Industrial Relevance of Chromosomal Copy Number Variation in Saccharomyces Yeasts

Vries, Arthur R. Gorter de; Pronk, Jack T.; Daran, Jean‐Marc

doi:10.1128/aem.03206-16

Cited by 51 publications

(64 citation statements)

References 171 publications

(247 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Chr III has been repeatedly found to be both completely and partially aneuploid in S. cerevisiae populations adapted to high levels of ethanol (Morard et al, 2019;Voordeckers et al, 2015). Industrial Saccharomyces strains, especially those used for brewing and distilling, frequently experience aneuploidisation, likely for the same reason-the toxicity of high alcohol concentrations in the fermentation vessel (Gorter de Vries, Pronk, & Daran, 2017). Aneuploidy also confers stress tolerance in the spoilage yeast Zygosaccharomyces rouxii, perhaps allowing them to thrive in high salt and sugar environments (Solieri, Dakal, & Bicciato, 2014).…”

Section: Toxic Stressmentioning

confidence: 99%

Aneuploidy in yeast: Segregation error or adaptation mechanism?

Gilchrist

Stelkens

2019

Yeast

104

View full text Add to dashboard Cite

Aneuploidy is the loss or gain of chromosomes within a genome. It is often detrimental and has been associated with cell death and genetic disorders. However, aneuploidy can also be beneficial and provide a quick solution through changes in gene dosage when cells face environmental stress. Here, we review the prevalence of aneuploidy in Saccharomyces, Candida, and Cryptococcus yeasts (and their hybrid offspring) and analyse associations with chromosome size and specific stressors. We discuss how aneuploidy, a segregation error, may in fact provide a natural route for the diversification of microbes and enable important evolutionary innovations given the right ecological circumstances, such as the colonisation of new environments or the transition from commensal to pathogenic lifestyle. We also draw attention to a largely unstudied cross link between hybridisation and aneuploidy. Hybrid meiosis, involving two divergent genomes, can lead to drastically increased rates of aneuploidy in the offspring due to antirecombination and chromosomal missegregation. Because hybridisation and aneuploidy have both been shown to increase with environmental stress, we believe it important and timely to start exploring the evolutionary significance of their co‐occurrence.

show abstract

Section: Toxic Stressmentioning

confidence: 99%

Aneuploidy in yeast: Segregation error or adaptation mechanism?

Gilchrist

Stelkens

2019

Yeast

104

View full text Add to dashboard Cite

show abstract

“…CS defects such as those observed in our CIC KO lines, including the presence of micronuclei and lagging chromosomes, have been linked to copy number alterations in daughter cells [30][31][32] . To determine whether evidence of copy number defects could be observed in CICdeficient cells, we performed single-cell genome sequencing (DLP+ 33 ) on DNA libraries from the parental CIC WT NHA line and NHA-derived CIC KO lines (A2 and H9 described above, and additional lines B6 and H10).…”

Section: Loss Of Cic In Nha Cells Is Associated With Copy Number Altementioning

confidence: 72%

Multi-omic analysis of CIC’s functional networks reveals novel interaction partners and a potential role in mitotic fidelity

Chittaranjan

Song

Chan

et al. 2019

Preprint

View full text Add to dashboard Cite

Background: CIC is a transcriptional repressor inactivated by loss-of-function mutations in several cancer types, including gliomas, lung cancers, and gastric adenocarcinomas. CIC alterations and/or loss of CIC activity have been associated with poorer outcomes and more aggressive phenotypes across cancer types, which is consistent with the notion that CIC functions as a tumour suppressor across a wide range of contexts.Results: Using mammalian cells lacking functional CIC, we found that CIC deficiency was associated with chromosome segregation (CS) defects, resulting in chromosomal instability and aneuploidy. These CS defects were associated with transcriptional dysregulation of spindle assembly checkpoint and cell cycle regulators. We also identified novel CIC interacting proteins, including core members of the SWI/SNF complex, and showed that they cooperatively regulated the expression of genes involved in cell cycle regulation. Finally, we showed that loss of CIC and ARID1A cooperatively increased CS defects and reduced cell viability. Conclusions:Our study ascribes a novel role to CIC as an important regulator of the cell cycle and demonstrates that loss of CIC can lead to chromosomal instability and aneuploidy in human and murine cells through defects in CS, providing insight into the underlying mechanisms of CIC's increasingly apparent role as a "pan-cancer" tumour suppressor.

show abstract

“…The industrially relevant traits acquired during evolutionary engineering frequently involve the chromosomal copy number variation in S. cerevisiae, a recently reviewed topic (Gorter de Vries, Pronk, & Daran, 2017). For D-xylose utilization, a high number of copies of XylA genes was present in evolved strains and showed a positive impact on xylose utilization (Demeke et al, 2015;Zhou et al, 2012), whereas no such phenomenon has been previously reported in L-arabinose-fermenting S. cerevisiae.…”

Section: Discussionmentioning

confidence: 99%

Unraveling the genetic basis of fast l‐arabinose consumption on top of recombinant xylose‐fermenting Saccharomyces cerevisiae

Wang

Yang

et al. 2018

Biotech & Bioengineering

View full text Add to dashboard Cite

One major challenge in the bioconversion of lignocelluloses into ethanol is to develop Saccharomyces cerevisiae strains that can utilize all available sugars in biomass hydrolysates, especially the d-xylose and l-arabinose that cannot be fermented by the S. cerevisiae strain naturally. Here, we integrated an l-arabinose utilization cassette (AUC) into the genome of an efficient d-xylose fermenting industrial diploid S. cerevisiae strain CIBTS0735 to make strain CIBTS1972. After evolving on arabinose, CIBTS1974 with excellent fermentation capacity was obtained. A comparison between genome sequences of strains CIBTS1974 and CIBTS1972 revealed that the copy number of the AUC had increased from 1 to 12. We then constructed the AUC null-mutant CIBTS1975 and gradually rescued the l-arabinose utilization defect by integrating AUC iteratively. On the other hand, the parental strain CIBTS0735 was able to acquire the same performance as CIBTS1974 by the direct introduction of 12 copies of the AUC; the performance was further improved by adding two more copies. Besides, we found that not the two transporters present in the AUC were both needed during l-arabinose utilization, GAL2 was necessary and STP2 was not essential. We have described for the first time that a high copy number of AUC is sufficient for the strain to metabolize l-arabinose efficiently independent of evolution.

show abstract

Industrial Relevance of Chromosomal Copy Number Variation in Saccharomyces Yeasts

Cited by 51 publications

References 171 publications

Aneuploidy in yeast: Segregation error or adaptation mechanism?

Aneuploidy in yeast: Segregation error or adaptation mechanism?

Multi-omic analysis of CIC’s functional networks reveals novel interaction partners and a potential role in mitotic fidelity

Unraveling the genetic basis of fast l‐arabinose consumption on top of recombinant xylose‐fermenting Saccharomyces cerevisiae

Contact Info

Product

Resources

About