Population and Functional Genomics

Resources

PUBLICATIONS 

2026

• Towards the construction of a virtual yeast.
  Qian L, Zhou Z, Zhou P, Dong Z, Zhang X, Dai Z, Gao Z, Sun S, Roy KR, Wang S, Zamboni N, Boone C, Costanzo M, Li J, Liti G, Yue JX, Ralser M, Williams E, Zampieri M, Jiang H, Wu T, Wang Y, Li F, Schacherer J, Sun R, Li Z, Deng Y, Chen Y, Xie Z, Lou H, Wang X, Xie L, Wen H, Chen L, Lei K, Rosenberger G, Cai X, Wang Y, Xiao Q, Shen H, Liu G, Ma L, Andrews B, Lu H, Piatkevich K, Zhu Y, Bai L, Cai Y, Chen Y, E W, Gao G, He F, Chen L, Li SZ, Ma H, Qiao L, Steinmetz LM, Tang L, Tang T, Zhang X, Yang J, Yang Y, Yu K, Zeng J, Zheng Y, Zhou B, Guo T. 
  Nature. 2026 Jul;655(8121):59-70.
  doi: 10.1038/s41586-026-10574-9
• The genetics of the many forms of diversity. 
  Schacherer 
  J. Genetics. 2026 Jun24:iyag149
  doi: 10.1093/genetics/iyag149
• Microbial domestication: Farmhouse brewing preserves a hidden reservoir of yeast diversity. 
  Schacherer 
  J. Curr Biol. 2026 Jun 8;36(11):R478-R480 
  doi:10.1016/j.cub.2026.04.022
• Population-scale chemical response revealed by a barcoded yeast collection.Dutta A, Garin M, Loegler V, Brach G, Friedrich A, Yoshimura M, Hirano H, Osada H, Boone C, Yashiroda Y, Hou J, Schacherer
  J. Nat Commun. 2026 May 28;17(1):6928 
  doi: 10.1038/s41467-026-73532-z.
• Domestication drives repeated evolution of sexual-asexual life cycle trade-offs in yeast. 
  Becerra-Rodríguez C, Thiele P, Brach G, Dutta A, Garin M, Tan G, Loegler V, Friedrich A, Andrews B, Boone C, Schacherer J, Hou J. 
  Proc Natl Acad Sci U S A. 2026 Jan 13;123(2):e2526682123
  doi: 10.1073/pnas.2526682123
• Dynamics of genome evolution in the era of pangenome analysis.
  Loegler V, Friedrich A, Schacherer 
  J. Cell Genom. 2026 Jan 14;6(1):101067
  doi: 10.1016/j.xgen.2025.101067
• From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes.
  Loegler V, Thiele P, Teyssonnière E, Tsouris A, Brach G, Cruaud C, Payen E,Engelen S, Dunham MJ, Hou J, Friedrich A, Schacherer J. 
  Nature. 2025 Dec;648(8094):649-658
  doi: 10.1038/s41586-025-09637-0. Epub 2025 Oct 15. PMID:41094142; PMCID: PMC12711572.

