Key Publications
Explore publications featuring MarathonRT® and UltraMarathonRT® across key applications.
RNA-Seq Applications
- Guo LT et al. Characterization and implementation of the MarathonRT template-switching reaction to expand the capabilities of RNA-seq. RNA (2024).
- Scheepbouwer C et al. ALL-tRNAseq enables robust tRNA profiling in tissue samples. Genes Dev. (2023).
- Ju et al. Full-length RNA profiling reveals pervasive bidirectional transcription terminators in bacteria. Nature Microbiology (2019)
ONT Direct RNA-Seq
- Maio G et al. Improved long-transcript representation in Oxford Nanopore direct RNA sequencing with UltraMarathonRT . bioRxiv (2025).
- Wiep van der Toorn W et al. Demultiplexing and barcode-specific adaptive sampling for nanopore direct RNA sequencing. Nat. Commun. (2025).
General MRT / uMRT Enzyme Attribute Characterization
- Zhao C et al. An ultraprocessive, accurate reverse transcriptase encoded by a metazoan group II intron. RNA (2018).
- Guo LT et al. Sequencing and structure probing of long RNAs using MarathonRT: a next-generation reverse transcriptase. J. Mol. Biol. (2020).
- Guo LT et al. Direct tracking of reverse-transcriptase speed and template sensitivity: implications for sequencing and analysis of long RNA molecules. Nucleic Acids Res. (2022)
- Ju X et al. Incomplete transcripts dominate the Mycobacterium tuberculosis transcriptome. Nature (2023).
Structure Probing
- Guo LT et al. Sequencing and structure probing of long RNAs using MarathonRT: a next-generation reverse transcriptase. J. Mol. Biol. (2020).
- Hiers NM et al. An endogenous cluster of target-directed microRNA degradation sites induces decay of distinct microRNA families. Cell Reports (2024).
- Sexton AN et al. Interpreting reverse transcriptase termination and mutation events for greater insight into the chemical probing of RNA. Biochemistry (2017).
- Huston NC et al. Comprehensive in vivo secondary structure of the SARS-CoV-2 genome reveals novel regulatory motifs and mechanisms. Mol. Cell (2021).
- Bohn P et al. Nano-DMS-MaP allows isoform-specific RNA structure determination. Nat. Methods (2023).
- Mitchell D et al. Mutation signature filtering enables high-fidelity RNA structure probing at all four nucleobases with DMS. Nucleic Acids Res. (2023).
- Saleem et al. Multi-site DMS probing reveals higher-order structure of RNA-protein complexes in living cells. Molecular Cell (2026).
RNA Modifications
- Tavares RCA et al. MRT-ModSeq: rapid detection of RNA modifications with MarathonRT. JMB (2023).
- Fang et al. Chapter Three - A user guide to RT-based mapping of RNA modifications. Methods in Enzymology (2024)
- Yamagami et al. Genome-wide analysis of the in vivo tRNA structurome reveals RNA structural and modification dynamics under heat stress. PNAS (2022)
Single-Cell RNA-Seq
- Chou CL et al. Single-cell RNA-seq using UltraMarathonRT expands the known transcriptome. bioRxiv (2025).
circRNA
- Warkentin R et al. Efficient circRNA detection using the processive reverse transcriptase uMRT. Bio Protoc (2024).