Identification of a novel interspecific hybrid yeast from a metagenomic spontaneously inoculated beer sample using Hi-C

Primary souring: A novel bacteria-free method for sour beer production

(2018) Kara Osburn et al.   FOOD MICROBIOLOGY

Improved cider fermentation performance and quality with newly generated Saccharomyces cerevisiae × Saccharomyces eubayanus hybrids

(2017) Frederico Magalhães et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay

(2017) Martial Marbouty et al.   Science Advances

Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts

(2016) Brigida Gallone et al.   CELL

Hybridization and hybrid speciation under global change

(2016) Mario Vallejo-Marín et al.   NEW PHYTOLOGIST

Social wasps are aSaccharomycesmating nest

(2016) Irene Stefanini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative genomics of biotechnologically important yeasts

(2016) Robert Riley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Yeasts found in vineyards and wineries

(2016) Cristian Varela et al.   YEAST

Microbial Terroir in Chilean Valleys: Diversity of Non-conventional Yeast

(2016) Carla Jara et al.   Frontiers in Microbiology

Dynamic changes in microbiota and mycobiota during spontaneous ‘Vino Santo Trentino’ fermentation

(2016) Irene Stefanini et al.   Microbial Biotechnology

Designing and creating Saccharomyces interspecific hybrids for improved, industry relevant, phenotypes

(2015) Jennifer R. Bellon et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Comparative genome analysis of Pediococcus damnosus LMG 28219, a strain well-adapted to the beer environment

(2015) Isabel Snauwaert et al.   BMC GENOMICS

Microbiota and metabolites of aged bottled gueuze beers converge to the same composition

(2015) Freek Spitaels et al.   FOOD MICROBIOLOGY

The 100-genomes strains, anS. cerevisiaeresource that illuminates its natural phenotypic and genotypic variation and emergence as an opportunistic pathogen

(2015) Pooja K. Strope et al.   GENOME RESEARCH

Brettanomyces yeasts — From spoilage organisms to valuable contributors to industrial fermentations

(2015) Jan Steensels et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

The Genome Sequence ofSaccharomyces eubayanusand the Domestication of Lager-Brewing Yeasts

(2015) EmilyClare Baker et al.   MOLECULAR BIOLOGY AND EVOLUTION

Regional microbial signatures positively correlate with differential wine phenotypes: evidence for a microbial aspect to terroir

(2015) Sarah Knight et al.   Scientific Reports

Origin of the Yeast Whole-Genome Duplication

(2015) Kenneth H. Wolfe   PLOS BIOLOGY

Effects of sequential mixed cultures ofWickerhamomyces anomalusandSaccharomyces cerevisiaeon apple cider fermentation

(2014) Mengqi Ye et al.   FEMS YEAST RESEARCH

Genome Comparison of Candida orthopsilosis Clinical Strains Reveals the Existence of Hybrids between Two Distinct Subspecies

(2014) Leszek P. Pryszcz et al.   Genome Biology and Evolution

Selection and characterization of a PatagonianPichia kudriavzeviifor wine deacidification

(2014) S.M. del Mónaco et al.   JOURNAL OF APPLIED MICROBIOLOGY

The Microbial Diversity of Traditional Spontaneously Fermented Lambic Beer

(2014) Freek Spitaels et al.   PLoS One

Tackling soil diversity with the assembly of large, complex metagenomes

(2014) Adina Chuang Howe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Invasive hybridization in a threatened species is accelerated by climate change

(2014) Clint C. Muhlfeld et al.   Nature Climate Change

Species-Level Deconvolution of Metagenome Assemblies with Hi-C–Based Contact Probability Maps

(2014) Joshua N. Burton et al.   G3-Genes Genomes Genetics

Insights into the Dekkera bruxellensis Genomic Landscape: Comparative Genomics Reveals Variations in Ploidy and Nutrient Utilisation Potential amongst Wine Isolates

(2014) Anthony R. Borneman et al.   PLoS Genetics

Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms

(2014) Martial Marbouty et al.   eLife

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

(2014) Christopher W. Beitel et al.   PeerJ

Gluconobacter cerevisiae sp. nov., isolated from the brewery environment

(2013) F. Spitaels et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Acetobacter lambici sp. nov., isolated from fermenting lambic beer

