Dicistronic tRNA-5S genes in Yarrowia lipolytica: An alternative TFIIIA-independent way for expression of 5S rRNA genes, Nucleic Acids Res, vol.18, pp.5832-5844, 2008. ,
URL : https://hal.archives-ouvertes.fr/hal-00341667
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana, Nature, vol.408, pp.796-815, 2000. ,
Molecular and functional organization of yeast plasmid pSR1, J Mol Biol, vol.182, pp.191-203, 1985. ,
Gene ontology annotation status of the fission yeast genome: Preliminary coverage approaches 100%, Yeast, vol.23, pp.913-919, 2006. ,
Global trends of whole-genome duplication revealed by the ciliate Paramecium tetraurelia, Nature, vol.444, pp.171-178, 2006. ,
A history of research on yeasts 10: Foundations of yeast genetics, Yeast, vol.24, pp.799-845, 2007. ,
Saccharomyces kluyveri as a model organism to study pyrimidine degradation, FEMS Yeast Res, vol.8, pp.1209-1213, 2008. ,
Metabolic flux and network analysis in fourteen hemiascomycetous yeasts, FEMS Yeast Res, vol.5, pp.545-558, 2005. ,
Biodiversity: Gut feeling for yeasts, Nature, vol.434, pp.449-451, 2005. ,
Genomic exploration of the hemiascomycetous yeasts: 5. Saccharomyces bayanus var. uvarum, FEBS Lett, vol.487, pp.37-41, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02694284
Genomic exploration of the hemiascomycetous yeasts: 6. Saccharomyces exiguus, FEBS Lett, vol.487, pp.42-46, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02694290
Molecular evolution of eukaryotic genomes: Hemiascomycetous yeast spliceosomal introns, Nucleic Acids Res, vol.31, pp.1121-1135, 2003. ,
URL : https://hal.archives-ouvertes.fr/inria-00339881
Comparative genome analysis of a Saccharomyces cerevisiae wine strain, FEMS Yeast Res, vol.8, pp.1185-1195, 2008. ,
Recognition of genes in DNA sequence with ambiguities, Biosystems, vol.30, pp.161-171, 1993. ,
Evolution of the MAT locus and its HO endonuclease in yeast species, Proc Natl Acad Sci, vol.101, pp.1632-1637, 2004. ,
URL : https://hal.archives-ouvertes.fr/hal-02680666
The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species, Genome Res, vol.15, pp.1456-1461, 2005. ,
Reorganization of adjacent gene relationships in yeast genomes by whole-genome duplication and gene deletion, Mol Biol Evol, vol.23, pp.1136-1143, 2006. ,
Genomic exploration of the Hemiascomycetous Yeasts: 7. Saccharomyces servazzii, FEBS Lett, vol.487, pp.47-51, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02694291
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis, Mol Biol Evol, vol.17, pp.540-552, 2000. ,
Structural elements required for association of the Saccharomyces cerevisiae telomerase RNA with the Est2 reverse transcriptase, Mol Cell Biol, vol.24, pp.7720-7736, 2004. ,
Clonal size-variation of rDNA cluster region on chromosome XII of Saccharomyces cerevisiae, J Gen Microbiol, vol.139, pp.1409-1413, 1993. ,
Finding functional features in Saccharomyces cerevisiae by phylogenetic footprinting, Science, vol.301, pp.71-76, 2003. ,
After the duplication: Gene loss and adaptation in Saccharomyces genomes, Genetics, vol.172, pp.863-872, 2006. ,
Probabilistic cross-species inference of orthologous genomic regions created by whole-genome duplication in yeast, Genetics, vol.179, pp.1681-1692, 2008. ,
Identification and dissection of a complex DNA repair sensitivity phenotype in Baker's yeast, PLoS Genet, vol.4, p.1000123, 2008. ,
Genomic exporation of the hemiascomycetous yeasts: 8. Zygosaccharomyces rouxii, FEBS Lett, vol.487, pp.52-55, 2000. ,