2025

• Whole-genome sequencing of 1,060 Brettanomyces bruxellensis isolates reveals significant phenotypic impact of acquired subgenomes in allopolyploids. 
  Loegler V, Runge JN, Eberlein C, Peltier É, Harrouard J, Miot-Sertier C, Albertin W, Friedrich A, Schacherer J. 
  Nat Commun. 2025 Jul 1;16(1):5500
  doi: 10.1038/s41467-025-60706-4
• Genetic and phenotypic insights into Cyberlindnera jadinii as a promising yeast for industrial biotechnology. 
  Wu J, Ohnuki S, Teyssonnière É, Yasukawa T, Masuo N, Schacherer J, Ohya Y. 
  G3 (Bethesda). 2025 Sep 3;15(9):jkaf145
  doi:10.1093/g3journal/jkaf145
• Mining yeast diversity unveils novel targets for improved heterologous laccase production in Saccharomyces cerevisiae. 
  Wong RWK, Foo M, Lay JRS, Wai TLT, Moore J, Dutreux F, Molzahn C, Nislow C, Measday V, Schacherer J, Mayor T. 
  Microb Cell Fact. 2025 Mar 10;24(1):60
  doi: 10.1186/s12934-025-02677-1
• Whole-genome sequencing and phenotyping reveal specific adaptations of Lachancea thermotolerans to the winemaking environment. 
  Vicente J, Friedrich A, Schacherer J, Freel K, Marquina D, Santos A. 
  Mol Ecol. 2025 Dec;34(24):e17667
  doi: 10.1111/mec.17667
• Comprehensive survey of kombucha microbial communities of diverse origins and fermentation practices.
  Ben Saad E, Friedrich A, Fischer F, Courot O, Schacherer J, Bleykasten C. 
  FEMS Yeast Res. 2025 Jan 30;25:foaf005
  doi: 10.1093/femsyr/foaf005
• The dynamics of loss of heterozygosity events in genomes.
  Dutta A, Schacherer J. EMBO Rep. 2025 Feb;26(3):602-612. 
  doi: 10.1038/s44319-024-00353-w.

2024

• Overview of the Saccharomyces cerevisiae population structure through the lens of 3,034 genomes.
  Loegler V, Friedrich A, Schacherer J. 
  G3 (Bethesda). 2024 Nov 19;14(12):jkae245. 
  doi: 10.1093/g3journal/jkae245.
• Multiple independent losses of crossover interference during yeast evolutionary history. 
  Dutta A, Dutreux F, Garin M, Caradec C, Friedrich A, Brach G, Thiele P, Gaudin M, Llorente B, Schacherer J. 
  PLoS Genet. 2024 Sep 26;20(9):e1011426. 
  doi: 10.1371/journal.pgen.1011426.
• Pan-transcriptome reveals a large accessory genome contribution to gene expression variation in yeast. 
  Caudal É, Loegler V, Dutreux F, Vakirlis N, Teyssonnière É, Caradec C,Friedrich A, Hou J, Schacherer J. 
  Nat Genet. 2024 Jun;56(6):1278-1287. 
  doi: 10.1038/s41588-024-01769-9.
• Natural proteome diversity links aneuploidy tolerance to protein turnover. Muenzner J, Trébulle P, Agostini F, Zauber H, Messner CB, Steger M, Kilian C, Lau K, Barthel N, Lehmann A, Textoris-Taube K, Caudal E, Egger AS, Amari F, De Chiara M, Demichev V, Gossmann TI, Mülleder M, Liti G, Schacherer J, Selbach M, Berman J, Ralser M. 
  Nature. 2024 Jun;630(8015):149-157. 
  doi: 10.1038/s41586-024-07442-9.
• Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast.
  Teyssonnière EM, Trébulle P, Muenzner J, Loegler V, Ludwig D, Amari F, Mülleder M, Friedrich A, Hou J, Ralser M, Schacherer J. 
  Proc Natl Acad Sci U S A. 2024 May 7;121(19):e2319211121. 
  doi: 10.1073/pnas.2319211121.
• Absence of chromosome axis protein recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri. 
  Legrand S, Saifudeen A, Bordelet H, Vernerey J, Guille A, Bignaud A, Thierry A, Acquaviva L, Gaudin M, Sanchez A, Johnson D, Friedrich A, Schacherer J, Neale MJ, Borde V, Koszul R, Llorente B. 
  Proc Natl Acad Sci U S A. 2024 Mar 19;121(12):e2312820121. 
  doi: 10.1073/pnas.2312820121. Epub 2024 Mar 13.
• Diallel panel reveals a significant impact of low-frequency genetic variants on gene expression variation in yeast. 
  Tsouris A, Brach G, Friedrich A, Hou J, Schacherer 
  J. Mol Syst Biol. 2024 Apr;20(4):362-373. 
  doi: 10.1038/s44320-024-00021-0.
• Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast. 
  Teyssonniere EM, Shichino Y, Mito M, Friedrich A, Iwasaki S, Schacherer J. 
  Nucleic Acids Res. 2024 Mar 21;52(5):2434-2445. 
  doi: 10.1093/nar/gkae030.
• Species-wide survey of the expressivity and complexity spectrum of traits in yeast. 
  Tsouris A, Fournier T, Friedrich A, Hou J, Dunham MJ, Schacherer J. 
  PLoS Genet. 2024 Jan 18;20(1):e1011119. 
  doi: 10.1371/journal.pgen.1011119.
• Non-additive genetic components contribute significantly to population-wide gene expression variation. 
  Tsouris A, Brach G, Schacherer J, Hou J. 
  Cell Genom. 2024 Jan 10;4(1):100459. 
  doi: 10.1016/j.xgen.2023.100459.

