Evaluation of a high-throughput, cost-effective Illumina library preparation kit

Abstract Library preparation for high-throughput sequencing applications is a critical step in producing representative, unbiased sequencing data. The iGenomX Riptide High Throughput Rapid Library Prep Kit purports to provide high-quality sequencing data with lower costs compared to other Illumina l...

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Autores principales:	Eric S. Tvedte, Jane Michalski, Shaoji Cheng, Rayanna S. Patkus, Luke J. Tallon, Lisa Sadzewicz, Vincent M. Bruno, Joana C. Silva, David A. Rasko, Julie C. Dunning Hotopp
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/d6cf97eb6bf54e5e90994b284e4dc181
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spelling	oai:doaj.org-article:d6cf97eb6bf54e5e90994b284e4dc1812021-12-02T14:53:34ZEvaluation of a high-throughput, cost-effective Illumina library preparation kit10.1038/s41598-021-94911-02045-2322https://doaj.org/article/d6cf97eb6bf54e5e90994b284e4dc1812021-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-94911-0https://doaj.org/toc/2045-2322Abstract Library preparation for high-throughput sequencing applications is a critical step in producing representative, unbiased sequencing data. The iGenomX Riptide High Throughput Rapid Library Prep Kit purports to provide high-quality sequencing data with lower costs compared to other Illumina library kits. To test these claims, we compared sequence data quality of Riptide libraries to libraries constructed with KAPA Hyper and NEBNext Ultra. Across several single-source genome samples, mapping performance and de novo assembly of Riptide libraries were similar to conventional libraries prepared with the same DNA. Poor performance of some libraries resulted in low sequencing depth. In particular, degraded DNA samples may be challenging to sequence with Riptide. There was little cross-well plate contamination with the overwhelming majority of reads belong to the proper source genomes. The sequencing of metagenome samples using different Riptide primer sets resulted in variable taxonomic assignment of reads. Increased adoption of the Riptide kit will decrease library preparation costs. However, this method might not be suitable for degraded DNA.Eric S. TvedteJane MichalskiShaoji ChengRayanna S. PatkusLuke J. TallonLisa SadzewiczVincent M. BrunoJoana C. SilvaDavid A. RaskoJulie C. Dunning HotoppNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Eric S. Tvedte Jane Michalski Shaoji Cheng Rayanna S. Patkus Luke J. Tallon Lisa Sadzewicz Vincent M. Bruno Joana C. Silva David A. Rasko Julie C. Dunning Hotopp Evaluation of a high-throughput, cost-effective Illumina library preparation kit
description	Abstract Library preparation for high-throughput sequencing applications is a critical step in producing representative, unbiased sequencing data. The iGenomX Riptide High Throughput Rapid Library Prep Kit purports to provide high-quality sequencing data with lower costs compared to other Illumina library kits. To test these claims, we compared sequence data quality of Riptide libraries to libraries constructed with KAPA Hyper and NEBNext Ultra. Across several single-source genome samples, mapping performance and de novo assembly of Riptide libraries were similar to conventional libraries prepared with the same DNA. Poor performance of some libraries resulted in low sequencing depth. In particular, degraded DNA samples may be challenging to sequence with Riptide. There was little cross-well plate contamination with the overwhelming majority of reads belong to the proper source genomes. The sequencing of metagenome samples using different Riptide primer sets resulted in variable taxonomic assignment of reads. Increased adoption of the Riptide kit will decrease library preparation costs. However, this method might not be suitable for degraded DNA.
format	article
author	Eric S. Tvedte Jane Michalski Shaoji Cheng Rayanna S. Patkus Luke J. Tallon Lisa Sadzewicz Vincent M. Bruno Joana C. Silva David A. Rasko Julie C. Dunning Hotopp
author_facet	Eric S. Tvedte Jane Michalski Shaoji Cheng Rayanna S. Patkus Luke J. Tallon Lisa Sadzewicz Vincent M. Bruno Joana C. Silva David A. Rasko Julie C. Dunning Hotopp
author_sort	Eric S. Tvedte
title	Evaluation of a high-throughput, cost-effective Illumina library preparation kit
title_short	Evaluation of a high-throughput, cost-effective Illumina library preparation kit
title_full	Evaluation of a high-throughput, cost-effective Illumina library preparation kit
title_fullStr	Evaluation of a high-throughput, cost-effective Illumina library preparation kit
title_full_unstemmed	Evaluation of a high-throughput, cost-effective Illumina library preparation kit
title_sort	evaluation of a high-throughput, cost-effective illumina library preparation kit
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/d6cf97eb6bf54e5e90994b284e4dc181
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Evaluation of a high-throughput, cost-effective Illumina library preparation kit

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