic reticulum translocation complex and the exocyst. ..
- Torkko J, Koivuranta K, Kastaniotis A, Airenne T, Glumoff T, Ilves M, et al. Candida tropicalis expresses two mitochondrial 2-enoyl thioester reductases that are able to form both homodimers and heterodimers. J Biol Chem. 2003;278:41213-20 pubmed..Resolving of crystal structures obtained via Etr2p and Etr1p co-crystallization indicated that all possible dimer variants occur in the same asymmetric unit, suggesting that similar dimer formation also takes place in vivo...
- Jokela M, Mäkiniemi M, Lehtonen S, Szpirer C, Hellman U, Syvaoja J. The small subunits of human and mouse DNA polymerase epsilon are homologous to the second largest subunit of the yeast Saccharomyces cerevisiae DNA polymerase epsilon. Nucleic Acids Res. 1998;26:730-4 pubmed..The gene for the small subunit of human DNA polymerase epsilon (POLE2) was localized to chromosome 14q21-q22 by fluorescence in situ hybridization. ..
- Kesti T, Frantti H, Syvaoja J. Molecular cloning of the cDNA for the catalytic subunit of human DNA polymerase epsilon. J Biol Chem. 1993;268:10238-45 pubmed..The proteins are 39% identical. In the region containing known DNA polymerase consensus motifs, the identity is 63%. The expression of the mRNA encoding DNA polymerase epsilon is strongly dependent on cell proliferation. ..
- von Nandelstadh P, Grönholm M, Moza M, Lamberg A, Savilahti H, Carpen O. Actin-organising properties of the muscular dystrophy protein myotilin. Exp Cell Res. 2005;310:131-9 pubmed..None of the four known disease-associated mutations altered the actin-organising ability. These results, together with previous studies in titin and kettin, identify the Ig domain as an actin-binding unit. ..
- Lahti R, Kolakowski L, Heinonen J, Vihinen M, Pohjanoksa K, Cooperman B. Conservation of functional residues between yeast and E. coli inorganic pyrophosphatases. Biochim Biophys Acta. 1990;1038:338-45 pubmed..PPase thus appears to be an example of enzymes from widely divergent species that conserve common functional elements within the context of substantial overall sequence variation. ..
- Lehto M, Laitinen S, Chinetti G, Johansson M, Ehnholm C, Staels B, et al. The OSBP-related protein family in humans. J Lipid Res. 2001;42:1203-13 pubmed..The present study summarizes the basic characteristics of the OSBP-related gene/protein family in humans, and provides tools for functional analysis of the encoded proteins. ..
- Davydenko S, Juselius J, Munder T, Bogengruber E, Jantti J, Keränen S. Screening for novel essential genes of Saccharomyces cerevisiae involved in protein secretion. Yeast. 2004;21:463-71 pubmed..The results obtained here indicate that the present screen could be successfully used in larger scale to identify novel secretion-related genes. ..
- Olkkonen V, Li S. Oxysterol-binding proteins: sterol and phosphoinositide sensors coordinating transport, signaling and metabolism. Prog Lipid Res. 2013;52:529-38 pubmed publisher..These observations identify ORPs as coordinators of lipid signals with an unforeseen variety of cellular processes. ..
- Weber Boyvat M, Aro N, Chernov K, Nyman T, Jantti J. Sec1p and Mso1p C-terminal tails cooperate with the SNAREs and Sec4p in polarized exocytosis. Mol Biol Cell. 2011;22:230-44 pubmed publisher..This association depends on the Sec4p guanine nucleotide exchange factor Sec2p. Our results reveal a novel binding mode between the Sec1p C-terminal tail and the SNARE complex, and suggest a role for Mso1p as an effector of Sec4p. ..
- Moilanen A, Karvonen U, Poukka H, Janne O, Palvimo J. Activation of androgen receptor function by a novel nuclear protein kinase. Mol Biol Cell. 1998;9:2527-43 pubmed
- Chen Z, Kastaniotis A, Miinalainen I, Rajaram V, Wierenga R, Hiltunen J. 17beta-hydroxysteroid dehydrogenase type 8 and carbonyl reductase type 4 assemble as a ketoacyl reductase of human mitochondrial FAS. FASEB J. 2009;23:3682-91 pubmed publisher..Notably, 17beta-HSD8 was previously classified as a steroid-metabolizing enzyme, but our data suggest that 17beta-HSD8 is primarily involved in mitochondrial FAS. ..
