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Publications de DivY

PUBLICATIONS 2017

Lazar Z., Neuvéglise C., Rossignol T., Devillers H., Morin N., Robak M., Nicaud J.M., Crutz-Le Coq A.M. 2017. Characterization of hexose transporters in Yarrowia lipolytica reveals new groups of Sugar Porters involved in yeast growth. Fungal Genet Biol 100:1-12. doi: 10.1016/j.fgb.2017.01.001.

PUBLICATIONS 2016

Sassi H, Delvigne F, Kar T, Nicaud JM, Coq AM, Steels S, Fickers P. 2016. Deciphering how LIP2 and POX2 promoters can optimally regulate recombinant protein production in the yeast Yarrowia lipolytica. Microb Cell Fact. 15(1):159. doi: 10.1186/s12934-016-0558-8.

Ledesma-Amaro R, Lazar Z, Rakicka M, Guo Z, Fouchard F, Coq AC, Nicaud JM. 2016. Metabolic engineering of Yarrowia lipolytica to produce chemicals and fuels from xylose. Metab Eng. 38:115-124. doi: 10.1016/j.ymben.2016.07.001.

Dulermo R., Legras J.L., Brunel F., Devillers H., Sarilar V., Neuvéglise C., Nguyen H.V. 2016. Truncation of Gal4p explains the inactivation of the GAL/MEL regulon in both Saccharomycesbayanus and some S. cerevisiae wine strains. FEMS Yeast Research 16(6) pii: fow070. doi:10.1093/femsyr/fow070

Devillers H., Brunel F., Połomska X., Sarilar V., Lazar Z., Robak M., Neuvéglise C. 2016. Draft genome sequence of Yarrowia lipolytica strain A101 isolated from polluted soil in Poland. Genome Announcements 4(5):e01094-16. doi:10.1128/genomeA.01094-16.

 Rakicka M., Kieroń A., Hapeta P., Neuvéglise C., Lazar Z. 2016. Sweet and sour potential of yeast from the Yarrowia clade. Biomass and Bioenergy 92:48-54. doi:10.1016/j.biombioe.2016.06.004.

 Vakirlis N., Sarilar V., Drillon G., Fleiss A., Agier N., Meyniel J.-P., Blanpain L., Carbone A., Devillers H., Dubois K., Gillet-Markowska A., Graziani S., Nguyen H.V., Poirel M., Reisser C., Schott J., Schacherer J., Lafontaine I., Llorente B., Neuvéglise C., Fischer G. 2016. Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus. Genome Research 26(7):918-932. doi:10.1101/gr.204420.116.

 Freel K.C., Friedrich A., Sarilar V., Devillers H., Neuvéglise C., Schacherer J. 2016. Whole-genome sequencing and intraspecific analysis of the yeast species Lachancea quebecensis. Genome Biology and Evolution 8(3):733-741. doi: 10.1093/gbe/evv262.

 Devillers H, Morin N, Neuvéglise C. 2016. Enhancing Structural Annotation of Yeast Genomes with RNA-Seq Data. Methods Mol Biol. 2015;1361:41-56. doi: 10.1007/978-1-4939-3079-1_2.

PUBLICATIONS 2015

Rakicka, M., Lazar, Z., Neuvéglise, C., Rossignol, T., Nicaud, J.-M., Robak, M. 2015. Produkcja kwasu cytrynowego z melasy z wykorzystaniem transformantów Yarrowia lipolytica. Inżynieria i Aparatura Chemiczna, 3:111-113.

Meunchan M., Michely S., Devillers H., Nicaud J.-M., Marty A., Neuvéglise C. 2015. Comprehensive Analysis of a Yeast Lipase Family in the Yarrowia Clade. PLoS One. 10(11):e0143096. doi: 10.1371/journal.pone.0143096.