2023

• Copy number variation alters local and global mutational tolerance. 
  Avecilla G, Spealman P, Matthews J, Caudal E, Schacherer J, Gresham D. 
  Genome Res. 2023 Aug;33(8):1340-1353. 
  doi: 10.1101/gr.277625.122.
• Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae. 
  O'Donnell S, Yue JX, Saada OA, Agier N, Caradec C, Cokelaer T, De Chiara M, Delmas S, Dutreux F, Fournier T, Friedrich A, Kornobis E, Li J, Miao Z, Tattini L, Schacherer J, Liti G, Fischer G. 
  Nat Genet. 2023 Aug;55(8):1390-1399. 
  doi: 10.1038/s41588-023-01459-y.
• Impact of the acquired subgenome on the transcriptional landscape in Brettanomyces bruxellensis allopolyploids. 
  Jallet A, Friedrich A, Schacherer J. 
  G3 (Bethesda). 2023 Jul 5;13(7):jkad115. 
  doi: 10.1093/g3journal/jkad115.
• Contrasting genomic evolution between domesticated and wild Kluyveromyces lactis yeast populations. 
  Friedrich A, Gounot JS, Tsouris A, Bleykasten C, Freel K, Caradec C, Schacherer J. 
  Genome Biol Evol. 2023 Feb 3;15(2):evad004. 
  doi: 10.1093/gbe/evad004.
• Lessons from the meiotic recombination landscape of the ZMM deficient budding yeast Lachancea waltii. 
  Dutreux F, Dutta A, Peltier E, Bibi-Triki S, Friedrich A, Llorente B, Schacherer J. 
  PLoS Genet. 2023 Jan 6;19(1):e1010592. 
  doi: 10.1371/journal.pgen.1010592.

