Tag Archives: oxford nanopore

The haplotype-resolved T2T carnation (Dianthus caryophyllus) genome reveal the correlation between genome architecture and gene expression

November 2023 Authors: Lan Lan, Luhong Leng, Weichao, Yonglin Ren, Wayne Reeve, Xiaopeng Fu, Zhiqiang Wu, Xiaoni Zhang Abstract: “Carnation (Dianthus caryophyllus) is one of the most valuable commercial 45 flowers, due to its richness of colour and form, and … more »

Posted in Citation | Tagged , , , , , | Comments Off on The haplotype-resolved T2T carnation (Dianthus caryophyllus) genome reveal the correlation between genome architecture and gene expression

Cut the Big Stuff: >50kb High Pass DNA Size Selection on the HLS2

We have been getting quite a few inquiries of late from researchers who would like to size select DNA fragments above 50kb. This may be due in no small part to our friends at Grandomics, China, who have been citing … more »

Posted in Blog | Tagged , , | Comments Off on Cut the Big Stuff: >50kb High Pass DNA Size Selection on the HLS2

High-quality Arabidopsis thaliana Genome Assembly with Nanopore and HiFi Long Reads

September 2021 Authors: Bo Wang, Xiaofei Yang, Yanyan Jia, Yu Xu, Peng Jia, Ningxin Dang, Songbo Wang, Tun Xu, Xixi Zhao, Shenghan Gao, Quanbin Dong, Kai Ye Info: The authors report on a high quality genome assembly of the model … more »

Posted in Citation | Tagged , , , , | Comments Off on High-quality Arabidopsis thaliana Genome Assembly with Nanopore and HiFi Long Reads

High-molecular weight DNA extraction, clean-up and size selection for long-read sequencing

July 2021 Authors: Ashley Jones ,Cynthia Torkel,David Stanley,Jamila Nasim,Justin Borevitz,Benjamin Schwessinger Info: The authors provide a protocol for preparing high molecular weight DNA sequencing libraries with a particular focus on difficult plant and fungal tissues, and also can be used … more »

Posted in Citation | Tagged , , | Comments Off on High-molecular weight DNA extraction, clean-up and size selection for long-read sequencing

Comparison of long-read sequencing technologies in interrogating bacteria and fly genomes

June 2021 Authors: Eric S Tvedte, Mark Gasser, Benjamin C Sparklin, Jane Michalski, Carl E Hjelmen, J Spencer Johnston, Xuechu Zhao, Robin Bromley, Luke J Tallon, Lisa Sadzewicz, David A Rasko, Julie C Dunning Hotopp Info: This side-by-side comparison of … more »

Posted in Citation | Tagged , , | Comments Off on Comparison of long-read sequencing technologies in interrogating bacteria and fly genomes

Nanopore adaptive sampling: a tool for enrichment of low abundance species in metagenomic samples

May 2021 Authors: Samuel Martin, Darren Heavens, Yuxuan Lan, Samuel Horsfield, Matthew D Clark, Richard M Leggett Info: Oxford Nanopore adaptive sampling is a real-time sequencing method with which analysis software identifies several hundred sequence bases as they pass through … more »

Posted in Citation | Tagged , , | Comments Off on Nanopore adaptive sampling: a tool for enrichment of low abundance species in metagenomic samples

Chromosomal rearrangements but no change of genes and transposable elements repertoires in an invasive forest-pathogenic fungus

Authors: Arthur Demené , Benoît Laurent , Sandrine Cros-Arteil , Christophe Boury , Cyril Dutech Info: The authors present a high-quality de novo genome assembly of Cryphonectria parasitica, and invasive fungus that causes chestnut blight, using Oxford Nanopore and Illumina … more »

Posted in Citation | Tagged , , , , , | Comments Off on Chromosomal rearrangements but no change of genes and transposable elements repertoires in an invasive forest-pathogenic fungus

Complete and haplotype-specific sequence assembly of segmental duplication-mediated genome rearrangements using targeted CRISPR-targeted ultra-long read sequencing (CTLR-Seq)

October 2020 Authors: Bo Zhou, GiWon Shin, Stephanie U. Greer, Lisanne Vervoort, Yiling Huang, Reenal Pattni, Marcus Ho, Wing H. Wong, Joris R. Vermeesch, Hanlee P. Ji, Alexander E. Urban Info: In this preprint the authors report on a method, … more »

Posted in Citation | Tagged , , , | Comments Off on Complete and haplotype-specific sequence assembly of segmental duplication-mediated genome rearrangements using targeted CRISPR-targeted ultra-long read sequencing (CTLR-Seq)

A spontaneous complex structural variant in rcan-1 increases exploratory behavior and laboratory fitness of Caenorhabditis elegans

February 2020 Authors: Yuehui Zhao, Lijiang Long, Jason Wan, Shweta Biliya, Shannon C. Brady, Daehan Lee, Akinade Ojemakinde, Erik C. Andersen, Fredrik O. Vannberg, Hang Lu, Patrick T. McGrath Info: Researchers studying genetic adaptive changes using C. elegans recombinant inbred … more »

Posted in Citation | Tagged , | Comments Off on A spontaneous complex structural variant in rcan-1 increases exploratory behavior and laboratory fitness of Caenorhabditis elegans

Sequencing of human genomes with nanopore technology

April 2019 Authors: Rory Bowden, Robert W. Davies, Andreas Heger, Alistair T. Pagnamenta, Mariateresa de Cesare, Laura E. Oikkonen, Duncan Parkes, Colin Freema, Fatima Dhalla, Smita Y. Patel, Niko Popitsch, Camilla L.C. Ip, Hannah E. Roberts, Silvia Salatino, Helen Lockstone, … more »

Posted in Citation | Tagged , , , | Comments Off on Sequencing of human genomes with nanopore technology