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Michel Aigle

Bio: Michel Aigle is an academic researcher from University of Lyon. The author has contributed to research in topics: Saccharomyces cerevisiae & Gene. The author has an hindex of 42, co-authored 88 publications receiving 6758 citations. Previous affiliations of Michel Aigle include University of Bordeaux & École normale supérieure de Lyon.


Papers
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Journal ArticleDOI
01 Jul 2004-Nature
TL;DR: Analysis of chromosome maps and genome redundancies reveal that the different yeast lineages have evolved through a marked interplay between several distinct molecular mechanisms, including tandem gene repeat formation, segmental duplication, a massive genome duplication and extensive gene loss.
Abstract: Identifying the mechanisms of eukaryotic genome evolution by comparative genomics is often complicated by the multiplicity of events that have taken place throughout the history of individual lineages, leaving only distorted and superimposed traces in the genome of each living organism. The hemiascomycete yeasts, with their compact genomes, similar lifestyle and distinct sexual and physiological properties, provide a unique opportunity to explore such mechanisms. We present here the complete, assembled genome sequences of four yeast species, selected to represent a broad evolutionary range within a single eukaryotic phylum, that after analysis proved to be molecularly as diverse as the entire phylum of chordates. A total of approximately 24,200 novel genes were identified, the translation products of which were classified together with Saccharomyces cerevisiae proteins into about 4,700 families, forming the basis for interspecific comparisons. Analysis of chromosome maps and genome redundancies reveal that the different yeast lineages have evolved through a marked interplay between several distinct molecular mechanisms, including tandem gene repeat formation, segmental duplication, a massive genome duplication and extensive gene loss.

1,604 citations

Journal ArticleDOI
Stephen G. Oliver1, Q. J. M. van der Aart2, M. L. Agostoni-Carbone3, Michel Aigle, Lilia Alberghina3, Despina Alexandraki, G. Antoine4, Rashida Anwar1, Juan P. G. Ballesta, Paule Bénit4, Gilbert Berben, Elisabetta Bergantino, N. Biteau, P. A. Bolle, Monique Bolotin-Fukuhara5, Anthony G. A. Brown1, Alistair J. P. Brown6, J. M. Buhler, C. Carcano3, Giovanna Carignani, Håkan Cederberg, R. Chanet4, Roland Contreras, Marc Crouzet, B. Daignan-Fornier5, E. Defoor7, M. Delgado, Jan Demolder, C. Doira5, Evelyne Dubois, Bernard Dujon8, A. Düsterhöft, D. Erdmann, M. Esteban, F. Fabre4, Cécile Fairhead8, Gérard Faye4, Horst Feldmann9, Walter Fiers, M. C. Francingues-Gaillard5, L. Franco, Laura Frontali10, H. Fukuhara4, L. J. Fuller11, P. Galland, Manda E. Gent1, D. Gigot, Véronique Gilliquet, Glansdorff Nn, André Goffeau12, M. Grenson13, P. Grisanti10, Leslie A. Grivell14, M. de Haan14, M. Haasemann, D. Hatat15, Janet Hoenicka, Johannes H. Hegemann, C. J. Herbert16, François Hilger, Stefan Hohmann, Cornelis P. Hollenberg, K. Huse, F. Iborra5, K. J. Indje1, K. Isono17, C. Jacq15, M. Jacquet5, C. M. James1, J. C. Jauniaux13, Y. Jia16, Alberto Jiménez, A. Kelly18, U. Kleinhans, P Kreisl, G. Lanfranchi, C Lewis11, C. G. vanderLinden19, G Lucchini3, K Lutzenkirchen, M.J. Maat14, L. Mallet5, G. Mannhaupet9, Enzo Martegani3, A. Mathieu4, C. T. C. Maurer19, David J. McConnell18, R. A. McKee11, F. Messenguy, Hans-Werner Mewes, Francis Molemans, M. A. Montague18, M. Muzi Falconi3, L. Navas, Carol S. Newlon20, D. Noone18, C. Pallier5, L. Panzeri3, Bruce M. Pearson11, J. Perea15, Peter Philippsen, A. Pierard, Rudi J. Planta19, Paolo Plevani3, B. Poetsch, Fritz M. Pohl21, B. Purnelle12, M. Ramezani Rad, S. W. Rasmussen, A. Raynal5, Miguel Remacha, P. Richterich21, Aki Roberts6, F. Rodriguez3, E. Sanz, I. Schaaff-Gerstenschlager, Bart Scherens, Bertold Schweitzer, Y. Shu15, J. Skala12, Piotr P. Slonimski16, F. Sor4, C. Soustelle5, R. Spiegelberg, Lubomira Stateva1, H. Y. Steensma2, S. Steiner, Agnès Thierry8, George Thireos, Maria Tzermia, L. A. Urrestarazu13, Giorgio Valle, I. Vetter9, J. C. van Vliet-Reedijk19, Marleen Voet7, Guido Volckaert7, P. Vreken19, H. Wang18, John R. Warmington1, D. von Wettstein, Barton Luke Wicksteed6, C. Wilson10, H. Wurst21, G. Xu, A. Yoshikawa17, Friedrich K. Zimmermann, J. G. Sgouros 
07 May 1992-Nature
TL;DR: The entire DNA sequence of chromosome III of the yeast Saccharomyces cerevisiae has been determined, which is the first complete sequence analysis of an entire chromosome from any organism.
Abstract: The entire DNA sequence of chromosome III of the yeast Saccharomyces cerevisiae has been determined. This is the first complete sequence analysis of an entire chromosome from any organism. The 315-kilobase sequence reveals 182 open reading frames for proteins longer than 100 amino acids, of which 37 correspond to known genes and 29 more show some similarity to sequences in databases. Of 55 new open reading frames analysed by gene disruption, three are essential genes; of 42 non-essential genes that were tested, 14 show some discernible effect on phenotype and the remaining 28 have no overt function.