2022

• Loss of heterozygosity spectrum depends on ploidy level in natural yeast populations. 
  Dutta A, Dutreux F, Schacherer J. 
  Mol Biol Evol. 2022 Nov 3;39(11):msac214. 
  doi: 10.1093/molbev/msac214.
• Loss-of-function mutation survey revealed that genes with background-dependent fitness are rare and functionally related in yeast. 
  Caudal E, Friedrich A, Jallet A, Garin M, Hou J, Schacherer J. 
  Proc Natl Acad Sci U S A. 2022 Sep 13;119(37):e2204206119. 
  doi: 10.1073/pnas.2204206119.
• Extensive simulations assess the performance of genome-wide association mapping in various Saccharomyces cerevisiae subpopulations. 
• Peter J, Friedrich A, Liti G, Schacherer J. 
  Philos Trans R Soc Lond B Biol Sci. 2022 Jul 18;377(1855):20200514. 
  doi: 10.1098/rstb.2020.0514.
• RNA Interference (RNAi ) as a tool for high-resolution phenotypic screening of the pathogenic yeast Candida glabrata. 
  Tsouris A, Schacherer J, Ishchuk OP. 
  Methods Mol Biol. 2022 2477:313-330. 
  doi: 10.1007/978-1-0716-2257-5_18.
• Towards accurate, contiguous and complete alignment-based polyploid phasing algorithms. 
  Saada OA, Friedrich A, Schacherer J. 
  Genomics. 2022 May;114(3):110369. 
  doi: 10.1016/j.ygeno.2022.110369.
• Brettanomyces bruxellensis: Overview of the genetic and phenotypic diversity of an anthropized yeast. 
  Harrouard J, Eberlein C, Ballestra P, Dols-Lafargue M, Masneuf-Pomarede I, Miot-Sertier C, Schacherer J, Albertin W. 
  Mol Ecol. 2023 May;32(10):2374-2395. 
  doi: 10.1111/mec.16439.
• Domestication reprogrammed the budding yeast life cycle. 
  De Chiara M, Barré BP, Persson K, Irizar A, Vischioni C, Khaiwal S, Stenberg S, Amadi OC, Žun G, Doberšek K, Taccioli C, Schacherer J, Petrovič U, Warringer J, Liti G. 
  Nat Ecol Evol. 2022 Apr;6(4):448-460. 
  doi: 10.1038/s41559-022-01671-9.
• Phased polyploid genomes provide deeper insight into the multiple origins of domesticated Saccharomyces cerevisiae beer yeasts. 
  Saada OA, Tsouris A, Large C, Friedrich A, Dunham MJ, Schacherer J. 
  Curr Biol. 2022 Mar 28;32(6):1350-1361.e3.
  doi: 10.1016/j.cub.2022.01.068.

2021

• Different trajectories of polyploidization shape the genomic landscape of the Brettanomyces bruxellensis yeast species.
  Eberlein C, Abou Saada O, Friedrich A, Albertin W, Schacherer J. 
  Genome Res. 2021 Dec;31(12):2316-2326. 
  doi: 10.1101/gr.275380.121.
• Sex without crossing over in the yeast Saccharomycodes ludwigii. 
  Papaioannou IA, Dutreux F, Peltier FA, Maekawa H, Delhomme N, Bardhan A, Friedrich A, Schacherer J, Knop M. 
  Genome Biol. 2021 Nov 3;22(1):303. 
  doi: 10.1186/s13059-021-02521-w.
• Flor yeasts rewire the central carbon metabolism during wine alcoholic fermentation. 
  Peltier E, Vion C, Abou Saada O, Friedrich A, Schacherer J, Marullo P. 
  Front Fungal Biol. 2021 Oct 18;2:733513. 
  doi: 10.3389/ffunb.2021.733513.
• Dissection of quantitative trait loci in the Lachancea waltii yeast species highlights major hotspots. 
  Peltier E, Bibi-Triki S, Dutreux F, Caradec C, Friedrich A, Llorente B, Schacherer J. 
  G3 (Bethesda). 2021 Sep 6;11(9):jkab242. 
  doi: 10.1093/g3journal/jkab242.
• Loss of heterozygosity results in rapid but variable genome homogenization across yeast genetic backgrounds. 
  Dutta A, Dutreux F, Schacherer J. 
  Elife. 2021 Jun 23;10:e70339. 
  doi: 10.7554/eLife.70339.
• Species-wide transposable element repertoires retrace the evolutionary history of the Saccharomyces cerevisiae host. 
  Bleykasten-Grosshans C, Fabrizio R, Friedrich A, Schacherer J. 
  Mol Biol Evol. 2021 Sep 27;38(10):4334-4345. 
  doi: 10.1093/molbev/msab171.
• nPhase: an accurate and contiguous phasing method for polyploids. 
  Abou Saada O, Tsouris A, Eberlein C, Friedrich A, Schacherer J. 
  Genome Biol. 2021 Apr 29;22(1):126. 
  doi: 10.1186/s13059-021-02342-x.

