Collection Citation: Amy Denton, Halyna Yatsenko, Jessie Jay, Karen E Houliston, Caroline Howard 2023. Sanger Tree of Life Wet Laboratory Protocol Collection . protocols.io https://dx.doi.org/10.17504/protocols.io.8epv5xxy6g1b/v1
License: This is an open access collection distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this collection and it's working
Created: August 24, 2023
Last Modified: October 02, 2023
Collection Integer ID: 86929
Keywords: reference genome, long read sequencing, sample preparation, tissue dissection, sample homogenisation, PowerMasher, cryoPREP, tissue disruption, cryogenic tissue disruption, plant tissue disruption, tissue homogenisation, cryogenic bead beating, HMW DNA extraction, magnetic bead extraction, automated DNA extraction, KingFisher, MagAttract, manual DNA extraction, plant HMW DNA extraction, solid phase reversible immobilisation, Nanobind, nucleated blood extractions, mollusc extraction, organic extraction, next generation sequencing, third generation sequencing, HMW DNA fragmentation, Megaruptor, low input, PacBio, ultra-low input, Covaris, g-TUBE, SPRI, automated SPRI, manual SPRI, AMPure PB beads, DNA clean-up, RNA extraction, manual RNA extraction, TRIzol, RNA-Seq, Iso-Seq, automated RNA extraction, MagMax, mirVana, magnetic beads, HMW DNA pooling
Funders Acknowledgement:
Wellcome Trust
Grant ID: 218328
Wellcome Trust
Grant ID: 206194
Gordon and Betty Moore Foundation
Grant ID: GBMF8897
Abstract
This is the collection of Sanger Tree of Life Wet Laboratory protocols used for the generation of reference level genome assemblies.
This collection currently contains protocols which cover all stages of the wet laboratory processes performed by the Sanger Tree of Life; these processes are sample preparation, sample homogenisation, HMW DNA extraction, HMW DNA fragmentation, fragmented DNA clean-up and RNA extraction.
This collection will be updated as protocols within the Tree of Life Core Laboratory continue to be developed and refined.
Overview of the segmentation of work processes and protocols in the Tree of Life Core Laboratory as part of the Tree of Life Programme at the Wellcome Sanger Institute for reference genome generation.