The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome, Science, vol.304, pp.304-307, 2004. ,
Hemiascomycetous yeasts at the forefront of comparative genomics, Curr Opin Genet Dev, vol.6, pp.614-620, 2005. ,
Yeasts illustrate the molecular mechanisms of eukaryotic genome evolution, Trends Genet, vol.22, pp.375-387, 2006. ,
Genome evolution in yeasts, Nature, vol.430, pp.35-44, 2004. ,
URL : https://hal.archives-ouvertes.fr/hal-00104411
An efficient algorithm for large-scale detection of protein families, Nucleic Acids Res, vol.30, pp.1575-1584, 2002. ,
Structure of Kluyveromyces lactis subtelomeres: Duplications and gene content, FEMS Yeast Res, vol.6, pp.428-441, 2006. ,
Chromosomal evolution in Saccharomyces, Nature, vol.405, pp.415-454, 2000. ,
Evolution of gene order in the genomes of two related yeasts species, Genome Res, vol.11, pp.2009-2019, 2001. ,
Highly variable rates of genome rearrangements between hemiascomycetous yeast lineages, PLoS Genet, vol.2, p.32, 2006. ,
A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis, BMC Evol Biol, vol.6, p.99, 2006. ,
An efficient probabilistic population-based descent for the median genome problem, Proceedings of the 2008 GECCO Conference Companion on Genetic and Evolutionary Computation, pp.315-322, 2008. ,
Life with 6000 genes, Science, vol.274, pp.546-567, 1996. ,
L1-like non-LTR retrotransposons in the yeast Candida albicans, Curr Genet, vol.39, pp.83-91, 2001. ,
A yeast model for target-primed (non-LTR) retrotransposition, BMC Genomics, vol.8, p.263, 2007. ,
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood, Syst Biol, vol.52, pp.696-704, 2003. ,
Contribution of horizontal transfer to the evolution of Saccharomyces cerevisiae, Eukaryot Cell, vol.4, pp.1102-1115, 2005. ,
Fungal genomics beyond Saccharomyces cerevisiae, Curr Opin Biotechnol, vol.14, pp.226-231, 2003. ,
Whole-genome sequence assembly for mammalian genomes: Arachne 2, Genome Res, vol.13, pp.91-96, 2003. ,
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype, Nature, vol.431, pp.946-957, 2004. ,
URL : https://hal.archives-ouvertes.fr/hal-00427605
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla, Nature, vol.449, pp.463-476, 2007. ,
URL : https://hal.archives-ouvertes.fr/inria-00180136
Growth of the salt-tolerant yeast Zygosaccharomyces rouxii in microtiter plates: Effects of NaCl, pH and temperature on growth and fusel alcohol production from branched-chain amino acids, FEMS Yeast Res, vol.3, pp.313-318, 2003. ,
Positive selection of a gene family during the emergence of humans and African apes, Nature, vol.413, pp.514-519, 2001. ,
The diploid genome sequence of Candida albicans, Proc Natl Acad Sci, vol.101, pp.7329-7334, 2004. ,
MAFFT version 5: Improvement in accuracy of multiple sequence alignment, Nucleic Acids Res, vol.33, pp.511-518, 2005. ,
Sequencing and comparison of yeast species to identify genes and regulatory elements, Nature, vol.423, pp.241-254, 2003. ,
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae, Nature, vol.428, pp.617-624, 2004. ,
Phylogenetic circumscription of Saccharomyces, Kluyveromyces and other members of the Saccharomycetaceae, and the proposal of the new genera Lachancea, Nakaseomyces, Naumovia, Vanderwaltozyma and Zygotorulaspora, FEMS Yeast Res, vol.4, pp.233-245, 2003. ,
Yeast systematics and phylogeny-implications of molecular identification methods for studies in ecology, The yeast handbook, pp.11-30, 2006. ,
Taxonomy and phylogenetic diversity among the yeasts, The yeast handbook, pp.29-46, 2006. ,
