Prime-seq, efficient and powerful bulk RNA sequencing

Janjic, Aleksandar; Wange, Lucas E.; Bagnoli, Johannes W.; Geuder, Johanna; Nguyen, Phong; Richter, Daniel; Vieth, Beate; Vick, Binje; Jeremias, Irmela; Ziegenhain, Christoph; Hellmann, Ines; Enard, Wolfgang (2022): Prime-seq, efficient and powerful bulk RNA sequencing. Genome Biology, 23: 88. ISSN 1474-760X

Abstract

Cost-efficient library generation by early barcoding has been central in propelling single-cell RNA sequencing. Here, we optimize and validate prime-seq, an early barcoding bulk RNA-seq method. We show that it performs equivalently to TruSeq, a standard bulk RNA-seq method, but is fourfold more cost-efficient due to almost 50-fold cheaper library costs. We also validate a direct RNA isolation step, show that intronic reads are derived from RNA, and compare cost-efficiencies of available protocols. We conclude that prime-seq is currently one of the best options to set up an early barcoding bulk RNA-seq protocol from which many labs would profit.

• Doc-Type: Article (LMU)
• Organisational unit (Faculties): 19 Biology > Department Biology II
• DFG subject classification of scientific disciplines: Life sciences
• DFG: Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - 406901759
• DFG: Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - 491502892