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Journal articles on the topic 'Hemiascomycetes'

Author: Grafiati

Published: 4 June 2021

Last updated: 1 February 2022

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1

Chanfreau, Guillaume. "Conservation of RNase III Processing Pathways and Specificity in Hemiascomycetes." Eukaryotic Cell 2, no. 5 (October 2003): 901–9. http://dx.doi.org/10.1128/ec.2.5.901-909.2003.

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ABSTRACT Rnt1p, the only known Saccharomyces cerevisiae RNase III endonuclease, plays important functions in the processing of precursors of rRNAs (pre-rRNAs) and of a large number of small nuclear RNAs (snRNAs) and small nucleolar RNAs (snoRNAs). While most eukaryotic RNases III, including the Schizosaccharomyces pombe enzyme Pac1p, cleave double-stranded RNA without sequence specificity, Rnt1p cleavage relies on the presence of terminal tetraloop structures that carry the consensus sequence AGNN. To search for the conservation of these processing signals, I have systematically analyzed predicted secondary structures of the 3′ external transcribed spacer (ETS) sequences of the pre-rRNAs and of flanking sequences of snRNAs and snoRNAs from sequences available in 13 other Hemiascomycetes species. In most of these species, except in Yarrowia lipolytica, double-stranded RNA regions capped by terminal AGNN tetraloops can be found in the 3′ ETS sequences of rRNA, in the 5′- or 3′-end flanking sequences of sn(o)RNAs, or in the intergenic spacers of polycistronic snoRNA transcription units. This analysis shows that RNase III processing signals and RNase III cleavage specificity are conserved in most Hemiascomycetes species but probably not in the evolutionarily more distant species Y. lipolytica.

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2

Ramírez-Zavala, Bernardo, and Ángel Domínguez. "Evolution and phylogenetic relationships of APSES proteins from Hemiascomycetes." FEMS Yeast Research 8, no. 4 (March 19, 2008): 511–19. http://dx.doi.org/10.1111/j.1567-1364.2008.00370.x.

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3

Lafontaine, Ingrid, and Bernard Dujon. "Origin and fate of pseudogenes in Hemiascomycetes: a comparative analysis." BMC Genomics 11, no. 1 (2010): 260. http://dx.doi.org/10.1186/1471-2164-11-260.

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4

Zheng, C., Q. Zhu, Z. Adam, and D. Sankoff. "Guided genome halving: hardness, heuristics and the history of the Hemiascomycetes." Bioinformatics 24, no. 13 (June 27, 2008): i96—i104. http://dx.doi.org/10.1093/bioinformatics/btn146.

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5

Wolfe, Kenneth H. "Comparative genomics and genome evolution in yeasts." Philosophical Transactions of the Royal Society B: Biological Sciences 361, no. 1467 (February 2006): 403–12. http://dx.doi.org/10.1098/rstb.2005.1799.

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Yeasts provide a powerful model system for comparative genomics research. The availability of multiple complete genome sequences from different fungal groups—currently 18 hemiascomycetes, 8 euascomycetes and 4 basidiomycetes—enables us to gain a broad perspective on genome evolution. The sequenced genomes span a continuum of divergence levels ranging from multiple individuals within a species to species pairs with low levels of protein sequence identity and no conservation of gene order. One of the most interesting emerging areas is the growing number of events such as gene losses, gene displacements and gene relocations that can be attributed to the action of natural selection.

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6

Byrne, K. P. "Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser." Nucleic Acids Research 34, no. 90001 (January 1, 2006): D452—D455. http://dx.doi.org/10.1093/nar/gkj041.

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7

Kurtzman, Cletus P., Marc‐André Lachance, Huu‐Vang Nguyen, and Hansjörg Prillinger. "(1485) Proposal to conserve the name Kluyveromyces with a conserved type (Ascomycota: Hemiascomycetes, Saccharomycetaceae)." TAXON 50, no. 3 (August 2001): 907–8. http://dx.doi.org/10.2307/1223723.

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8

Pesole, G., M. Lotti, L. Alberghina, and C. Saccone. "Evolutionary origin of nonuniversal CUGSer codon in some Candida species as inferred from a molecular phylogeny." Genetics 141, no. 3 (November 1, 1995): 903–7. http://dx.doi.org/10.1093/genetics/141.3.903.

