History of genome editing in yeast

Fraczek, Marcin G.; Naseeb, Samina; Delneri, Daniela

doi:10.1002/yea.3308

Cited by 47 publications

(34 citation statements)

References 98 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…2). Around the same time, researchers started to use phenotypic screens and genomic manipulation to paint a picture of cellular replication and the normal state of the cell, mainly in yeast as a model organism (Fraczek, Naseeb, & Delneri, 2018;Strynatka, Gurrola-Gal, Berman, & McMaster, 2018). The combination of these approaches in the late 1980s resulted in the birth of chemical genetics and led to many powerful developments such as directed evolution of enzymes, phage display of peptides and antibodies, and further refinement of target-based HTS (e.g.…”

Section: Evolution Of Screening Technologies For Drug Discoverymentioning

confidence: 99%

Emerging drug development technologies targeting ubiquitination for cancer therapeutics

Veggiani

Gerpe

Sidhu

et al. 2019

Pharmacology & Therapeutics

View full text Add to dashboard Cite

a b s t r a c t a r t i c l e i n f o Development of effective cancer therapeutic strategies relies on our ability to interfere with cellular processes that are dysregulated in tumors. Given the essential role of the ubiquitin proteasome system (UPS) in regulating a myriad of cellular processes, it is not surprising that malfunction of UPS components is implicated in numerous human diseases, including many types of cancer. The clinical success of proteasome inhibitors in treating multiple myeloma has further stimulated enthusiasm for targeting UPS proteins for pharmacological intervention in cancer treatment, particularly in the precision medicine era. Unfortunately, despite tremendous efforts, the paucity of potent and selective UPS inhibitors has severely hampered attempts to exploit the UPS for therapeutic benefits. To tackle this problem, many groups have been working on technology advancement to rapidly and effectively screen for potent and specific UPS modulators as intracellular probes or early-phase therapeutic agents. Here, we review several emerging technologies for developing chemical-and protein-based molecules to manipulate UPS enzymatic activity, with the aim of providing an overview of strategies available to target ubiquitination for cancer therapy.

show abstract

Section: Evolution Of Screening Technologies For Drug Discoverymentioning

confidence: 99%

Emerging drug development technologies targeting ubiquitination for cancer therapeutics

Veggiani

Gerpe

Sidhu

et al. 2019

Pharmacology & Therapeutics

View full text Add to dashboard Cite

show abstract

“…Of particular relevance is the development of optimized CRISPR-Cas9 methods to engineer diploid and polyploid industrial yeast strains (Stovicek, Borja, Forster, & Borodina, 2015;Zhang et al, 2014). The history and various applications of genome editing have been discussed in-depth in the following reviews by Fraczek, Naseeb, and Delneri (2018) and Stovicek, Holkenbrink, and Borodina (2017).…”

Section: Crispr For Rapid Multiplex Engineering Of Cell Factoriesmentioning

confidence: 99%

The renaissance of yeasts as microbial factories in the modern age of biomanufacturing

Payen

Thompson

2019

Yeast

View full text Add to dashboard Cite

Yeasts are essential for many processes, including the production of some of our most beloved foods and beverages. Less is known to the public about the far‐reaching impacts of yeasts on other products such as biofuels, pharmaceuticals, and industrial products. By leveraging and combining newly discovered yeast genetic diversity with now affordable and efficient genetic engineering and synthetic biology tools, academic and industrial yeast labs have designed yeast cell factories for a wide range of novel applications such as the production of medicines, components of human breast milk, heme for meat substitutes, bioplastics, and other biomaterials. This review covers the newest technologies developed for yeast research including synthetic biology and their use in the engineering of yeast cell factories for emerging applications.

show abstract

“…Microbe-derived functions are, however, not always linked to changes in entire community profiles but are determined by individual keystone species ( 29 ), such as Plasmodium falciparum as the causal agent of malaria ( 30 ) and specific fungal pathogens that can diminish crop yields ( 31 ). Also, in human-used fermentation systems, individual keystone microbes determine functions and applications, such as Saccharomyces for the production of beer ( 32 ), wine ( 33 ), and bread ( 34 ) and Lactobacillus spp. in milk fermentation ( 35 ).…”

Section: Introductionmentioning

confidence: 99%

Temperature-Induced Annual Variation in Microbial Community Changes and Resulting Metabolome Shifts in a Controlled Fermentation System

et al. 2020

View full text Add to dashboard Cite

We are rapidly increasing our understanding on the spatial distribution of microbial communities. However, microbial functioning, as well as temporal differences and mechanisms causing microbial community shifts, remains comparably little explored. Here, using Chinese liquor fermentation as a model system containing a low microbial diversity, we studied temporal changes in microbial community structure and functioning. For that, we used high-throughput sequencing to analyze the composition of bacteria and fungi and analyzed the microbially derived metabolome throughout the fermentation process in all four seasons in both 2018 and 2019. We show that microbial communities and the metabolome changed throughout the fermentation process in each of the four seasons, with metabolome diversity increasing throughout the fermentation process. Across seasons, bacterial and fungal communities as well as the metabolome driven by 10 indicator microorganisms and six metabolites varied even more. Daily average temperature in the external surroundings was the primary determinant of the observed temporal microbial community and metabolome changes. Collectively, our work reveals critical insights into patterns and processes determining temporal changes of microbial community composition and functioning. We highlight the importance of linking taxonomic to functional changes in microbial ecology to enable predictions of human-relevant applications. IMPORTANCE We used Chinese liquor fermentation as a model system to show that microbiome composition changes more dramatically across seasons than throughout the fermentation process within seasons. These changes translate to differences in the metabolome as the ultimate functional outcome of microbial activity, suggesting that temporal changes in microbiome composition are translating into functional changes. This result is striking as it suggests that microbial functioning, despite controlled conditions in the fermentors, fluctuates over season along with external temperature differences, which threatens a reproducible food taste. As such, we believe that our study provides a stepping-stone into novel taxonomy-functional studies that promote future work in other systems and that also is relevant in applied settings to better control surrounding conditions in food production.

show abstract

History of genome editing in yeast

Cited by 47 publications

References 98 publications

Emerging drug development technologies targeting ubiquitination for cancer therapeutics

Emerging drug development technologies targeting ubiquitination for cancer therapeutics

The renaissance of yeasts as microbial factories in the modern age of biomanufacturing

Temperature-Induced Annual Variation in Microbial Community Changes and Resulting Metabolome Shifts in a Controlled Fermentation System

Contact Info

Product

Resources

About