2020

• A yeast living ancestor reveals the origin of genomic introgressions. 
  D'Angiolo M, De Chiara M, Yue JX, Irizar A, Stenberg S, Persson K, Llored A, Barré B, Schacherer J, Marangoni R, Gilson E, Warringer J, Liti G. 
  Nature. 2020 Nov;587(7834):420-425. 
  doi: 10.1038/s41586-020-2889-1.
• CRISpy-Pop: A web tool for designing CRISPR/Cas9-driven genetic modifications in diverse populations. 
  Stoneman HR, Wrobel RL, Place M, Graham M, Krause DJ, De Chiara M, Liti G, Schacherer J, Landick R, Gasch AP, Sato TK, Hittinger CT. 
  G3 (Bethesda). 2020 Nov 5;10(11):4287-4294. 
  doi: 10.1534/g3.120.401498.
• Discordant evolution of mitochondrial and nuclear yeast genomes at population level. 
  De Chiara M, Friedrich A, Barré B, Breitenbach M, Schacherer J, Liti G. 
  BMC Biol. 2020 May 11;18(1):49. 
  doi: 10.1186/s12915-020-00786-4.
• Pervasive phenotypic impact of a large nonrecombining introgressed region in yeast. 
  Brion C, Caradec C, Pflieger D, Friedrich A, Schacherer J. 
  Mol Biol Evol. 2020 Sep 1;37(9):2520-2530. 
  doi: 10.1093/molbev/msaa101.
• High complexity and degree of genetic variation in Brettanomyces bruxellensis population. 
  Gounot JS, Neuvéglise C, Freel KC, Devillers H, Piškur J, Friedrich A, Schacherer J. 
  Genome Biol Evol. 2020 Jun 1;12(6):795-807.
  doi: 10.1093/gbe/evaa077.

2019

• Extensive impact of low-frequency variants on the phenotypic landscape at population-scale. 
  Fournier T, Abou Saada O, Hou J, Peter J, Caudal E, Schacherer J. 
  Elife. 2019 Oct 24;8:e49258. 
  doi: 10.7554/eLife.49258.
• The induction of HAD-like phosphatases by multiple signaling pathways confers resistance to the metabolic inhibitor 2-deoxyglucose. 
  Defenouillère Q, Verraes A, Laussel C, Friedrich A, Schacherer J, Léon S. 
  Sci Signal. 2019 Sep 3;12(597):eaaw8000.
  doi: 10.1126/scisignal.aaw8000.
• Reshuffling yeast chromosomes with CRISPR/Cas9. 
  Fleiss A, O'Donnell S, Fournier T, Lu W, Agier N, Delmas S, Schacherer J, Fischer G. 
  PLoS Genet. 2019 Aug 29;15(8):e1008332. 
  doi: 10.1371/journal.pgen.1008332.
• Quantitative trait nucleotides impacting the technological performances of industrial Saccharomyces cerevisiae strains. 
  Peltier E, Friedrich A, Schacherer J, Marullo P. 
  Front Genet. 2019 Jul 23;10:683. 
  doi: 10.3389/fgene.2019.00683.
• André Goffeau's imprinting on second generation yeast "genomologists".
  Fairhead C, Fischer G, Liti G, Neuvéglise C, Schacherer 
  J. Yeast. 2019 Apr;36(4):167-175. 
  doi: 10.1002/yea.3377.

