PG-Seq Rapid v2 kit

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PG-Seq Rapid v2 kit

The PG-Seq^™ Rapid kit v2 has been developed to analyze picogram quantities of DNA (single/multi-cells or low template DNA) from an embryo biopsy for preimplantation genetic testing. The PG-Seq^™ Rapid kit v2 utilizes whole genome amplification (WGA) and next generation sequencing (NGS) technology to accurately screen all 24 chromosomes for whole chromosome aneuploidy and sub-chromosomal abnormalities.

For research use only. Not for use in diagnostic procedures.

Product information

SDS, COAs, Manuals and more

Product information

Overview

Fast PGT-A prep: 3 hours from cell lysis to NGS ready

Updated, streamlined, simple PGT protocol

From DNA to data, the PG-Seq^™ Rapid kit v2 includes all reagents required for cell lysis, whole genome amplification, indexing along with the PG-Find™ analysis software for automatic calling of aneuploidy and copy number variants.

Accurate Copy Number Detection

Extensively tested using over 100 cell lines and genomic DNA samples with known ploidy. Tested from whole chromosome aneuploidies down to segmental aberrations 7Mb in size with 30pg of genomic DNA or 5 cell fibroblast samples, representative of a trophectoderm biopsy. See PG-Seq^™ Rapid kit v2 app note for more information.

Flexible Kit Format

The PG-Seq^™ Rapid kit v2 has 48 rxns Two sets of 48 unique indexes are available, allowing up to 96 sample multiplexing (or up to 384 sample multiplexing available by custom request). Larger 40 µL WGA PCR 1 reaction volume enable options for alternative downstream processing. High WGA PCR 1 yield of 2-4 µg total DNA with only 23 cycles of PCR.

Improved whole genome coverage and accuracy

Enhanced PG-Find quality scores compared to previous versions of the kit signifies less noise, less bias, and higher confidence. Improved whole genome coverage when PG-Seq^™ Rapid v2 WGA PCR 1 product is used in hybridization capture panels.

Additional product information

High % coverage of the mtDNA genome

90% coverage of the mtDNA genome with no protocol modifications (Figure 1). Embryo biopsies processed with the PG-Seq^™ Rapid v2 kit analyzed with mtDetect^™ web app can successfully be identified and grouped based on their mitochondrial DNA SNV profiles. Identity determination allows sample tracking and can assist in the identification and monitoring of possible external sample contamination along with mislabeled samples.

Figure 1: IGV coverage track of the full mitochondrial genome (chrM: 1-16364bp) from a PG-Seq Rapid v2 amplified 5-cell sample with 1,000,000 sequencing reads.

Easy-to-Use, Highly Customizable Analysis Software

Two analysis options, self-reference and reference based, to accommodate every laboratory’s individual needs. Multiple visualization features including selecting which chromosomes to view and report, a single check box to view the raw vs smoothed data, unlimited color options, multiple result images. User adjustable event calling thresholds that can be used to designate mosaic, 1 copy or 2 copy gains and losses. An easy to interpret result overview screen allows the results of every sample to be easily analyzed and for general data trends to be observed.

A modifiable binning distance allowing the CNV resolution to be tailored according to laboratory requirements and sample sequencing depth and coverage.

Automatic and manual copy number calling of whole chromosome and sub-chromosome copy number events, including detailed information on the position and size of each event.

Specifications

Other Specifications

Brand	PG-Seq
Unit Size	48 rxns

Selected Publications / Citations / References

Avila Perez, C., Parnell, L., Florensa Bargallo, M., Herreros Cuesta, J., Larreategui Laiseca, Z., Prados Dodd, N., Ruiz Perez, M., & Wells, D. (2023). P-731: The accuracy of truly non-invasive PGT using spent culture media is insufficient to justify routine clinical use. Human Reproduction, 38(Supplement_1), dead093. 1050.
Banu, M., Pathan, A. A. K., & Chaitanya, K. V. (2023). Diagnostics for Genetically Inherited Disorders: From Cytogenetics to Genomics Technologies-A Review. Biomedical and Pharmacology Journal, 16(2).
Cheng, H. Y. H., Chow, J. F. C., Lam, K. K. W., Lai, S. F., Yeung, W. S. B., & Ng, E. H. Y. (2023). Randomised double-blind controlled trial of non-invasive preimplantation genetic testing for aneuploidy in in vitro fertilisation: a protocol paper. BMJ Open, 13(7), e072557.
Curnow, E., Ryan, G. L., & Yu, B. (2023). Discordant non-invasive PGT-A results and clinical outcome. Fertility and Sterility, 120(4), e276.
Spath, K., Costa-Borges, N., Nikitos, E., Kostaras, K., Calderón, G. C., Psathas, P., & Wells, D. (2023). P-730: Detection of mitochondrial reversal following meiotic spindle transfer: a finding of importance for mitochondrial replacement therapies used for the purpose of avoiding…. Human Reproduction, 38 (Supplement_1), dead093. 1049.
Sonehara, H., Matsumoto, R., Nakayama, N., Kobanawa, M., Numata, K., Kawasaki, A., & Shozu, M. (2022). Aneuploidy and sex concordance rate between cell-free DNA analysis from spent culture media of preimplantation embryo and DNA from whole embryo with respect to different…. Reproductive Medicine and Biology, 21(1), e12493.