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CATS Total RNA-seq Kit (with rRNA depletion) v2 x24

Catalog Number
24 rxns
Other format

Diagenode’s CATS total RNA-seq Kit (with rRNA depletion) utilizes the innovative “Capture and Amplification by Tailing and Switching” (CATS), a ligation-free method to produce DNA libraries for next generation sequencing from low input amounts of RNA. 

  • Diverse transcript detection
  • Excellent reproducibility with ultra low inputs down to 100 pg
  • Optimal performance with challenging samples
  • Read more

    CATS relies on polynucleotide tailing for capturing the 3’-ends of nucleic acids and the template switching ability of MMLV-RT to capture the 5’ ends for cDNA synthesis. This kit allows for generating Illumina compatible ready-to-sequence libraries from RNA inputs as low as 100 picograms of rRNA depleted material in just few hours.

    Libraries retain strand specificity of origin. Unlike competing solutions, our CATS RNA-seq kit exhibits higher library efficiency versus ligation-based methods providing higher complexity from better template capture and minimal bias due to lower amplification requirements.

More transcripts detected

Biotypes* represented in the libraries CATS v2 total RNA-seq Kit vs NEBNext Ultra I directional RNA-seq Kit. TPM ≥2.
Input: 1 ng, 10 ng rRNA(-) RNA from human universal total RNA (Agilent, 740000). * < 2% of total detected transcripts at this threshold is rRNA

Very reproducible library preparation method

Transcripts detected in two technical replicates of CATS v2 total RNA-seq libraries. TPM≥2
Input: 1 ng rRNA(-) RNA from human universal total RNA (Agilent, 740000).

High correlation in coding transcripts detection across different inputs

Transcripts detected in 10 ng vs 1 ng samples of CATS v2 total RNA-seq libraries. TPM≥2
Input: 1 ng, 10 ng rRNA(-) RNA from human universal total RNA (Agilent, 740000).

Few PCR cycles, less amplification bias

BioAnalyzer® electropherogram of two technical replicates of CATS v2 total RNA-seq libraries.
Input: 1 ng rRNA(-) RNA from human universal total RNA (Agilent, 740000).

CATS saves time

  • Characteristics

    This kit contains and rRNA depletion module that depletes both cytoplasmic (5S rRNA, 5.8S rRNA, 18S rRNA, 28S rRNA) and mitochondrial ribosomal RNA (12S rRNA and 16S rRNA) from human, mouse and rat total RNA samples. This product is suitable for both intact and degraded RNA preparations (e.g. FFPE tissue). 

    • Ligation-free  assay - increased efficiency and minimum bias
    • Low inputs down to 100 picograms
    • User-friendly: reduced hands-on  time with fewer steps than competing methods
    • Libraries ready to sequence in only 5 hours
    • Retaining strand specificity of origin

    CATS total RNA-seq rRNA (-) library preparation workflow

    Total time Hands-on-time

    CATS total RNA-seq
    rRNA depletion (module included)

    60-120 min


    STEP 1
    ssRNA end-repair
    and polyA tailing

    75 min 10 min

    STEP 2
    RT and template switch

    150 min 10 min


    STEP 3
    PCR amplification
    of DNA library

    30 min 5 min


    (1) RNA: stored at -80°C after purification (safe stop & storage) ; (2) cDNA: stable at 4°C overnight, store at -20°C ; (3) Amplified library: prior purification and QC store at -20°C (safe stop & storage) ; (4) DNA libraries: store at -20°C or -80°C (safe stop & storage)

    Schematic representation of the workflow used by the CATS Small RNA-seq Kit. Single stranded RNAs are first dephosphorylated (end-repaired) and polyadenylated at the 3’-end. Subsequently, a cDNA strand synthesis is performed in the presence of the anchored poly(dT) oligonucleotide containing terminal P7 Illumina® adaptor sequence. When the reverse transcriptase reaches the 5’-end of the RNA it switches the template and continue DNA synthesis over the template-switching oligonucleotide (TSO). The TSO contains three 3’-terminal ribonucleotides X (rX) which facilitate the template switching and carry the terminal P5 Illumina® adaptor sequence. During PCR pre-amplification of the first cDNA strand, Illumina® adapters carrying P5 and P7 terminal sequences (required for clustering on an Illumina® flow cell) as well as index sequences are incorporated into the library. The sum size of the adapters (the size of “empty” library) is 143 bp.