- Lehtonen S, Ora A, Olkkonen V, Geng L, Zerial M, Somlo S, et al. In vivo interaction of the adapter protein CD2-associated protein with the type 2 polycystic kidney disease protein, polycystin-2. J Biol Chem. 2000;275:32888-93 pubmed..Such a function fits well with that hypothesized for the polycystin proteins in renal tubular epithelial cells, and the present findings suggest that CD2AP has a role in polycystin-2 function. ..
- Rintala E, Pitkänen J, Vehkomäki M, Penttila M, Ruohonen L. The ORF YNL274c (GOR1) codes for glyoxylate reductase in Saccharomyces cerevisiae. Yeast. 2007;24:129-36 pubmed..In addition, we show that deletion of the glyoxylate reductase-encoding gene leads to higher biomass concentration after diauxic shift. ..
- Davydenko S, Feng D, Jantti J, Keränen S. Characterization of GPI14/YJR013w mutation that induces the cell wall integrity signalling pathway and results in increased protein production in Saccharomyces cerevisiae. Yeast. 2005;22:993-1009 pubmed..These results suggest that partial inactivation of Gpi14p causes defects in the cell wall structure and suggest that compromised GPI anchor synthesis results in enhanced protein production via the cell wall integrity signalling pathway. ..
- Brummer M, Kivinen K, Jantti J, Toikkanen J, Soderlund H, Keranen S. Characterization of the sec1-1 and sec1-11 mutations. Yeast. 2001;18:1525-36 pubmed..These results localize sec1-1 and sec1-11 mutations to a domain of Sec1p and suggest a mechanism by which sec1-1 and sec1-11 cells become temperature-sensitive. ..
- Elomaa P, Uimari A, Mehto M, Albert V, Laitinen R, Teeri T. Activation of anthocyanin biosynthesis in Gerbera hybrida (Asteraceae) suggests conserved protein-protein and protein-promoter interactions between the anciently diverged monocots and eudicots. Plant Physiol. 2003;133:1831-42 pubmed
- Verho R, Richard P, Jonson P, Sundqvist L, Londesborough J, Penttila M. Identification of the first fungal NADP-GAPDH from Kluyveromyces lactis. Biochemistry. 2002;41:13833-8 pubmed..The presence of an asparagine (Asn46 in NADP-GAPDH) instead of the conserved aspartate found in related but NAD-specific enzymes may explain the ability of NADP-GAPDH to work with NADP as well as NAD...
- Miinalainen I, Chen Z, Torkko J, Pirilä P, Sormunen R, Bergmann U, et al. Characterization of 2-enoyl thioester reductase from mammals. An ortholog of YBR026p/MRF1'p of the yeast mitochondrial fatty acid synthesis type II. J Biol Chem. 2003;278:20154-61 pubmed
- Toikkanen J, Gatti E, Takei K, Saloheimo M, Olkkonen V, Soderlund H, et al. Yeast protein translocation complex: isolation of two genes SEB1 and SEB2 encoding proteins homologous to the Sec61 beta subunit. Yeast. 1996;12:425-38 pubmed..This study further emphasizes the evolutionary conservation of the ER protein translocation apparatus and provides novel genetic tools for its functional analysis. ..
- Shah Z, Hakkaart G, Arku B, de Jong L, van der Spek H, Grivell L, et al. The human homologue of the yeast mitochondrial AAA metalloprotease Yme1p complements a yeast yme1 disruptant. FEBS Lett. 2000;478:267-70 pubmed..We propose that YME1L plays a phylogenetically conserved role in mitochondrial protein metabolism and could be involved in mitochondrial pathologies. ..
- Yan D, Olkkonen V. Characteristics of oxysterol binding proteins. Int Rev Cytol. 2008;265:253-85 pubmed publisher..Our working hypothesis is that mammalian ORPs mainly act as sterol sensors that relay information to a spectrum of different cellular processes. ..
- Richard P, Toivari M, Penttila M. Evidence that the gene YLR070c of Saccharomyces cerevisiae encodes a xylitol dehydrogenase. FEBS Lett. 1999;457:135-8 pubmed..1 mM; NADH, 240 microM (at pH 7.0); xylitol, 25 mM; NAD, 100 microM (at pH 9.0). Xylitol dehydrogenase activity with the same kinetic properties can also be induced by xylose in wild type S. cerevisiae cells. ..
