Removing auto-activators from yeast-two-hybrid assays by conditional negative selection

• Published in: Scientific reports 2021-03, Vol.11 (1), p.5477-5477, Article 5477
• Main Authors: Shivhare, Devendra, Musialak-Lange, Magdalena, Julca, Irene, Gluza, Pawel, Mutwil, Marek
• Format: Article
• Language: English
• Subjects: 631/1647/2163; 631/337/475/2290; Autotrophy; Genomes; Humanities and Social Sciences; multidisciplinary; Negative selection; Next-generation sequencing; Protein interaction; Proteins; Science; Science (multidisciplinary); Uracil; Yeast; Yeasts
• ISSN: 2045-2322; 2045-2322
• DOI: 10.1038/s41598-021-84608-9

Yeast-two-hybrid (Y2H) is widely used as a strategy to detect protein–protein interactions (PPIs). Recent advancements have made it possible to generate and analyse genome-wide PPI networks en masse by coupling Y2H with next-generation sequencing technology. However, one of the major challenges of yeast two-hybrid assay is the large amount of false-positive hits caused by auto-activators (AAs), which are proteins that activate the reporter genes without the presence of an interacting protein partner. Here, we have developed a negative selection to minimize these auto-activators by integrating the pGAL2-URA3 fragment into the yeast genome. Upon activation of the pGAL2 promoter by an AA, yeast cells expressing URA3 cannot grow in media supplemented with 5-Fluoroorotic acid (5-FOA). Hence, we selectively inhibit the growth of yeast cells expressing auto-activators and thus minimizing the amount of false-positive hits. Here, we have demonstrated that auto-activators can be successfully removed from a Marchantia polymorpha cDNA library using pGAL2-URA3 and 5-FOA treatment, in liquid and solid-grown cultures. Furthermore, since URA3 can also serve as a marker for uracil autotrophy, we propose that our approach is a valuable addition to any large-scale Y2H screen.