PhD project
Exploring RNA cap diversity using LC–MS-based sequencing
Tutor
Hana Macíčková Cahová
Group
Hana Cahová Group
Chemical Biology of Nucleic Acids
Chemical Biology of Nucleic Acids
Abstract
Recent discoveries of non-canonical RNA caps, such as NAD and CoA, have led to a fundamental reassessment of the structural diversity of RNA across all domains of life. In our research group, we have identified an entirely new class of RNA caps—dinucleoside polyphosphates (NpnN)—present in both bacterial and eukaryotic cells. This discovery raises new questions regarding the diversity, regulation, and biological function of RNA 5′ ends.
The aim of this project is to develop a robust and reliable RNA sequencing approach based on liquid chromatography–mass spectrometry (LC–MS) combined with the use of selective RNases. The developed methodology will be applied to investigate the properties of 5′ ends of various non-coding RNAs, including snRNAs and snoRNAs, as well as to quantify the methylation status of the canonical mRNA cap, enabling discrimination between cap 1 and cap 2 structures.
Beyond fundamental research, this method will provide a versatile tool for the analysis and quality control of mRNAs used in biotechnological and therapeutic applications, thereby bridging basic RNA biology with applied research.
Study program: Developmental and Cell Biology
Universities
PhD students must be enrolled in a partner university and will be employed by the IOCB Prague at the same time (part-time or full time), which results in a competitive salary (a scholarship from the university + a salary from the IOCB). Each university has its own process, terms, and deadlines for PhD applications, which is separate from the IOCB recruitment process. You may discuss the details with the respective PI.
University partners
How to apply
Please return to the PhD projects at IOCB Prague – Call for Applications 2026 page and follow the instructions.