An Effective and Reliable Enzymatic Method for the Depletion of Ribosomal RNA for Preparation of High-Quality Libraries for Transcriptome Sequencing

An Effective and Reliable Enzymatic Method for the Depletion of Ribosomal RNA for Preparation of High-Quality Libraries for Transcriptome Sequencing

7 Jan 2016

Ribosomal RNA (rRNA) accounts for the vast majority of total cellular RNA, and its efficient removal is critical during the RNA-Seq library preparation process in order to maximize the yield of biologically-informative transcriptome-derived reads. Sequencing of total RNA samples that have been depleted of rRNA provides a more comprehensive representation of the transcriptome compared to mRNA sequencing. This application note demonstrates a flexible and highly effective method for targeted enzymatic depletion of rRNA using complementary oligonucleotide probes and RNase H degradation.

KAPA RNA Library Preparation Kits for Illumina

Kapa Biosystems, Inc.

KAPA Stranded mRNA-Seq Kits includes all the enzymes and buffers required for cDNA library preparation for Illumina Next-Generation Sequencing, utilizing 100 ng – 4 µg of total RNA. KAPA mRNA Capture Beads are included for isolation of poly(A)-tailed RNA. Kits provides precise measurement of strand orientation (>99%), uniform coverage, and high-confidence mapping of alternate transcripts, and are optimized for the improved coverage of GC-rich and low-abundance transcripts. Kits contain KAPA HiFi for high-efficiency and low bias library amplification, as well as KAPA mRNA Capture Beads and a streamlined, “with-bead” protocol. KAPA Stranded RNA-Seq Kits include all the enzymes and buffers required for cDNA library preparation for Illumina Next-Generation Sequencing, but do not contain the KAPA mRNA Capture Beads. Kits can be used to prepare libraries from 10-400 ng of either poly(A)-selected, ribosomally-depleted, or total RNA. Features: Uncover challenging transcripts  Improved coverage of GC-rich transcripts Enhanced identification of exonic regions Detect low-abundance transcripts Enables identification of transcripts missed by competitor kits, even with high input High uniformity across varying amounts of sample input Identify more genes Higher percentage of uniquely mapped reads compared to Illumina TruSeq™ Stranded mRNA Sample Prep Kits Lower duplication rates yield better coverage Maintain high coverage uniformity Minimal 5′–3′ bias across transcripts More uniform distribution of reads over each transcript   Applications: Gene expression Single nucleotide variation (SNV) discovery Post-transcriptional SNVs Fusion gene identification Targeted transcriptome Whole transcriptome

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An Effective and Reliable Enzymatic Method for the Depletion of Ribosomal RNA for Preparation of High-Quality Libraries for Transcriptome Sequencing