811 citations

Journal ArticleDOI
TL;DR: A comparative genomics study of a homogeneous group of species classified as Hemiascomycetes, including Saccharomyces cerevisiae, allows to examine the conservation of chromosome maps, to identify the ‘yeast‐specific’ genes, and to review the distribution of gene families into functional classes.

226 citations

Journal ArticleDOI
TL;DR: A novel strategy has been developed for identifying yeast strain employing polymerase chain reaction technology using customised oligonucleotides, some regions of the yeast genome between δ elements are amplified to give an 'amplified' sequence polymorphisml characteristic of the strains.
Abstract: Commonly used techniques for the identification of industrial yeast strains are usually time-consuming and cumbersome. Moreover, some of these methods may give ambiguous results. A novel strategy has been developed for identifying yeast strain employing polymerase chain reaction technology. Using customised oligonucleotides, some regions of the yeast genome between δ elements are amplified to give an ‘amplified’ sequence polymorphisml (Skolnick and Wallace 1988) characteristic of the strains. With this technique it is possible to identify individual strains of Saccharomyces cerevisiae.

220 citations

Journal ArticleDOI
TL;DR: The gene RVS167, which shows reduced viability and abnormal cell morphology upon carbon and nitrogen starvation, could be implicated in cytoskeletal reorganization in response to environmental stresses and could act in the budding site selection mechanism.
Abstract: Mutations in genes necessary for survival in stationary phase were isolated to understand the ability of wild-type Saccharomyces cerevisiae to remain viable during prolonged periods of nutritional deprivation. Here we report results concerning one of these mutants, rvs167, which shows reduced viability and abnormal cell morphology upon carbon and nitrogen starvation. The mutant exhibits the same response when cells are grown in high salt concentrations and other unfavorable growth conditions. The RVS167 gene product displays significant homology with the Rvs161 protein and contains a SH3 domain at the C-terminal end. Abnormal actin distribution is associated with the mutant phenotype. In addition, while the budding pattern of haploid strains remains axial in standard growth conditions, the budding pattern of diploid mutant strains is random. The gene RVS167 therefore could be implicated in cytoskeletal reorganization in response to environmental stresses and could act in the budding site selection mechanism.

180 citations


Cited by
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Journal ArticleDOI
Eric S. Lander1, Lauren Linton1, Bruce W. Birren1, Chad Nusbaum1  +245 moreInstitutions (29)
15 Feb 2001-Nature
TL;DR: The results of an international collaboration to produce and make freely available a draft sequence of the human genome are reported and an initial analysis is presented, describing some of the insights that can be gleaned from the sequence.
Abstract: The human genome holds an extraordinary trove of information about human development, physiology, medicine and evolution. Here we report the results of an international collaboration to produce and make freely available a draft sequence of the human genome. We also present an initial analysis of the data, describing some of the insights that can be gleaned from the sequence.