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Abstract CUG, a universal leucine codon, has been reported to be read as serine in various yeast species belonging to the genus Candida. To gain a deeper insight into the origin of this deviation from the universal genetic code, we carried out a phylogenetic analysis based on the small-subunit ribosomal RNA genes from some Candida and other related Hemiascomycetes. Furthermore, we determined the phylogenetic relationships between the tRNA(Ser)CAG, responsible for the translation of CUG, from some Candida species and the other serine and leucine isoacceptor tRNAs in C. cylindracea. We demonstrate that the group of Candida showing the genetic code deviation is monophyletic and that this deviation could have originated more than 150 million years ago. We also describe how phylogenetic analysis can be used for genetic code predictions.

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9

Marck, C. "The RNA polymerase III-dependent family of genes in hemiascomycetes: comparative RNomics, decoding strategies, transcription and evolutionary implications." Nucleic Acids Research 34, no. 6 (March 23, 2006): 1816–35. http://dx.doi.org/10.1093/nar/gkl085.

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10

Banerjee, Dibyendu, Gaelle Lelandais, Sudhanshu Shukla, Gauranga Mukhopadhyay, Claude Jacq, Frederic Devaux, and Rajendra Prasad. "Responses of Pathogenic and Nonpathogenic Yeast Species to Steroids Reveal the Functioning and Evolution of Multidrug Resistance Transcriptional Networks." Eukaryotic Cell 7, no. 1 (November 9, 2007): 68–77. http://dx.doi.org/10.1128/ec.00256-07.

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ABSTRACT Steroids are known to induce pleiotropic drug resistance states in hemiascomycetes, with tremendous potential consequences for human fungal infections. Our analysis of gene expression in Saccharomyces cerevisiae and Candida albicans cells subjected to three different concentrations of progesterone revealed that their pleiotropic drug resistance (PDR) networks were strikingly sensitive to steroids. In S. cerevisiae, 20 of the Pdr1p/Pdr3p target genes, including PDR3 itself, were rapidly induced by progesterone, which mimics the effects of PDR1 gain-of-function alleles. This unique property allowed us to decipher the respective roles of Pdr1p and Pdr3p in PDR induction and to define functional modules among their target genes. Although the expression profiles of the major PDR transporters encoding genes ScPDR5 and CaCDR1 were similar, the S. cerevisiae global PDR response to progesterone was only partly conserved in C. albicans. In particular, the role of Tac1p, the main C. albicans PDR regulator, in the progesterone response was apparently restricted to five genes. These results suggest that the C. albicans and S. cerevisiae PDR networks, although sharing a conserved core regarding the regulation of membrane properties, have different structures and properties. Additionally, our data indicate that other as yet undiscovered regulators may second Tac1p in the C. albicans drug response.

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11

Al-Bader, Salah M., Layla Q. Ismael, and Asaad A. Ahmood. "Fungal Contamination of Airconditioner Units in Five Hospitals of Erbil Province- Kurdistan Region /Iraq." Science Journal of University of Zakho 6, no. 4 (December 30, 2018): 146–49. http://dx.doi.org/10.25271/sjuoz.2018.6.4.545.

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During April 2018, 75samples were collected from five hospitals in Erbil city. Samples were taken by sterile cotton swabs from the air dispenser window of air conditioner units (ACU) . They were cultured directly on Sabouraud's dextrose agar incubated at 25oC ±2. The samples were collected from five departments in each hospital include out-patient ward (OP),in-patient ward (IP), emergency room (ER), intensive care unit(ICU), and operation theater (OT). A total of (410) fungal colonies were counted, they belong to13 genera include ten hyphomycetes and only one of zygomycetes ,basidiomycetes , and hemiascomycetes. Penicillium represented in the highest total occurrence (40%) followed by Aspergillus(38.66%) and Alternaria (21.33%). The total frequency showed that Candidawas the highest (30%) followed by Penicillium(27.56%) and Aspergillus(13.17%). The highest density of filamentous fungi (no. of colony/sample) was detected in OP=16.75, and the lowest in OT=1.5. The diversity of isolates showed that ( 9) genera were recorded from ER(60%) and only one in OP (6%). All recorded genera in current study were regarded as indoor air pollutants. The predominant genera Alternaria, Aspergillus, Penicillium ,Cladosporiumand Candida are well-known allergens and may cause several pulmonary disorders as well as fetal infections in particular cases.