Lazar Z., Gamboa-Meléndez H., Crutz-Le Coq A.-M., Neuvéglise C., Nicaud J.-M. 2015. Awakening the endogenous Leloir pathway for efficient galactose utilization by Yarrowia lipolytica. Biotechnology for Biofuels 8:185. doi: 10.1186/s13068-015-0370-4.

de Brevern AG., Meyniel J.-P., Fairhead C., Neuvéglise C. and Malpertuy A. 2015. Trends in IT Innovation to Build a Next Generation Bioinformatics Solution to Manage and Analyse Biological Big Data Produced by NGS Technologies. Biomed Res Int. 2015:904541. doi: 10.1155/2015/904541. Review.

Dulermo R, Gamboa-Melendez H, Michely S, Thevenieau F, Neuveglise C, Nicaud JM. 2015. The evolution of Jen3 proteins and their role in dicarboxylic acid transport in Yarrowia. Microbiologyopen 4: 100-120.

Sarilar V, Devillers H, Freel KC, Schacherer J & Neuveglise C. 2015. Draft Genome Sequence of Lachancea lanzarotensis CBS 12615T, an Ascomycetous Yeast Isolated from Grapes. Genome Announcements 3(2). pii: e00292-15. doi: 10.1128/genomeA.00292-15.

Sarilar V, Bleykasten-Grosshans C & Neuveglise C. 2015. Evolutionary dynamics of hAT DNA transposon families in Saccharomycetaceae. Genome Biol Evol 7: 172-190.

PUBLICATIONS 2014

Freel KC, Sarilar V, Neuveglise C, Devillers H, Friedrich A & Schacherer J. 2014. Genome Sequence of the Yeast Cyberlindnera fabianii (Hansenula fabianii). Genome Announcements 2(4). pii: e00638-14. doi: 10.1128/genomeA.00638-14.

Groenewald M, Boekhout T, Neuveglise C, Gaillardin C, van Dijck PW & Wyss M. 2014. Yarrowia lipolytica: safety assessment of an oleaginous yeast with a great industrial potential. Crit Rev Microbiol 40: 187-206.

Janbon, G., Ormerod, K.L., Paulet, D., Byrnes, E.J., 3rd, Yadav, V., Chatterjee, G., Mullapudi, N., Hon, C.C., Billmyre, R.B., Brunel, F., Bahn, Y.S., Chen, W., Chen, Y., Chow, E.W., Coppee, J.Y., Floyd-Averette, A., Gaillardin, C., Gerik, K.J., Goldberg, J., Gonzalez-Hilarion, S., Gujja, S., Hamlin, J.L., Hsueh, Y.P., Ianiri, G., Jones, S., Kodira, C.D., Kozubowski, L., Lam, W., Marra, M., Mesner, L.D., Mieczkowski, P.A., Moyrand, F., Nielsen, K., Proux, C., Rossignol, T., Schein, J.E., Sun, S., Wollschlaeger, C., Wood, I.A., Zeng, Q., Neuveglise, C., Newlon, C.S., Perfect, J.R., Lodge, J.K., Idnurm, A., Stajich, J.E., Kronstad, J.W., Sanyal, K., Heitman, J., Fraser, J.A., Cuomo, C.A., Dietrich, F.S. 2014. Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation. PLoS Genet. 10, e1004261.

Kunze, G., Gaillardin, C., Czernicka, M., Durrens, P., Martin, T., Boer, E., Gabaldon, T., Cruz, J.A., Talla, E., Marck, C., Goffeau, A., Barbe, V., Baret, P., Baronian, K., Beier, S., Bleykasten, C., Bode, R., Casaregola, S., Despons, L., Fairhead, C., Giersberg, M., Gierski, P.P., Hahnel, U., Hartmann, A., Jankowska, D., Jubin, C., Jung, P., Lafontaine, I., Leh-Louis, V., Lemaire, M., Marcet-Houben, M., Mascher, M., Morel, G., Richard, G.F., Riechen, J., Sacerdot, C., Sarkar, A., Savel, G., Schacherer, J., Sherman, D.J., Stein, N., Straub, M.L., Thierry, A., Trautwein-Schult, A., Vacherie, B., Westhof, E., Worch, S., Dujon, B., Souciet, J.L., Wincker, P., Scholz, U., Neuveglise, C. 2014. The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnol Biofuels. 7, 66.