(2013) F. Spitaels et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges

(2013) Janine Kamke et al.   ISME Journal

Hybridization and speciation

(2013) R. Abbott et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

High-throughput genome scaffolding from in vivo DNA interaction frequency

(2013) Noam Kaplan et al.   NATURE BIOTECHNOLOGY

Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions

(2013) Joshua N Burton et al.   NATURE BIOTECHNOLOGY

Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

(2013) Job Dekker et al.   NATURE REVIEWS GENETICS

Reconstructing the Genomic Content of Microbiome Taxa through Shotgun Metagenomic Deconvolution

(2013) Rogan Carr et al.   PLoS Computational Biology

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

(2013) Laura A Hug et al.   Microbiome

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Single cell genomics: an individual look at microbes

(2012) Ramunas Stepanauskas   CURRENT OPINION IN MICROBIOLOGY

Genome Sequence of Pichia kudriavzevii M12, a Potential Producer of Bioethanol and Phytase

(2012) Giek Far Chan et al.   EUKARYOTIC CELL

The genome of wine yeast Dekkera bruxellensis provides a tool to explore its food-related properties

(2012) Jure Piškur et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Brewhouse-Resident Microbiota Are Responsible for Multi-Stage Fermentation of American Coolship Ale

(2012) Nicholas A. Bokulich et al.   PLoS One

Polyploidy in fungi: evolution after whole-genome duplication

(2012) W. Albertin et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota

(2012) V. Iverson et al.   SCIENCE

Identification of yeasts during alcoholic fermentation of tchapalo, a traditional sorghum beer from Côte d’Ivoire

(2011) Kouadio Florent N’guessan et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Climate change and evolutionary adaptation

(2011) Ary A. Hoffmann et al.   NATURE

Unsupervised discovery of microbial population structure within metagenomes using nucleotide base composition

(2011) Isaam Saeed et al.   NUCLEIC ACIDS RESEARCH

Parallel evolution of the make–accumulate–consume strategy in Saccharomyces and Dekkera yeasts

(2011) Elżbieta Rozpędowska et al.   Nature Communications

Phylogeny of the ascomycetous yeasts and the renaming of Pichia anomala to Wickerhamomyces anomalus

(2010) Cletus P. Kurtzman   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Adaptation of yeasts Saccharomyces cerevisiae and Brettanomyces bruxellensis to winemaking conditions: a comparative study of stress genes expression

(2010) Tiziana Nardi et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Microbial phylogeny and diversity: Small subunit ribosomal RNA sequence analysis and beyond

(2010) J. Rajendhran et al.   MICROBIOLOGICAL RESEARCH

The Arctic melting pot

(2010) Brendan P. Kelly et al.   NATURE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Genome Sequence of the Lager Brewing Yeast, an Interspecies Hybrid

(2009) Y. Nakao et al.   DNA RESEARCH

Complex Nature of the Genome in a Wine Spoilage Yeast,Dekkera bruxellensis

(2009) Linda Hellborg et al.   EUKARYOTIC CELL

Yeast diversity of Ghanaian cocoa bean heap fermentations

(2009) Heide-Marie Daniel et al.   FEMS YEAST RESEARCH

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

Molecular Characterization of New Natural Hybrids of Saccharomyces cerevisiae and S. kudriavzevii in Brewing

(2008) S. S. Gonzalez et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic relationships among species ofPichia, IssatchenkiaandWilliopsisdetermined from multigene sequence analysis, and the proposal ofBarnettozymagen. nov.,Lindneragen. nov. andWickerhamomycesgen. nov.

(2008) Cletus P. Kurtzman et al.   FEMS YEAST RESEARCH

Rational selection of non-Saccharomyces wine yeasts for mixed starters based on ester formation and enological traits

(2008) F VIANA et al.   FOOD MICROBIOLOGY

Reconstruction of the genome origins and evolution of the hybrid lager yeast Saccharomyces pastorianus

(2008) B. Dunn et al.   GENOME RESEARCH