scholarly journals Genome structure reveals the diversity of mating mechanisms in Saccharomyces cerevisiae x Saccharomyces kudriavzevii hybrids, and the genomic instability that promotes phenotypic diversity

2020 ◽  
Vol 6 (3) ◽  
Author(s):  
Miguel Morard ◽  
Yaiza Benavent-Gil ◽  
Guadalupe Ortiz-Tovar ◽  
Laura Pérez-Través ◽  
Amparo Querol ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Genomic Instability ◽  
Phenotypic Diversity ◽  
Genome Structure ◽  
Saccharomyces Kudriavzevii

Isolation, screening, identification and tolerance of yeast in cherry wine lees

2020 ◽  
Vol 16 (9) ◽  
Author(s):  
Cheng Xu ◽  
Hui Xia ◽  
Shuwen Zhang ◽  
Yuping Zhao ◽  
Zhiqiang Qi ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Potassium Chloride ◽  
Rose Bengal ◽  
Morphological Observation ◽  
Good Tolerance ◽  
Saccharomyces Paradoxus ◽  
Subsequent Application ◽  
Biological Identification ◽  
Tolerance Study ◽  
Saccharomyces Kudriavzevii

AbstractIn this study, yeast was isolated from cherry wine lees by rose Bengal medium, and its species was identified through three-stage screening, morphological observation and molecular biological identification. Moreover, the tolerance of screened strains was studied. The results showed that 30 strains of yeast were isolated from cherry wine lees, and five strains of yeast were selected, which were named YJN10, YJN16, YJN18, YJN19 and YJN28. After preliminary appraisal, strain YJN10 was Saccharomyces kudriavzevii, strain YJN16 was Saccharomyces paradoxus, and strains YJN18, YJN19, YJN28 were Saccharomyces cerevisiae. In the tolerance study, the tolerable sugar concentrations of the five strains were 650, 650, 550, 600 and 600 g/L. The tolerable alcohol volume fractions were 20, 20, 16, 18 and 18%. The tolerable molar concentration of potassium chloride was 1.8, 1.8, 1.5, 1.5 and 1.5 mol/L. Finally, strains YJN10, YJN16, YJN19 and YJN28 showed good tolerance, which laid a foundation for subsequent application in cherry wine fermentation.

scholarly journals Pathway swapping: Toward modular engineering of essential cellular processes

2016 ◽  
Vol 113 (52) ◽  
pp. 15060-15065 ◽  
Author(s):  
Niels G. A. Kuijpers ◽  
Daniel Solis-Escalante ◽  
Marijke A. H. Luttik ◽  
Markus M. M. Bisschops ◽  
Francine J. Boonekamp ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Metabolic Pathways ◽  
Applied Research ◽  
Central Metabolism ◽  
Microbial Genomes ◽  
Cellular Processes ◽  
Recent Developments ◽  
One Step ◽  
Saccharomyces Kudriavzevii

Recent developments in synthetic biology enable one-step implementation of entire metabolic pathways in industrial microorganisms. A similarly radical remodelling of central metabolism could greatly accelerate fundamental and applied research, but is impeded by the mosaic organization of microbial genomes. To eliminate this limitation, we propose and explore the concept of “pathway swapping,” using yeast glycolysis as the experimental model. Construction of a “single-locus glycolysis” Saccharomyces cerevisiae platform enabled quick and easy replacement of this yeast’s entire complement of 26 glycolytic isoenzymes by any alternative, functional glycolytic pathway configuration. The potential of this approach was demonstrated by the construction and characterization of S. cerevisiae strains whose growth depended on two nonnative glycolytic pathways: a complete glycolysis from the related yeast Saccharomyces kudriavzevii and a mosaic glycolysis consisting of yeast and human enzymes. This work demonstrates the feasibility and potential of modular, combinatorial approaches to engineering and analysis of core cellular processes.

scholarly journals Isolation and analysis of rereplicated DNA by Rerep-Seq

2020 ◽  
Vol 48 (10) ◽  
pp. e58-e58 ◽  
Author(s):  
Johannes Menzel ◽  
Philip Tatman ◽  
Joshua C Black
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Genomic Instability ◽  
Copy Number ◽  
Gene Copy Number ◽  
Gene Copy ◽  
Adaptive Potential ◽  
Developmental Abnormalities ◽  
Origin Licensing ◽  
Multiple Replication ◽  
Dna Rereplication