Lazar Z, Dulermo T, Neuveglise C, Crutz-Le Coq AM, Nicaud JM. 2014. Hexokinase-A limiting factor in lipid production from fructose in Yarrowia lipolytica. Metab Eng 26C: 89-99.

Maguire SL, Wang C, Holland LM, Brunel F, Neuveglise C, Nicaud JM, Zavrel M, White TC, Wolfe KH & Butler G. 2014. Zinc finger transcription factors displaced SREBP proteins as the major Sterol regulators during Saccharomycotina evolution. PLoS Genet 10: e1004076.

Morin N, Calcas X, Devillers H, Durrens P, Sherman DJ, Nicaud JM, Neuvéglise C. 2014. Draft Genome Sequence of Rhodosporidium toruloides CECT1137, an Oleaginous Yeast of Biotechnological Interest. Genome Announc 2.

Morin N., Crutz-Le Coq AM., Rossignol T., Nicaud JM. 2014. Protocols for Monitoring Growth and Lipid Accumulation in Oleaginous Yeasts. In: T. J. McGenity (Ed.), Hydrocarbon and Lipid Microbiology Protocols, Humana Press, pp. 1-17.

PUBLICATIONS 2013

Gabaldon, T., Martin, T., Marcet-Houben, M., Durrens, P., Bolotin-Fukuhara, M., Lespinet, O., Arnaise, S., Boisnard, S., Aguileta, G., Atanasova, R., Bouchier, C., Couloux, A., Creno, S., Almeida Cruz, J., Devillers, H., Enache-Angoulvant, A., Guitard, J., Jaouen, L., Ma, L., Marck, C., Neuveglise, C., Pelletier, E., Pinard, A., Poulain, J., Recoquillay, J., Westhof, E., Wincker, P., Dujon, B., Hennequin, C., Fairhead, C. 2013. Comparative genomics of emerging pathogens in the Candida glabrata clade. BMC Genomics. 14, 623.

Galeote V, Bigey F, Devillers H, Neuveglise C & Dequin S. 2013. Genome Sequence of the Food Spoilage Yeast Zygosaccharomyces bailii CLIB 213T. Genome Announcements 1(4) pii: e00606-13. doi: 10.1128/genomeA.00606-13.

Groenewald, M., Boekhout, T., Neuveglise, C., Gaillardin, C., van Dijck, P. W. and Wyss, M. 2013. Yarrowia lipolytica: Safety assessment of an oleaginous yeast with a great industrial potential. Crit Rev Microbiol. 

Kominek J, Marszalek J, Neuveglise C, Craig EA & Williams BL. 2013. The complex evolutionary dynamics of Hsp70s: a genomic and functional perspective. Genome Biol Evol 5: 2460-2477.

Lazar Z, Rossignol T, Verbeke J, Crutz-Le Coq AM, Nicaud JM, Robak M. 2013. Optimized invertase expression and secretion cassette for improving Yarrowia lipolytica growth on sucrose for industrial applications. J Ind Microbiol Biotechnol 40: 1273-1283.

Michely, S., Gaillardin, C., Nicaud, J. M., Neuveglise, C. 2013. Comparative physiology of oleaginous species from the yarrowia clade. PLoS One 8, e63356

PUBLICATIONS 2012

Gaillardin, C., Neuveglise, C., Kerscher, S. and Nicaud, J. M. 2012. Mitochondrial genomes of yeasts of the Yarrowia clade. FEMS Yeast Res 12, 317-31.

Louis, V. L., Despons, L., Friedrich, A., Martin, T., Durrens, P., Casaregola, S., Neuveglise, C., Fairhead, C., Marck, C., Cruz, J. A., Straub, M. L., Kugler, V., Sacerdot, C., Uzunov, Z., Thierry, A., Weiss, S., Bleykasten, C., De Montigny, J., Jacques, N., Jung, P., Lemaire, M., Mallet, S., Morel, G., Richard, G. F., Sarkar, A., Savel, G., Schacherer, J., Seret, M. L., Talla, E., Samson, G., Jubin, C., Poulain, J., Vacherie, B., Barbe, V., Pelletier, E., Sherman, D. J., Westhof, E., Weissenbach, J., Baret, P. V., Wincker, P., Gaillardin, C., Dujon, B. and Souciet, J. L. 2012. Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization. G3 (Bethesda) 2, 299-311. 

