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Picogreenh dsdna quantitation reagent

Manufactured by Thermo Fisher Scientific

PicoGreen dsDNA quantitation reagent is a fluorescent dye used to quantify double-stranded DNA (dsDNA) in solution. It provides a sensitive and accurate method for measuring dsDNA concentration.

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2 protocols using picogreenh dsdna quantitation reagent

1

PacBio Sequel DNA Library Preparation

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Total DNA quality was analysed on a PacBio RS II sequencing platform analyser system and by resolution on a denaturing polyacrylamide gel electrophoresis system. A DNA database library was generated according to the DNA sample preparation instructions. Subsequently, DNA was amplified with Pfx DNA polymerase (Invitrogen, China) using 20 PCR cycles and a PacBio DNA primer set. PCR products were purified, and the recovered DNA was precipitated and quantified with both a Nanodrop Spectrophotometer (Thermo Scientific) and a TBS-380 mini fluorometer (Turner Biosystems) using PicoGreenH dsDNA quantitation reagent (Invitrogen). The sample concentration was adjusted to 10 nM, and a final volume of 10 mL was used for the sequencing reaction. The purified DNA library was used for cluster generation (on the PacBio Cluster Station). Subsequently, DNA was sequenced on a PacBio Sequel machine following the manufacturer's instructions (Nextomics), and the library construction process is shown in Fig. 1. The gDNA concentration was normalized by dilution from a high to a low concentration and was then sequenced using the PacBio platform.

The genomic DNA library was generated according to the PacBio Sequel sample preparation instructions.

Fig. 1
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2

Small RNA Library Generation and Sequencing

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The quality of total RNA was analyzed with both a Shimadzu 206-97213C BioSpec-nano analyzer system and a denaturing polyacrylamide gel electrophoresis system. A small RNA library was generated according to the Illumina sample preparation instructions (Chen et al., 2012 (link)). The RNA fragments were reverse transcribed using M-MuLV (Invitrogen) with reverse transcription (RT) primers (as recommended by Illumina) to generate single-stranded cDNA. The cDNA was subsequently amplified with Pfx DNA polymerase (Invitrogen) using 20 PCR cycles and the Illumina small RNA primer set. PCR products were purified, and the recovered cDNA was precipitated and quantified with both a NanoDrop spectrophotometer (Thermo Scientific) and a TBS-380 mini-fluorometer (Turner Biosystems) using the PicoGreenH dsDNA quantitation reagent (Invitrogen). The sample concentration was adjusted to 10 nM, and 10-mL final volumes were used for the sequencing reaction. The purified cDNA library was used for cluster generation (on the Illumina Cluster Station). The cDNA was subsequently sequenced on an Illumina HiSeq2000 machine, following the manufacturer's instructions.
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