22,269 citations

Journal ArticleDOI
TL;DR: A concluding discussion identifies unresolved issues pertaining to microbial cellulose utilization, suggests approaches by which such issues might be resolved, and contrasts a microbially oriented cellulose hydrolysis paradigm to the more conventional enzymatically oriented paradigm in both fundamental and applied contexts.
Abstract: Fundamental features of microbial cellulose utilization are examined at successively higher levels of aggregation encompassing the structure and composition of cellulosic biomass, taxonomic diversity, cellulase enzyme systems, molecular biology of cellulase enzymes, physiology of cellulolytic microorganisms, ecological aspects of cellulase-degrading communities, and rate-limiting factors in nature. The methodological basis for studying microbial cellulose utilization is considered relative to quantification of cells and enzymes in the presence of solid substrates as well as apparatus and analysis for cellulose-grown continuous cultures. Quantitative description of cellulose hydrolysis is addressed with respect to adsorption of cellulase enzymes, rates of enzymatic hydrolysis, bioenergetics of microbial cellulose utilization, kinetics of microbial cellulose utilization, and contrasting features compared to soluble substrate kinetics. A biological perspective on processing cellulosic biomass is presented, including features of pretreated substrates and alternative process configurations. Organism development is considered for "consolidated bioprocessing" (CBP), in which the production of cellulolytic enzymes, hydrolysis of biomass, and fermentation of resulting sugars to desired products occur in one step. Two organism development strategies for CBP are examined: (i) improve product yield and tolerance in microorganisms able to utilize cellulose, or (ii) express a heterologous system for cellulose hydrolysis and utilization in microorganisms that exhibit high product yield and tolerance. A concluding discussion identifies unresolved issues pertaining to microbial cellulose utilization, suggests approaches by which such issues might be resolved, and contrasts a microbially oriented cellulose hydrolysis paradigm to the more conventional enzymatically oriented paradigm in both fundamental and applied contexts.

4,769 citations

Journal ArticleDOI
25 Oct 1996-Science
TL;DR: The genome of the yeast Saccharomyces cerevisiae has been completely sequenced through a worldwide collaboration and provides information about the higher order organization of yeast's 16 chromosomes and allows some insight into their evolutionary history.
Abstract: The genome of the yeast Saccharomyces cerevisiae has been completely sequenced through a worldwide collaboration. The sequence of 12,068 kilobases defines 5885 potential protein-encoding genes, approximately 140 genes specifying ribosomal RNA, 40 genes for small nuclear RNA molecules, and 275 transfer RNA genes. In addition, the complete sequence provides information about the higher order organization of yeast's 16 chromosomes and allows some insight into their evolutionary history. The genome shows a considerable amount of apparent genetic redundancy, and one of the major problems to be tackled during the next stage of the yeast genome project is to elucidate the biological functions of all of these genes.

4,254 citations

Book ChapterDOI
TL;DR: The yeast Saccharomyces cerevisiae is now recognized as a model system representing a simple eukaryote whose genome can be easily manipulated and made particularly accessible to gene cloning and genetic engineering techniques.
Abstract: Publisher Summary The yeast Saccharomyces cerevisiae is now recognized as a model system representing a simple eukaryote whose genome can be easily manipulated. Yeast has only a slightly greater genetic complexity than bacteria and shares many of the technical advantages that permitted rapid progress in the molecular genetics of prokaryotes and their viruses. Some of the properties that make yeast particularly suitable for biological studies include rapid growth, dispersed cells, the ease of replica plating and mutant isolation, a well-defined genetic system, and most important, a highly versatile DNA transformation system. Being nonpathogenic, yeast can be handled with little precautions. Large quantities of normal baker's yeast are commercially available and can provide a cheap source for biochemical studies. The development of DNA transformation has made yeast particularly accessible to gene cloning and genetic engineering techniques. Structural genes corresponding to virtually any genetic trait can be identified by complementation from plasmid libraries. Plasmids can be introduced into yeast cells either as replicating molecules or by integration into the genome. In contrast to most other organisms, integrative recombination of transforming DNA in yeast proceeds exclusively via homologous recombination. Cloned yeast sequences, accompanied by foreign sequences on plasmids, can therefore be directed at will to specific locations in the genome.

3,547 citations

Journal ArticleDOI
30 Jan 1998-Yeast
TL;DR: A set of yeast strains based on Saccharomyces cerevisiae S288C in which commonly used selectable marker genes are deleted by design based on the yeast genome sequence has been constructed and analysed and will reduce plasmid integration events which can interfere with a wide variety of molecular genetic applications.
Abstract: A set of yeast strains based on Saccharomyces cerevisiae S288C in which commonly used selectable marker genes are deleted by design based on the yeast genome sequence has been constructed and analysed. These strains minimize or eliminate the homology to the corresponding marker genes in commonly used vectors without significantly affecting adjacent gene expression. Because the homology between commonly used auxotrophic marker gene segments and genomic sequences has been largely or completely abolished, these strains will also reduce plasmid integration events which can interfere with a wide variety of molecular genetic applications. We also report the construction of new members of the pRS400 series of vectors, containing the kanMX, ADE2 and MET15 genes.

3,448 citations