Abstract Changes in gene copy number contribute to genomic instability, the onset and progression of cancer, developmental abnormalities and adaptive potential. The origins of gene amplifications have remained elusive; however, DNA rereplication has been implicated as a source of gene amplifications. The inability to determine which sequences are rereplicated and under what conditions have made it difficult to determine the validity of the proposed models. Here we present Rerep-Seq, a technique that selectively enriches for rereplicated DNA in preparation for analysis by DNA sequencing that can be applied to any species. We validated Rerep-Seq by simulating DNA rereplication in yeast and human cells. Using Rerep-Seq, we demonstrate that rereplication induced in Saccharomyces cerevisiae by deregulated origin licensing is non-random and defined by broad domains that span multiple replication origins and topological boundaries.

scholarly journals Punctuated Aneuploidization of the Budding Yeast Genome

Genetics ◽  
2020 ◽  
Vol 216 (1) ◽  
pp. 43-50 ◽  
Author(s):  
Lydia R. Heasley ◽  
Ruth A. Watson ◽  
Juan Lucas Argueso
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Tumor Cells ◽  
Genomic Instability ◽  
High Frequency ◽  
Budding Yeast ◽  
Cell Types ◽  
Eukaryotic Cell ◽  
Yeast Genome ◽  
Single Chromosome ◽  
Brewing Yeasts

Remarkably complex patterns of aneuploidy have been observed in the genomes of many eukaryotic cell types, ranging from brewing yeasts to tumor cells. Such aberrant karyotypes are generally thought to take shape progressively over many generations, but evidence also suggests that genomes may undergo faster modes of evolution. Here, we used diploid Saccharomyces cerevisiae cells to investigate the dynamics with which aneuploidies arise. We found that cells selected for the loss of a single chromosome often acquired additional unselected aneuploidies concomitantly. The degrees to which these genomes were altered fell along a spectrum, ranging from simple events affecting just a single chromosome, to systemic events involving many. The striking complexity of karyotypes arising from systemic events, combined with the high frequency at which we detected them, demonstrates that cells can rapidly achieve highly altered genomic configurations during temporally restricted episodes of genomic instability.

Suppression of genomic instability by SLX5 and SLX8 in Saccharomyces cerevisiae

DNA Repair ◽  
2006 ◽  
Vol 5 (3) ◽  
pp. 336-346 ◽  
Author(s):  
Chaoying Zhang ◽  
Tania M. Roberts ◽  
Jay Yang ◽  
Ridhdhi Desai ◽  
Grant W. Brown
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Genomic Instability

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

2008 ◽  
Vol 74 (8) ◽  
pp. 2314-2320 ◽  
Author(s):  
Sara S. González ◽  
Eladio Barrio ◽  
Amparo Querol
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Fragment Length Polymorphism ◽  
Polymorphism Analysis ◽  
Natural Hybrids ◽  
New Type ◽  
Saccharomyces Kudriavzevii ◽  
Different Origins ◽  
First Time ◽  
Restriction Fragment Length

ABSTRACT We analyzed 24 beer strains from different origins by using PCR-restriction fragment length polymorphism analysis of different gene regions, and six new Saccharomyces cerevisiae × Saccharomyces kudriavzevii hybrid strains were found. This is the first time that the presence in brewing of this new type of hybrid has been demonstrated. From the comparative molecular analysis of these natural hybrids with respect to those described in wines, it can be concluded that these originated from at least two hybridization events and that some brewing hybrids share a common origin with wine hybrids. Finally, a reduction of the S. kudriavzevii fraction of the hybrid genomes was observed, but this reduction was found to vary among hybrids regardless of the source of isolation. The fact that 25% of the strains analyzed were discovered to be S. cerevisiae × S. kudriavzevii hybrids suggests that an important fraction of brewing strains classified as S. cerevisiae may correspond to hybrids, contributing to the complexity of Saccharomyces diversity in brewing environments. The present study raises new questions about the prevalence of these new hybrids in brewing as well as their contribution to the properties of the final product.