2018

• Incompatibilities in mismatch repair genes MLH1-PMS1 contribute to a wide range of mutation rates in human isolates of baker's yeast. 
  Raghavan V, Bui DT, Al-Sweel N, Friedrich A, Schacherer J, Aquadro CF, Alani E. 
  Genetics. 2018 Dec;210(4):1253-1266. 
  doi: 10.1534/genetics.118.301550.
• Genome evolution across 1,011 Saccharomyces cerevisiae isolates. 
  Peter J, De Chiara M, Friedrich A, Yue JX, Pflieger D, Bergström A, Sigwalt A, Barre B, Freel K, Llored A, Cruaud C, Labadie K, Aury JM, Istace B, Lebrigand K, Barbry P, Engelen S, Lemainque A, Wincker P, Liti G, Schacherer J. 
  Nature. 2018 Apr;556(7701):339-344. 
  doi: 10.1038/s41586-018-0030-5. Epub 2018 Apr 11.
• Brettanomyces bruxellensis population survey reveals a diploid-triploid complex structured according to substrate of isolation and geographical distribution. 
  Avramova M, Cibrario A, Peltier E, Coton M, Coton E, Schacherer J, Spano G, Capozzi V, Blaiotta G, Salin F, Dols-Lafargue M, Grbin P, Curtin C, Albertin W, Masneuf-Pomarede I. 
  Sci Rep. 2018 Mar 7;8(1):4136. 
  doi: 10.1038/s41598-018-22580-7.

2017

• High-quality de novo genome assembly of the Dekkera bruxellensis yeast using Nanopore MinION sequencing. 
  Fournier T, Gounot JS, Freel K, Cruaud C, Lemainque A, Aury JM, Wincker P, Schacherer J, Friedrich A. 
  G3 (Bethesda). 2017 Oct 5;7(10):3243-3250. 
  doi: 10.1534/g3.117.300128.
• Genetic backgrounds and hidden trait complexity in natural populations. 
  Fournier T, Schacherer J. 
  Curr Opin Genet Dev. 2017 Dec;47:48-53. 
  doi: 10.1016/j.gde.2017.08.009.
• Yeast-bacteria competition induced new metabolic traits through large-scale genomic rearrangements in Lachancea kluyveri. 
  Zhou N, Bottagisi S, Katz M, Schacherer J, Friedrich A, Gojkovic Z, Swamy KBS, Knecht W, Compagno C, Piškur J. 
  FEMS Yeast Res. 2017 Sep 1;17(6). 
  doi: 10.1093/femsyr/fox060.
• Identification of a novel interspecific hybrid yeast from a metagenomic spontaneously inoculated beer sample using Hi-C. 
  Smukowski Heil C, Burton JN, Liachko I, Friedrich A, Hanson NA, Morris CL, Schacherer J, Shendure J, Thomas JH, Dunham MJ. 
  Yeast. 2018 Jan;35(1):71-84. 
  doi: 10.1002/yea.3280.
• Variation of the meiotic recombination landscape and properties over a broad evolutionary distance in yeasts. 
  Brion C, Legrand S, Peter J, Caradec C, Pflieger D, Hou J, Friedrich A, Llorente B, Schacherer J. 
  PLoS Genet. 2017 Aug 1;13(8):e1006917. 
  doi: 10.1371/journal.pgen.1006917.
• Phenotypic diagnosis of lineage and differentiation during sake yeast breeding. 
  Ohnuki S, Okada H, Friedrich A, Kanno Y, Goshima T, Hasuda H, Inahashi M, Okazaki N, Tamura H, Nakamura R, Hirata D, Fukuda H, Shimoi H, Kitamoto K, Watanabe D, Schacherer J, Akao T, Ohya Y. 
  G3 (Bethesda). 2017 Aug 7;7(8):2807-2820. 
  doi: 10.1534/g3.117.044099.
• de novo assembly and population genomic survey of natural yeast isolates with the Oxford Nanopore MinION sequencer. 
  Istace B, Friedrich A, d'Agata L, Faye S, Payen E, Beluche O, Caradec C, Davidas S, Cruaud C, Liti G, Lemainque A, Engelen S, Wincker P, Schacherer J, Aury JM. 
  Gigascience. 2017 Feb 1;6(2):1-13. 
  doi: 10.1093/gigascience/giw018.
• Mismatch repair incompatibilities in diverse yeast populations. 
  Bui DT, Friedrich A, Al-Sweel N, Liti G, Schacherer J, Aquadro CF, Alani E. 
  Genetics. 2017 Apr;205(4):1459-1471. 
  doi: 10.1534/genetics.116.199513. Epub 2017 Feb 13.
• Fitness trade-offs lead to suppressor tolerance in yeast. 
  Hou J, Schacherer J. 
  Mol Biol Evol. 2017 Jan;34(1):110-118. 
  doi: 10.1093/molbev/msw225.