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12

Navarathna, Dhammika H. M. L. P., Aditi Das, Joachim Morschhäuser, Kenneth W. Nickerson, and David D. Roberts. "Dur3 is the major urea transporter in Candida albicans and is co-regulated with the urea amidolyase Dur1,2." Microbiology 157, no. 1 (January 1, 2011): 270–79. http://dx.doi.org/10.1099/mic.0.045005-0.

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Hemiascomycetes, including the pathogen Candida albicans, acquire nitrogen from urea using the urea amidolyase Dur1,2, whereas all other higher fungi use primarily the nickel-containing urease. Urea metabolism via Dur1,2 is important for resistance to innate host immunity in C. albicans infections. To further characterize urea metabolism in C. albicans we examined the function of seven putative urea transporters. Gene disruption established that Dur3, encoded by orf 19.781, is the predominant transporter. [14C]Urea uptake was energy-dependent and decreased approximately sevenfold in a dur3Δ mutant. DUR1,2 and DUR3 expression was strongly induced by urea, whereas the other putative transporter genes were induced less than twofold. Immediate induction of DUR3 by urea was independent of its metabolism via Dur1,2, but further slow induction of DUR3 required the Dur1,2 pathway. We investigated the role of the GATA transcription factors Gat1 and Gln3 in DUR1,2 and DUR3 expression. Urea induction of DUR1,2 was reduced in a gat1Δ mutant, strongly reduced in a gln3Δ mutant, and abolished in a gat1Δ gln3Δ double mutant. In contrast, DUR3 induction by urea was preserved in both single mutants but reduced in the double mutant, suggesting that additional signalling mechanisms regulate DUR3 expression. These results establish Dur3 as the major urea transporter in C. albicans and provide additional insights into the control of urea utilization by this pathogen.

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13

Hall, Charles, Sophie Brachat, and Fred S. Dietrich. "Contribution of Horizontal Gene Transfer to the Evolution of Saccharomyces cerevisiae." Eukaryotic Cell 4, no. 6 (June 2005): 1102–15. http://dx.doi.org/10.1128/ec.4.6.1102-1115.2005.

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ABSTRACT The genomes of the hemiascomycetes Saccharomyces cerevisiae and Ashbya gossypii have been completely sequenced, allowing a comparative analysis of these two genomes, which reveals that a small number of genes appear to have entered these genomes as a result of horizontal gene transfer from bacterial sources. One potential case of horizontal gene transfer in A. gossypii and 10 potential cases in S. cerevisiae were identified, of which two were investigated further. One gene, encoding the enzyme dihydroorotate dehydrogenase (DHOD), is potentially a case of horizontal gene transfer, as shown by sequencing of this gene from additional bacterial and fungal species to generate sufficient data to construct a well-supported phylogeny. The DHOD-encoding gene found in S. cerevisiae, URA1 (YKL216W), appears to have entered the Saccharomycetaceae after the divergence of the S. cerevisiae lineage from the Candida albicans lineage and possibly since the divergence from the A. gossypii lineage. This gene appears to have come from the Lactobacillales, and following its acquisition the endogenous eukaryotic DHOD gene was lost. It was also shown that the bacterially derived horizontally transferred DHOD is required for anaerobic synthesis of uracil in S. cerevisiae. The other gene discussed in detail is BDS1, an aryl- and alkyl-sulfatase gene of bacterial origin that we have shown allows utilization of sulfate from several organic sources. Among the eukaryotes, this gene is found in S. cerevisiae and Saccharomyces bayanus and appears to derive from the alpha-proteobacteria.

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14

Wightman, Raymond, and Peter A. Meacock. "The THI5 gene family of Saccharomyces cerevisiae: distribution of homologues among the hemiascomycetes and functional redundancy in the aerobic biosynthesis of thiamin from pyridoxine." Microbiology 149, no. 6 (June 1, 2003): 1447–60. http://dx.doi.org/10.1099/mic.0.26194-0.