  •  Protocols
    CATS RNA-seq v2 library preparation protocol on RNA from FFPE-samples
    The following protocol offers a streamlined solution for whole transcriptome sequencing studies f...
  • FAQs
    • In the CATS mRNA-seq kit, will the natural polyA tails undergo the polyadenylation step?
      Yes. The RNA fragments containing the natural polyA tail will be tailed as well during the polynucleotide tailing step.
    • What fragmentation should I carry if my sample has a RIN of 2-3?
      For heavily degraded RNA samples with a RIN of < 3, no fragmentation step is recommended to start the library preparation. However, the fragmentation buffer still needs to be added in the sample but no heat should be applied (please skip high temperatures in the “fragmentation step” in manuals).
    • How long is the CATS RNA-seq library preparation protocol?
      For the RNA-seq library preparation itself, takes 4h30-5h to complete for a trained user. This does not include the sample preparation (e.g. polyA selection, rRNA depletion or small RNA enrichment) and the QC of the library. Each of those two steps take additional approximate 1h.
    • I am working with mid- to low-quality RNA. Are there any recommendations?
      We recommend to run a BioAnalyzer (or equivalent) electrophoresis to get the fragmentation profile of the RNA. Then you should decide in collaboration with the Diagenode technical support customer.support@diagenode.com about the best fragmentation time to use for your RNA samples.
    • What would be the lowest possible limit for the input for rRNA depletion and polyA selection modules in CATS kits?
      It is possible to use lower amount of starting material than mentioned in manuals. To get more information about this, contact Diagenode technical support.

    • Before mapping, CATS RNA-seq data requires a specific trimming procedure described in all manuals. Please consult also a user guide “Diagenode trimming tools for CATS RNA-seq”.
    • 7) Is CATS compatible with directional mRNA-seq?
      Yes. CATS RNA-seq library preparation retains strand specificity which is also known as directional library preparation.
    • 8) Which RIN do my RNA samples need to have to work with CATS RNA-seq kits?
      We suggest using high quality RNA (RIN>8) but degraded RNA can be also used. In case of degraded RNA, the fragmentation time must be adjusted. In the protocol we advise 7 min at 94°C for fragmenting high quality RNA (RIN>8). If the RNA is severely degraded like RNA derived from FFPE tissue (RIN 2-3), the fragmentation may be skipped.
  •  Documents
    CATS Total RNA-seq Kit MANUAL
    CATS Total RNA-seq Kit (with rRNA depletion): CATS Total RNA sequencing kit for Illumin...
    CATS paired-end sequencing primer (for read2) DATASHEET
    This primer has been specifically designed to be used in paired-end sequencing with CATS librarie...
    Diagenode trimming tools for CATS library preparation [read1]
    Due to special mechanisms in creating CATS libraries such as template switching and artificial po...
    Diagenode trimming tools for CATS library preparation [read2]
    Due to special mechanisms in creating CATS libraries such as template switching and artificial po...
    Diagenode trimming tools for CATS library preparation MANUAL
    This document describes the usage of the Diagenode trimming tools for CATS library preparation, w...
    Material Safety Data Sheet CATS total RNA-seq (with rRNA depletion) Kit DATASHEET
  •  Publications

    How to properly cite this product in your work

    Diagenode strongly recommends using this: CATS Total RNA-seq Kit (with rRNA depletion) v2 x24 (Diagenode Cat# C05010042). Click here to copy to clipboard.

    Using our products in your publication? Let us know!

    Characterization of the salmon louse Lepeophtheirus salmonis miRNome: Sex-biased differences related to the coding and non-coding RNA interplay.
    Núñez-Acuña G, Gallardo-Escárate C
    The salmon louse Lepeophtheirus salmonis is a marine ectoparasite that has a detrimental impact on salmon farms. Genomic knowledge of adult stages is critical to understand the reproductive success and lifecycle completion of this species. Here, we report a comprehensive characterization of the L. salmonis miRNome w...

    The Atlantic salmon (Salmo salar) antimicrobial peptide cathelicidin-2 is a molecular host-associated cue for the salmon louse (Lepeophtheirus salmonis)
    Gustavo Núñez-Acuña, Cristian Gallardo-Escárate, David M. Fields, Steven Shema, Anne Berit Skiftesvik, Ignacio Ormazábal & Howard I. Browman
    Chemical signals are a key element of host-parasite interactions. In marine ecosystems, obligate ectoparasites, such as sea lice, use chemical cues and other sensory signals to increase the probability of encountering a host and to identify appropriate hosts on which they depend to complete their life cycle. The che...

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