2016

• The hidden complexity of Mendelian traits across natural yeast populations. 
  Hou J, Sigwalt A, Fournier T, Pflieger D, Peter J, de Montigny J, Dunham MJ, Schacherer J. 
  Cell Rep. 2016 Jul 26;16(4):1106-1114. 
  doi: 10.1016/j.celrep.2016.06.048.
• Dissection of quantitative traits by bulk segregant mapping in a protoploid yeast species.
   Sigwalt A, Caradec C, Brion C, Hou J, de Montigny J, Jung P, Fischer G, Llorente B, Friedrich A, Schacherer J. 
  FEMS Yeast Res. 2016 Aug;16(5):fow056. 
  doi: 10.1093/femsyr/fow056.
• Beyond the simplicity of Mendelian inheritance. Schacherer J. 
  C R Biol. 2016 Jul-Aug;339(7-8):284-8. 
  doi: 10.1016/j.crvi.2016.04.006.
• Species-wide survey reveals the various flavors of intraspecific reproductive isolation in yeast. 
  Hou J, Fournier T, Schacherer J. FEMS Yeast Res. 2016 Aug;16(5):fow048. doi: 10.1093/femsyr/fow048.
• Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus. 
  Vakirlis N, Sarilar V, Drillon G, Fleiss A, Agier N, Meyniel JP, Blanpain L, Carbone A, Devillers H, Dubois K, Gillet-Markowska A, Graziani S, Huu-Vang N, Poirel M, Reisser C, Schott J, Schacherer J, Lafontaine I, Llorente B, Neuvéglise C, Fischer G. 
  Genome Res. 2016 Jul;26(7):918-32. 
  doi: 10.1101/gr.204420.116.
• Differences in environmental stress response among yeasts is consistent with species-specific lifestyles. 
  Brion C, Pflieger D, Souali-Crespo S, Friedrich A, Schacherer J. 
  Mol Biol Cell. 2016 May 15;27(10):1694-705. 
  doi: 10.1091/mbc.E15-12-0816.
• Large-scale survey of intraspecific fitness and cell morphology variation in a protoploid yeast species. 
  Jung PP, Sigwalt A, Ohnuki S, de Montigny J, Ohya Y, Schacherer J. 
  G3 (Bethesda). 2016 Apr 7;6(4):1063-71. 
  doi: 10.1534/g3.115.026682.
• Whole-genome sequencing and intraspecific analysis of the yeast species Lachancea quebecensis. 
  Freel KC, Friedrich A, Sarilar V, Devillers H, Neuvéglise C, Schacherer J. 
  Genome Biol Evol. 2016 Jan 5;8(3):733-41. 
  doi: 10.1093/gbe/evv262.
• Population genomics of yeasts: towards a comprehensive view across a broad evolutionary scale. 
  Peter J, Schacherer J. 
  Yeast. 2016 Mar;33(3):73-81. 
  doi: 10.1002/yea.3142. Epub 2016 Jan 19. PMID: 26592376.
• On the mapping of epistatic genetic interactions in natural isolates: combining classical genetics and genomics. 
  Hou J, Schacherer J. 
  Methods Mol Biol. 2016 1361:345-60. 
  doi: 10.1007/978-1-4939-3079-1_19.
• Negative epistasis: a route to intraspecific reproductive isolation in yeast? 
  Hou J, Schacherer J. 
  Curr Genet. 2016 Feb;62(1):25-9. 
  doi: 10.1007/s00294-015-0505-y.