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The THI5 gene family of Saccharomyces cerevisiae comprises four highly conserved members named THI5 (YFL058w), THI11 (YJR156c), THI12 (YNL332w) and THI13 (YDL244w). Each gene copy is located within the subtelomeric region of a different chromosome and all are homologues of the Schizosaccharomyces pombe nmt1 gene which is thought to function in the biosynthesis of hydroxymethylpyrimidine (HMP), a precursor of vitamin B1, thiamin. A comprehensive phylogenetic study has shown that the existence of THI5 as a gene family is exclusive to those yeasts of the Saccharomyces sensu stricto subgroup. To determine the function and redundancy of each of the S. cerevisiae homologues, all combinations of the single, double, triple and quadruple deletion mutants were constructed using a PCR-mediated gene-disruption strategy. Phenotypic analyses of these mutant strains have shown the four genes to be functionally redundant in terms of HMP formation for thiamin biosynthesis; each promotes synthesis of HMP from the pyridoxine (vitamin B6) biosynthetic pathway. Furthermore, growth studies with the quadruple mutant strain support a previous proposal of an alternative HMP biosynthetic pathway that operates in yeast under anaerobic growth conditions. Comparative analysis of mRNA levels has revealed subtle differences in the regulation of the four genes, suggesting that they respond differently to nutrient limitation.

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15

Ueda-Nishimura, Kumiko, and Kozaburo Mikata. "Two distinct 18S rRNA secondary structures in Dipodascus (Hemiascomycetes) The DDBJ accession numbers for the sequences reported in this paper are shown in Table 1 T1 ." Microbiology 146, no. 5 (May 1, 2000): 1045–51. http://dx.doi.org/10.1099/00221287-146-5-1045.

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16

De Hertogh, Benoît, Emmanuel Talla, Fredj Tekaia, Emmanuelle Beyne, David Sherman, Philippe V. Baret, Bernard Dujon, and André Goffeau. "Novel Transporters from Hemiascomycete Yeasts." Journal of Molecular Microbiology and Biotechnology 6, no. 1 (2003): 19–28. http://dx.doi.org/10.1159/000073405.

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17

Diffels, J. F., M. L. Seret, A. Goffeau, and P. V. Baret. "Heavy metal transporters in Hemiascomycete yeasts." Biochimie 88, no. 11 (November 2006): 1639–49. http://dx.doi.org/10.1016/j.biochi.2006.08.008.

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18

Casaregola, Serge, Stéphanie Weiss, and Guillaume Morel. "New perspectives in hemiascomycetous yeast taxonomy." Comptes Rendus Biologies 334, no. 8-9 (August 2011): 590–98. http://dx.doi.org/10.1016/j.crvi.2011.05.006.

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19

Wong, S., G. Butler, and K. H. Wolfe. "Gene order evolution and paleopolyploidy in hemiascomycete yeasts." Proceedings of the National Academy of Sciences 99, no. 14 (July 1, 2002): 9272–77. http://dx.doi.org/10.1073/pnas.142101099.

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20

Hébert, Agnès, Serge Casaregola, and Jean-Marie Beckerich. "Biodiversity in sulfur metabolism in hemiascomycetous yeasts." FEMS Yeast Research 11, no. 4 (March 18, 2011): 366–78. http://dx.doi.org/10.1111/j.1567-1364.2011.00725.x.

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21

Richard, Guy-Franck, and Bernard Dujon. "Molecular Evolution of Minisatellites in Hemiascomycetous Yeasts." Molecular Biology and Evolution 23, no. 1 (September 21, 2005): 189–202. http://dx.doi.org/10.1093/molbev/msj022.

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22

Durrens, Pascal, and David James Sherman. "A systematic nomenclature of chromosomal elements for hemiascomycete yeasts." Yeast 22, no. 5 (2005): 337–42. http://dx.doi.org/10.1002/yea.1214.

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23

Hébert, Agnès, Marie-Pierre Forquin-Gomez, Aurélie Roux, Julie Aubert, Christophe Junot, Jean-François Heilier, Sophie Landaud, Pascal Bonnarme, and Jean-Marie Beckerich. "New Insights into Sulfur Metabolism in Yeasts as Revealed by Studies of Yarrowia lipolytica." Applied and Environmental Microbiology 79, no. 4 (December 7, 2012): 1200–1211. http://dx.doi.org/10.1128/aem.03259-12.