Phylogenetic relationships among yeasts of the ''Saccharomyces complex'' determined from multigene sequence analyses, FEMS Yeast Res, vol.3, pp.417-432, 2003. ,
The quest for orthologs: Finding the corresponding gene across genomes, Trends Genet, vol.24, pp.539-551, 2008. ,
Yeast chromosomes have been significantly reshaped during their evolutionary history, J Mol Biol, vol.304, pp.271-288, 2000. ,
Population genomics of domestic and wild yeasts, Nature, vol.458, pp.337-341, 2009. ,
Genomic exploration of the hemiascomycetous yeasts: 12. Kluyveromyces marxianus var. marxianus, FEBS Lett, vol.487, pp.71-75, 2000. ,
Genomic exploration of the hemiascomycetous yeasts: 18. Comparative analysis of chromosome maps and synteny with Saccharomyces cerevisiae, FEBS Lett, vol.487, pp.101-112, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02695816
The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans, Science, vol.307, pp.1321-1324, 2005. ,
The evolutionary fate and consequences of duplicate genes, Science, vol.290, pp.1151-1155, 2000. ,
Extensive chromosome rearrangements distinguish the karyotype of the hypovirulent species Candida dubliniensis from the virulent Candida albicans, Fungal Genet Biol, vol.45, pp.338-350, 2008. ,
Genomic exporation of the hemiascomycetous yeasts: 10. Kluyveromyces thermotolerans, FEBS Lett, vol.487, pp.61-65, 2000. ,
Genomic exploration of the hemiascomycetous yeasts: 19. Ascomycetespecific genes, FEBS Lett, vol.487, pp.113-121, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02694278
The RNA polymerase III-dependent family of genes in hemiascomycetes: Comparative RNomics, decoding strategies, transcription and evolutionary implications, Nucleic Acids Res, vol.34, pp.1816-1835, 2006. ,
URL : https://hal.archives-ouvertes.fr/hal-00094338
Runaway telomere elongation caused by telomerase RNA gene mutations, Nature, vol.376, pp.403-409, 1995. ,
Phylogenetic and structural analysis of centromeric DNA and kinetochore proteins, 2006. ,
, Genome Biol, vol.7, p.23
Evolution of the genetic code in yeasts, Yeast, vol.23, pp.203-213, 2006. ,
Steady-state and transient-state analyses of aerobic fermentation in Sacchromyces kluyveri, FEMS Yeast Res, vol.2, pp.233-244, 2002. ,
Production of fungal alpha-amylase by Saccharomyces kluyveri in glucose-limited cultivations, J Biotechnol, vol.111, pp.311-318, 2004. ,
Lengths of chromosomal segments conserved since divergence of man and mouse, Proc Natl Acad Sci, vol.81, pp.814-818, 1984. ,
Genomic exploration of the hemiascomycetous yeasts: 9. Saccharomyces kluyveri, FEBS Lett, vol.487, pp.56-60, 2000. ,
Mutator-like element in the yeast Yarrowia lipolytica displays multiple alternative splicings, Eukaryot Cell, vol.4, pp.615-624, 2005. ,
Family relationships: Should consensus reign? Consensus clustering for protein families, Bioinformatics, vol.23, pp.71-76, 2007. ,
URL : https://hal.archives-ouvertes.fr/inria-00202434
Genetics of Candida albicans, a diploid human fungal pathogen, Annu Rev Genet, vol.41, pp.193-211, 2007. ,
Global synthetic-lethality analysis and yeast functional profiling, Trends Genet, vol.22, pp.56-63, 2006. ,
Substrate specificity and regioselectivity of delta12 and omega3 fatty acid desaturases from Saccharomyces kluyveri, Biosci Biotechnol Biochem, vol.72, pp.3174-3179, 2008. ,
Segmental duplications arise from pol32-dependent repair of broken forks through two alternative replication-based mechanisms, PLoS Genet, vol.4, p.1000175, 2008. ,