- Toivari M, Ruohonen L, Richard P, Penttila M, Wiebe M. Saccharomyces cerevisiae engineered to produce D-xylonate. Appl Microbiol Biotechnol. 2010;88:751-60 pubmed publisher..Although each of these enzymes enhanced NADPH consumption on D-glucose, they did not enhance D-xylonate production, suggesting that NADP+ was not the main limitation in the current D-xylonate producing strains...
- Kainov D, Selth L, Svejstrup J, Egly J, Poterzsman A. Interacting partners of the Tfb2 subunit from yeast TFIIH. DNA Repair (Amst). 2010;9:33-9 pubmed publisher..The implications of our findings in regards to TFIIH function and group A trichothiodystrophy, an inherited disease associated with mutations in the human TFB5 gene, are discussed. ..
- Rouleau N, Domans kyi A, Reeben M, Moilanen A, Havas K, Kang Z, et al. Novel ATPase of SNF2-like protein family interacts with androgen receptor and modulates androgen-dependent transcription. Mol Biol Cell. 2002;13:2106-19 pubmed..ARIP4 mutants devoid of ATPase activity fail to alter DNA topology and behave as trans-dominant negative regulators of AR function in transient assays. ..
- Nikulin M, Lappalainen S, Pasanen A, Laamanen I, Veijalainen P, Berg S, et al. Comparison of detection methods for trichothecenes produced by Fusarium sporotrichioides on fodder and grains at different air humidities. Nat Toxins. 1996;4:117-21 pubmed..The cytotoxicity test was the most sensitive method for detecting biological toxicity of samples inoculated with fungus. The T-2 ELISA assay and chemical analysis were about equally sensitive to detect T-2 toxin in samples. ..
- Suntio T, Shiryaev S, Makarow M. ATPase activity of a yeast secretory glycoprotein allows ER exit during inactivation of COPII components Sec24p and Sec13p. Yeast. 2011;28:453-65 pubmed publisher..To our knowledge this is the first documentation of the ATPase activity of a protein serving an intracellular transport function. ..
- Voutilainen S, Murray P, Tuohy M, Koivula A. Expression of Talaromyces emersonii cellobiohydrolase Cel7A in Saccharomyces cerevisiae and rational mutagenesis to improve its thermostability and activity. Protein Eng Des Sel. 2010;23:69-79 pubmed publisher..All the additional S-S bonds contributed mainly to the thermostability of the Te Cel7A, but one of the mutants (N54C/P191C) also showed, somewhat surprisingly, improved activity even at room temperature...
- Kamel D, Mackey Z, Sjoblom T, Walter C, McCarrey J, Uitto L, et al. Role of deoxyribonucleic acid polymerase epsilon in spermatogenesis in mice. Biol Reprod. 1997;57:1367-74 pubmed..In contrast, DNA polymerases alpha and delta appear to be involved in meiotic DNA synthesis, which occurs early in meiotic prophase, in addition to functioning in DNA replication in proliferating spermatogonia. ..
- Simola M, Hänninen A, Stranius S, Makarow M. Trehalose is required for conformational repair of heat-denatured proteins in the yeast endoplasmic reticulum but not for maintenance of membrane traffic functions after severe heat stress. Mol Microbiol. 2000;37:42-53 pubmed..However, cytosolic proteins were aggregated and protein synthesis abolished, resulting finally in cell death. ..
- Mäkeläinen K, Mäkinen K. Factors affecting translation at the programmed -1 ribosomal frameshifting site of Cocksfoot mottle virus RNA in vivo. Nucleic Acids Res. 2005;33:2239-47 pubmed..This finding allows us to propose that CfMV protein P27 may influence translation at the frameshift site but the mechanism needs to be elucidated. ..
- Mäkiniemi M, Hillukkala T, Tuusa J, Reini K, Vaara M, Huang D, et al. BRCT domain-containing protein TopBP1 functions in DNA replication and damage response. J Biol Chem. 2001;276:30399-406 pubmed..We also show that TopBP1 interacts with the checkpoint protein hRad9. Thus, these results implicate TopBP1 in replication and checkpoint functions. ..