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ABSTRACTYarrowia lipolytica, located at the frontier of hemiascomycetous yeasts and fungi, is an excellent candidate for studies of metabolism evolution. This yeast, widely recognized for its technological applications, in particular produces volatile sulfur compounds (VSCs) that fully contribute to the flavor of smear cheese. We report here a relevant global vision of sulfur metabolism inY. lipolyticabased on a comparison between high- and low-sulfur source supplies (sulfate, methionine, or cystine) by combined approaches (transcriptomics, metabolite profiling, and VSC analysis). The strongest repression of the sulfate assimilation pathway was observed in the case of high methionine supply, together with a large accumulation of sulfur intermediates. A high sulfate supply seems to provoke considerable cellular stress via sulfite production, resulting in a decrease of the availability of the glutathione pathway's sulfur intermediates. The most limited effect was observed for the cystine supply, suggesting that the intracellular cysteine level is more controlled than that of methionine and sulfate. Using a combination of metabolomic profiling and genetic experiments, we revealed taurine and hypotaurine metabolism in yeast for the first time. On the basis of a phylogenetic study, we then demonstrated that this pathway was lost by some of the hemiascomycetous yeasts during evolution.

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24

Dujon, Bernard. "Hemiascomycetous yeasts at the forefront of comparative genomics." Current Opinion in Genetics & Development 15, no. 6 (December 2005): 614–20. http://dx.doi.org/10.1016/j.gde.2005.09.005.

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25

JACQUES, N., and S. CASAREGOLA. "Safety assessment of dairy microorganisms: The hemiascomycetous yeasts☆." International Journal of Food Microbiology 126, no. 3 (September 1, 2008): 321–26. http://dx.doi.org/10.1016/j.ijfoodmicro.2007.08.020.

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26

Bon, Elisabeth, Cécile Neuvéglise, Andrée Lépingle, Patrick Wincker, François Artiguenave, Claude Gaillardin, and Serge Casaregola. "Genomic Exploration of the Hemiascomycetous Yeasts: 6. Saccharomyces exiguus." FEBS Letters 487, no. 1 (December 20, 2000): 42–46. http://dx.doi.org/10.1016/s0014-5793(00)02277-8.

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27

Casaregola, Serge, Andrée Lépingle, Elisabeth Bon, Cécile Neuvéglise, Huu-Vang Nguyen, François Artiguenave, Patrick Wincker, and Claude Gaillardin. "Genomic Exploration of the Hemiascomycetous Yeasts: 7. Saccharomyces servazzii." FEBS Letters 487, no. 1 (December 20, 2000): 47–51. http://dx.doi.org/10.1016/s0014-5793(00)02278-x.

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28

de Montigny, Jacky, Marie-Laure Straub, Serge Potier, Fredj Tekaia, Bernard Dujon, Patrick Wincker, François Artiguenave, and Jean-Luc Souciet. "Genomic Exploration of the Hemiascomycetous Yeasts: 8.Zygosaccharomyces rouxii1." FEBS Letters 487, no. 1 (December 20, 2000): 52–55. http://dx.doi.org/10.1016/s0014-5793(00)02279-1.

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29

Neuvéglise, Cécile, Elisabeth Bon, Andrée Lépingle, Patrick Wincker, François Artiguenave, C. Gaillardin, and Serge Casarégola. "Genomic Exploration of the Hemiascomycetous Yeasts: 9.Saccharomyces kluyveri." FEBS Letters 487, no. 1 (December 20, 2000): 56–60. http://dx.doi.org/10.1016/s0014-5793(00)02280-8.

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30

Malpertuy, Alain, Bertrand Llorente, Gaëlle Blandin, François Artiguenave, Patrick Wincker, and Bernard Dujon. "Genomic Exploration of the Hemiascomycetous Yeasts: 10. Kluyveromyces thermotolerans." FEBS Letters 487, no. 1 (December 20, 2000): 61–65. http://dx.doi.org/10.1016/s0014-5793(00)02281-x.