scholarly journals Genomic characterization of a pathogenic isolate of Saccharomyces cerevisiae reveals an extensive and dynamic landscape of structural variation

2021 ◽  
Author(s):  
Lydia R. Heasley ◽  
Juan Lucas Argueso
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Structural Variation ◽  
Genome Structure ◽  
Genomic Variation ◽  
Whole Genome Sequencing Data ◽  
Structural Genomic ◽  
Pathogenic Isolate ◽  
A Genome ◽  
Long Read

The budding yeast Saccharomyces cerevisiae has been extensively characterized for many decades and is a critical resource for the study of numerous facets of eukaryotic biology. Recently, the analysis of whole genome sequencing data from over 1000 natural isolates of S. cerevisiae has provided critical insights into the evolutionary landscape of this species by revealing a population structure comprised of numerous genomically diverse lineages. These survey-level analyses have been largely devoid of structural genomic information, mainly because short read sequencing is not suitable for detailed characterization of genomic architecture. Consequently, we still lack a complete perspective of the genomic variation the exists within the species. Single molecule long read sequencing technologies, such as Oxford Nanopore and PacBio, provide sequencing-based approaches with which to rigorously define the structure of a genome, and have empowered yeast geneticists to explore this poorly described realm of eukaryotic genomics. Here, we present the comprehensive genomic structural analysis of a pathogenic isolate of S. cerevisiae, YJM311. We used long read sequence analysis to construct a haplotype-phased, telomere-to-telomere length assembly of the YJM311 diploid genome and characterized the structural variations (SVs) therein. We discovered that the genome of YJM311 contains significant intragenomic structural variation, some of which imparts notable consequences to the genomic stability and developmental biology of the strain. Collectively, we outline a new methodology for creating accurate haplotype-phased genome assemblies and highlight how such genomic analyses can define the structural architectures of S. cerevisiae isolates. It is our hope that through continued structural characterization of S. cerevisiae genomes, such as we have reported here for YJM311, we will comprehensively advance our understanding of eukaryotic genome structure-function relationships, structural diversity, and evolution.

scholarly journals Transcriptomic analysis of Saccharomyces cerevisiae x Saccharomyces kudriavzevii hybrids during low temperature winemaking

F1000Research ◽  
2017 ◽  
Vol 6 ◽  
pp. 679 ◽  
Author(s):  
Jordi Tronchoni ◽  
Estéfani García-Ríos ◽  
Jose Manuel Guillamón ◽  
Amparo Querol ◽  
Roberto Pérez-Torrado
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Low Temperature ◽  
Differential Expression ◽  
Low Temperatures ◽  
Cold Adaptation ◽  
Interspecific Hybrids ◽  
Parental Species ◽  
Key Genes ◽  
Saccharomyces Kudriavzevii ◽  
Isolated Species

Background: Although Saccharomyces cerevisiae is the most frequently isolated species in wine fermentation, and the most studied species, other species and interspecific hybrids have greatly attracted the interest of researchers in this field in the last few years, given their potential to solve new winemaking industry challenges. S. cerevisiae x S. kudriavzevii hybrids exhibit good fermentative capabilities at low temperatures, and produce wines with smaller alcohol quantities and larger glycerol quantities, which can be very useful to solve challenges in the winemaking industry such as the necessity to enhance the aroma profile. Methods: In this study, we performed a transcriptomic study of S. cerevisiae x S. kudriavzevii hybrids in low temperature winemaking conditions. Results: The results revealed that the hybrids have acquired both fermentative abilities and cold adaptation abilities, attributed to S. cerevisiae and S. kudriavzevii parental species, respectively, showcasing their industrially relevant characteristics. For several key genes, we also studied the contribution to gene expression of each of the alleles of S. cerevisiae and S. kudriavzevii in the S. cerevisiae x S. kudriavzevii hybrids. From the results, it is not clear how important the differential expression of the specific parental alleles is to the phenotype of the hybrids. Conclusions: This study shows that the fermentative abilities of S. cerevisiae x S. kudriavzevii hybrids at low temperatures do not seem to result from differential expression of specific parental alleles of the key genes involved in this phentoype.

Sign in / Sign up

Export Citation Format

Share Document