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Microorganisms
Special Issues
Yeast Genetics and Proteomics
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Yeast Genetics and Proteomics

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Molecular Microbiology and Immunology".

Deadline for manuscript submissions: closed (31 January 2025) | Viewed by 1337

Special Issue Editors

Dr. Joao A. Paulo

E-Mail Website
Guest Editor
Department of Cell Biology, Blavatnik Institute, Harvard Medical School, Boston, MA 02115, USA
Interests: mass spectrometry-base proteomics; method development; quality control; sample preparation; automation; data acquisition optimization; phosphoproteomics; signaling
Special Issues, Collections and Topics in MDPI journals
Dr. Valentina Rossio

E-Mail Website
Guest Editor Assistant
Department of Cell Biology, Blavatnik Institute at Harvard Medical School, Boston, MA 02115, USA
Interests: S.cerevisiae; yeast; proteomics; genetics; gene function; signal transduction pathways; post-translational modifications (PTMs); mass spectrometry; automation

Special Issue Information

Dear Colleagues,

Yeast cells are easy to manipulate, divide rapidly (every 90 minutes), and are very cost-effective. Furthermore, the high conservation of numerous cellular pathways has made this unicellular eukaryote an optimal model organism. This humble microorganism has played a significant role in deciphering a myriad of fundamental biological processes, ranging from cell cycle regulation to protein ubiquitylation.

The genetic manipulability of yeast has been the driving force behind these scientific discoveries, allowing researchers to easily introduce, mutate, or delete genes. Even if recent CRISPR technologies have revolutionized the genetic manipulation of mammalian cells, yeast genetics remains indispensable in unraveling complex genetic interactions and understanding redundant cellular pathways.

In tandem with genetics, proteomics has emerged as a powerful tool in elucidating protein function and regulation. Rapid and recent advances in proteomic techniques now enable the identification and quantification of thousands of proteins and post-translational modifications in a single experiment. In the context of yeast research, proteomics has provided deeper insights into cellular processes and signal transduction pathways that have subsequently been shown to be conserved in higher organisms.

Therefore, as the Guest Editors of this Special Issue, we invite you to submit research articles, reviews, and minireviews that explore all aspects of yeast genetics and proteomics that can further advance our understanding of cellular processes.

Dr. Joao A. Paulo
Dr. Valentina Rossio
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Microorganisms is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • yeast
  • proteomics
  • genetics
  • cell cycle regulation
  • CRISPR technologies
  • cellular pathways
  • post-translational modifications

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Published Papers (1 paper)

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Research

12 pages, 2206 KiB  
Article
Proteome Profiling of S. cerevisiae Strains Lacking the Ubiquitin-Conjugating Enzymes Ubc4 and Ubc5 During Exponential Growth and After Heat Shock Treatment
by Valentina Rossio, Xinyue Liu and Joao A. Paulo
Microorganisms 2024, 12(11), 2235; https://doi.org/10.3390/microorganisms12112235 - 5 Nov 2024
Viewed by 962
Abstract
The Ubiquitin–Proteasome System (UPS) governs numerous cellular processes by modulating protein stability and activity via the conjugation of the small protein ubiquitin, either as a single molecule or as linkages with distinct functions. Dysregulation of the UPS has been associated with many diseases, [...] Read more.
The Ubiquitin–Proteasome System (UPS) governs numerous cellular processes by modulating protein stability and activity via the conjugation of the small protein ubiquitin, either as a single molecule or as linkages with distinct functions. Dysregulation of the UPS has been associated with many diseases, including neurodegenerative and neurodevelopmental diseases, as well as cancer. Ubiquitin-conjugating enzymes (E2s) are important players of the UPS that work together with ubiquitin ligases (E3s) to promote substrate ubiquitylation. In this study, we conduct a comparative proteome-wide abundance profiling of S. cerevisiae cells during the exponential growth phase with and without heat shock treatment. We focus on cells with deletions of the two highly homologous E2s, UBC4 or UBC5, and use isobaric tag-based quantitative mass spectrometry to elucidate differences and similarities in their proteomic profiles. Our analysis revealed that the deletion of Ubc4 has a stronger effect on the proteome compared to the deletion of Ubc5, particularly in exponentially growing cells. In contrast, the effect on the proteome of deleting Ubc5 becomes evident only after heat shock, and even then, it remains minor compared to Ubc4. Furthermore, we identified proteins increasing in the absence of each enzyme, which may represent candidate substrates, potentially contributing to a better understanding of their cellular role. Full article
(This article belongs to the Special Issue Yeast Genetics and Proteomics)
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