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31

Bolotin-Fukuhara, Monique, Claire Toffano-Nioche, François Artiguenave, Guillemette Duchateau-Nguyen, Marc Lemaire, Roland Marmeisse, Robert Montrocher, et al. "Genomic Exploration of the Hemiascomycetous Yeasts: 11.Kluyveromyces lactis." FEBS Letters 487, no. 1 (December 20, 2000): 66–70. http://dx.doi.org/10.1016/s0014-5793(00)02282-1.

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32

Blandin, Gaëlle, Bertrand Llorente, Alain Malpertuy, Patrick Wincker, François Artiguenave, and Bernard Dujon. "Genomic Exploration of the Hemiascomycetous Yeasts: 13.Pichia angusta." FEBS Letters 487, no. 1 (December 20, 2000): 76–81. http://dx.doi.org/10.1016/s0014-5793(00)02284-5.

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33

Lépingle, Andrée, Serge Casaregola, Cécile Neuvéglise, Elisabeth Bon, Huu-Vang Nguyen, François Artiguenave, Patrick Wincker, and Claude Gaillardin. "Genomic Exploration of the Hemiascomycetous Yeasts: 14.Debaryomyces hanseniivar.hansenii." FEBS Letters 487, no. 1 (December 20, 2000): 82–86. http://dx.doi.org/10.1016/s0014-5793(00)02285-7.

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34

de Montigny, Jacky, Catherine Spehner, Jean-Luc Souciet, Fredj Tekaia, Bernard Dujon, Patrick Wincker, François Artiguenave, and Serge Potier. "Genomic Exploration of the Hemiascomycetous Yeasts: 15. Pichia sorbitophila." FEBS Letters 487, no. 1 (December 20, 2000): 87–90. http://dx.doi.org/10.1016/s0014-5793(00)02286-9.

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35

Blandin, Gaëlle, Odile Ozier-Kalogeropoulos, Patrick Wincker, François Artiguenave, and Bernard Dujon. "Genomic Exploration of the Hemiascomycetous Yeasts: 16.Candida tropicalis." FEBS Letters 487, no. 1 (December 20, 2000): 91–94. http://dx.doi.org/10.1016/s0014-5793(00)02287-0.

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36

Casaregola, Serge, Cécile Neuvéglise, Andrée Lépingle, Elisabeth Bon, Chantal Feynerol, François Artiguenave, Patrick Wincker, and Claude Gaillardin. "Genomic Exploration of the Hemiascomycetous Yeasts: 17. Yarrowia lipolytica." FEBS Letters 487, no. 1 (December 20, 2000): 95–100. http://dx.doi.org/10.1016/s0014-5793(00)02288-2.

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37

Sacerdot, Christine, Serge Casaregola, Ingrid Lafontaine, Fredj Tekaia, Bernard Dujon, and Odile Ozier-Kalogeropoulos. "Promiscuous DNA in the nuclear genomes of hemiascomycetous yeasts." FEMS Yeast Research 8, no. 6 (September 2008): 846–57. http://dx.doi.org/10.1111/j.1567-1364.2008.00409.x.

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38

Bon, E. "Molecular evolution of eukaryotic genomes: hemiascomycetous yeast spliceosomal introns." Nucleic Acids Research 31, no. 4 (February 15, 2003): 1121–35. http://dx.doi.org/10.1093/nar/gkg213.

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39

Sherman, D. "Genolevures: comparative genomics and molecular evolution of hemiascomycetous yeasts." Nucleic Acids Research 32, no. 90001 (January 1, 2004): 315D—318. http://dx.doi.org/10.1093/nar/gkh091.

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40

BLANK, L., F. LEHMBECK, and U. SAUER. "Metabolic-flux and network analysis in fourteen hemiascomycetous yeasts." FEMS Yeast Research 5, no. 6-7 (April 2005): 545–58. http://dx.doi.org/10.1016/j.femsyr.2004.09.008.

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41

Mannhaupt, Gertrud, and Horst Feldmann. "Genomic Evolution of the Proteasome System Among Hemiascomycetous Yeasts." Journal of Molecular Evolution 65, no. 5 (October 2, 2007): 529–40. http://dx.doi.org/10.1007/s00239-007-9031-y.

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42

De Hertogh, Benoît, Frédéric Hancy, André Goffeau, and Philippe V. Baret. "Emergence of Species-Specific Transporters During Evolution of the Hemiascomycete Phylum." Genetics 172, no. 2 (August 22, 2005): 771–81. http://dx.doi.org/10.1534/genetics.105.046813.