Kabran, P., Rossignol, T., Gaillardin, C., Nicaud, J. M., Neuveglise, C. 2012. Alternative Splicing Regulates Targeting of Malate Dehydrogenase in Yarrowia lipolytica. DNA Res 19, 231-44. 

PUBLICATIONS 2011

Amselem, J., Cuomo, C. A., van Kan, J. A., Viaud, M., Benito, E. P., Couloux, A., Coutinho, P. M., de Vries, R. P., Dyer, P. S., Fillinger, S., Fournier, E., Gout, L., Hahn, M., Kohn, L., Lapalu, N., Plummer, K. M., Pradier, J. M., Quevillon, E., Sharon, A., Simon, A., ten Have, A., Tudzynski, B., Tudzynski, P., Wincker, P., Andrew, M., Anthouard, V., Beever, R. E., Beffa, R., Benoit, I., Bouzid, O., Brault, B., Chen, Z., Choquer, M., Collemare, J., Cotton, P., Danchin, E. G., Da Silva, C., Gautier, A., Giraud, C., Giraud, T., Gonzalez, C., Grossetete, S., Guldener, U., Henrissat, B., Howlett, B. J., Kodira, C., Kretschmer, M., Lappartient, A., Leroch, M., Levis, C., Mauceli, E., Neuveglise, C., Oeser, B., Pearson, M., Poulain, J., Poussereau, N., Quesneville, H., Rascle, C., Schumacher, J., Segurens, B., Sexton, A., Silva, E., Sirven, C., Soanes, D. M., Talbot, N. J., Templeton, M., Yandava, C., Yarden, O., Zeng, Q., Rollins, J. A., Lebrun, M. H. and Dickman, M. 2011. Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PLoS Genet 7, e1002230.

Bleykasten-Grosshans, C. and Neuveglise, C. 2011. Transposable elements in yeasts. C R Biol 334, 679-86. 

Haddouche, R., Poirier, Y., Delessert, S., Sabirova, J., Pagot, Y., Neuveglise, C., Nicaud, JM. 2011. Engineering polyhydroxyalkanoate content and monomer composition in the oleaginous yeast Yarrowia lipolytica by modifying the ss-oxidation multifunctional protein. Appl Microbiol Biotechnol 91, 1327-40.

Neuveglise, C., Marck, C. and Gaillardin, C.  2011. The intronome of budding yeasts. CR Biol 334, 662-70.

Nguyen, H. V., Legras, J. L., Neuveglise, C., Gaillardin, C. 2011. Deciphering the hybridisation history leading to the Lager lineage based on the mosaic genomes of Saccharomyces bayanus strains NBRC1948 and CBS380. PLoS One 6, e25821.

PUBLICATIONS 2010

Desfougeres, T., Haddouche, R., Fudalej, F., Neuveglise, C., Nicaud, JM. 2010. SOA genes encode proteins controlling lipase expression in response to triacylglycerol utilization in the yeast Yarrowia lipolytica. FEMS Yeast Res 10, 93-103.

Haddouche, R., Delessert, S., Sabirova, J., Neuveglise, C., Poirier, Y., Nicaud, JM. 2010. Roles of multiple acyl-CoA oxidases in the routing of carbon flow towards beta-oxidation and polyhydroxyalkanoate biosynthesis in Yarrowia lipolytica. FEMS Yeast Res 10, 917-27.

Mekouar, M., Blanc-Lenfle, I., Ozanne, C., Da Silva, C., Cruaud, C., Wincker, P., Gaillardin, C. and Neuveglise, C. 2010. Detection and analysis of alternative splicing in Yarrowia lipolytica reveal structural constraints facilitating nonsense-mediated decay of intron-retaining transcripts. Genome Biol 11, R65.