Unusual composition of a yeast chromosome arm is associated with its delayed replication, Genome Res, 2009. ,
URL : https://hal.archives-ouvertes.fr/inria-00407518
Saccharomyces sensu stricto as a model system for evolution and ecology, Trends Ecol Evol, vol.23, pp.494-501, 2008. ,
Genomic evidence for two functionally distinct gene classes, Proc Natl Acad Sci, vol.95, pp.6239-6244, 1998. ,
Insertion of horizontally transferred genes within conserved syntenic regions of yeast genomes, PLoS ONE, 2009. ,
Structure and evolution of the hAT transposon superfamily, Genetics, vol.158, pp.949-957, 2001. ,
Physical constitution of ribosomal genes in common strains of Saccharomyces cerevisiae, Yeast, vol.10, pp.1157-1171, 1994. ,
Segmental duplications and the evolution of the primate genome, Nat Rev Genet, vol.3, pp.65-72, 2002. ,
Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts, Nature, vol.440, pp.341-345, 2006. ,
Yeast genome evolution-the orgin of the species, Yeast, vol.24, pp.929-942, 2007. ,
Independent sorting-out of thousands of duplicated gene pairs in two yeast species descended from a whole-genome duplication, Proc Natl Acad Sci, vol.104, pp.8397-8402, 2007. ,
Comprehensive polymorphism survey elucidates population structure of S. cerevisiae, Nature, vol.458, pp.342-346, 2009. ,
Yeasts associated to traditional balsamic vinegar: Ecological and technological features, Int J Food Microbiol, vol.125, pp.36-45, 2007. ,
Genome size and ploidy level: New insights for elucidating relationships in Zygosaccharomyces species, Fungal Genet Biol, vol.45, pp.1582-1590, 2008. ,
Analysis of chromosomal DNA patterns of the genus Kluyveromyces, Yeast, vol.5, pp.1-10, 1989. ,
Genomic exploration of the hemiascomycetous yeasts: 1. A set of yeast species for molecular evolution studies, FEBS Lett, vol.487, pp.3-12, 2000. ,
Organization of specific genomic regions of Zygosaccharomyces rouxii and Pichia sorbitophila: Comparison with Saccharomyces cerevisiae, Yeast, vol.16, pp.1377-1385, 2000. ,
The complete mitochondrial genome of the yeast Kluyveromyces thermotolerans, FEBS Lett, vol.579, pp.30-40, 2005. ,
The COG database: An updated version includes eukaryotes, BMC Bioinformatics, vol.4, p.41, 2003. ,
GRIMM: Genome rearrangements web server, Bioinformatics, vol.18, pp.492-493, 2002. ,
Reduction of volatile acidity of wines by selected yeast strains, Appl Microbiol Biotechnol, vol.80, pp.881-890, 2008. ,
Automatic genome-wide reconstruction of phylogenetic gene tree, Bioinformatics, vol.23, pp.549-558, 2007. ,
Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789, Proc Natl Acad Sci, vol.104, pp.12825-12830, 2007. ,
Molecular evidence for an ancient duplication of the entire yeast genome, Nature, vol.387, pp.708-713, 1997. ,
Gene order evolution and paleopolyploidy in hemiascomycete yeasts, Proc Natl Acad Sci, vol.99, pp.9272-9277, 2002. ,
The genome sequence of Schizosaccharomyces pombe, Nature, vol.415, pp.871-880, 2002. ,
PIRSF: Family classification system at the Protein Information Resource, Nucleic Acids Res, vol.32, pp.112-114, 2004. ,
Dandruffassociated Malassezia genomes reveal convergent and divergent virulence traits shared with plant and human fungal pathogens, Proc Natl Acad Sci, vol.104, pp.18730-18735, 2007. ,
The genomes of Oryza sativa: A history of duplications, PLoS Biol, vol.3, p.38, 2005. ,
Quantification of insect genome divergence, Trends Genet, vol.23, pp.16-20, 2007. ,
,
, Access the most recent version at doi, vol.19, pp.1696-1709, 2009.
, Genome Res. References