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43

Morris, Robert T., and Guy Drouin. "Ectopic Gene Conversions in the Genome of Ten Hemiascomycete Yeast Species." International Journal of Evolutionary Biology 2011 (November 25, 2011): 1–11. http://dx.doi.org/10.4061/2011/970768.

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We characterized ectopic gene conversions in the genome of ten hemiascomycete yeast species. Of the ten species, three diverged prior to the whole genome duplication (WGD) event present in the yeast lineage and seven diverged after it. We analyzed gene conversions from three separate datasets: paralogs from the three pre-WGD species, paralogs from the seven post-WGD species, and common ohnologs from the seven post-WGD species. Gene conversions have similar lengths and frequency and occur between sequences having similar degrees of divergence, in paralogs from pre- and post-WGD species. However, the sequences of ohnologs are both more divergent and less frequently converted than those of paralogs. This likely reflects the fact that ohnologs are more often found on different chromosomes and are evolving under stronger selective pressures than paralogs. Our results also show that ectopic gene conversions tend to occur more frequently between closely linked genes. They also suggest that the mechanisms responsible for the loss of introns in S. cerevisiae are probably also involved in the gene 3'-end gene conversion bias observed between the paralogs of this species.

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44

Fabre, Emmanuelle, Héloïse Muller, Pierre Therizols, Ingrid Lafontaine, Bernard Dujon, and Cécile Fairhead. "Comparative Genomics in Hemiascomycete Yeasts: Evolution of Sex, Silencing, and Subtelomeres." Molecular Biology and Evolution 22, no. 4 (December 22, 2004): 856–73. http://dx.doi.org/10.1093/molbev/msi070.

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45

Malpertuy, Alain, Fredj Tekaia, Serge Casarégola, Michel Aigle, Francois Artiguenave, Gaëlle Blandin, Monique Bolotin-Fukuhara, et al. "Genomic Exploration of the Hemiascomycetous Yeasts: 19. Ascomycetes-specific genes." FEBS Letters 487, no. 1 (December 20, 2000): 113–21. http://dx.doi.org/10.1016/s0014-5793(00)02290-0.

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Palma, Margarida, André Goffeau, Isabel Spencer-Martins, and Philippe V. Baret. "A Phylogenetic Analysis of the Sugar Porters in Hemiascomycetous Yeasts." Journal of Molecular Microbiology and Biotechnology 12, no. 3-4 (2007): 241–48. http://dx.doi.org/10.1159/000099645.

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Fischer, Gilles, Eduardo P. C. Rocha, Frédéric Brunet, Massimo Vergassola, and Bernard Dujon. "Highly Variable Rates of Genome Rearrangements between Hemiascomycetous Yeast Lineages." PLoS Genetics 2, no. 3 (March 10, 2006): e32. http://dx.doi.org/10.1371/journal.pgen.0020032.

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Fischer, Gilles, Eduardo Pimentel Cachapuz Rocha, Frédéric G. Brunet, Massimo Vergassola, and Bernard Dujon. "Highly variable rates of genome rearrangements between Hemiascomycetous yeast lineages." PLoS Genetics preprint, no. 2006 (2005): e32. http://dx.doi.org/10.1371/journal.pgen.0020032.eor.

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Artiguenave, François, Patrick Wincker, Phillippe Brottier, Simone Duprat, Fabien Jovelin, Claude Scarpelli, Jean Verdier, Virginie Vico, Jean Weissenbach, and William Saurin. "Genomic Exploration of the Hemiascomycetous Yeasts: 2. Data generation and processing." FEBS Letters 487, no. 1 (December 20, 2000): 13–16. http://dx.doi.org/10.1016/s0014-5793(00)02273-0.

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Blandin, Gaëlle, Pascal Durrens, Fredj Tekaia, Michel Aigle, Monique Bolotin-Fukuhara, Elisabeth Bon, Serge Casarégola, et al. "Genomic Exploration of the Hemiascomycetous Yeasts: 4. The genome ofSaccharomyces cerevisiaerevisited." FEBS Letters 487, no. 1 (December 20, 2000): 31–36. http://dx.doi.org/10.1016/s0014-5793(00)02275-4.

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