- Zhao X, Jantti J. Functional characterization of the trans-membrane domain interactions of the Sec61 protein translocation complex beta-subunit. BMC Cell Biol. 2009;10:76 pubmed publisher..Our results identify functionally important amino acids in the Sbh1p trans-membrane domain. In addition, our results provide additional support for the involvement of Sec61beta in processes unlinked to protein translocation. ..
- Saren A, Laamanen P, Lejarcegui J, Paulin L. The sequence of a 36.7 kb segment on the left arm of chromosome IV from Saccharomyces cerevisiae reveals 20 non-overlapping open reading frames (ORFs) including SIT4, FAD1, NAM1, RNA11, SIR2, NAT1, PRP9, ACT2 and MPS1 and 11 new ORFs. Yeast. 1997;13:65-71 pubmed..One of these is identical to yeast expressed sequence tags and therefore corresponds to and expressed gene. In addition, two partial ORFs and 11 ORFs that are totally internal and are not likely to be functional were detected. ..
- Toikkanen J, Sundqvist L, Keränen S. Kluyveromyces lactis SSO1 and SEB1 genes are functional in Saccharomyces cerevisiae and enhance production of secreted proteins when overexpressed. Yeast. 2004;21:1045-55 pubmed..cerevisiae Seb1p, Sso2p and Sec4p can detect homologous proteins in cell lysates of K. lactis and Pichia pastoris, the latter also in Candida utilis. The GenBank Accession Nos are AF307983 (K. lactis SSO1) and AF318314 (K. lactis SEB1). ..
- Rajasärkkä J, Virta M. Miniaturization of a panel of high-throughput yeast-cell-based nuclear receptor assays in 384- and 1536-well microplates. Comb Chem High Throughput Screen. 2011;14:47-54 pubmed..The panel of yeast-cell-based nuclear receptor assays can be used for high-throughput chemical testing and environmental monitoring of potential endocrine-disrupting activity of compounds and samples. ..
- Hiltunen J, Chen Z, Haapalainen A, Wierenga R, Kastaniotis A. Mitochondrial fatty acid synthesis--an adopted set of enzymes making a pathway of major importance for the cellular metabolism. Prog Lipid Res. 2010;49:27-45 pubmed publisher..The first publications linking mitochondrial FAS II to disease states in mammals are emerging. ..
- Pitkänen J, Törmä A, Alff S, Huopaniemi L, Mattila P, Renkonen R. Excess mannose limits the growth of phosphomannose isomerase PMI40 deletion strain of Saccharomyces cerevisiae. J Biol Chem. 2004;279:55737-43 pubmed
- Koivistoinen O, Richard P, Penttila M, Ruohonen L, Mojzita D. Sorbitol dehydrogenase of Aspergillus niger, SdhA, is part of the oxido-reductive D-galactose pathway and essential for D-sorbitol catabolism. FEBS Lett. 2012;586:378-83 pubmed publisher..An sdhA deletion strain showed reduced growth on galactitol and growth on D-sorbitol was completely abolished. The purified enzyme converted D-sorbitol to D-fructose with K(m) of 50±5 mM and v(max) of 80±10 U/mg...
- Ribeiro O, Magalhães F, Aguiar T, Wiebe M, Penttila M, Domingues L. Random and direct mutagenesis to enhance protein secretion in Ashbya gossypii. Bioengineered. 2013;4:322-31 pubmed publisher..Deletion of the AgGAS1B copy affected cellular morphology and resulted in severe retardation of growth, similarly to what has been reported for GAS1-defficient yeast. Thus, secretion could not be tested in these mutants. ..
- Reinman M, Jantti J, Alfthan K, Keränen S, Söderlund H, Takkinen K. Functional inactivation of the conserved Sem1p in yeast by intrabodies. Yeast. 2003;20:1071-84 pubmed..Our results suggest that Sem1p function in yeast cells is in part manifested in the nucleus. ..
- Laaksonen O, Kuldjärv R, Paalme T, Virkki M, Yang B. Impact of apple cultivar, ripening stage, fermentation type and yeast strain on phenolic composition of apple ciders. Food Chem. 2017;233:29-37 pubmed publisher..The commercial yeast strains differed in the release of free HCAs, especially p-coumaric acid, during the yeast fermentation. In ciders inoculated with S. bayanus, the content was higher than in ciders fermented with S. cerevisiae. ..