Collection Citation: Kesella Scott-Somme, John Bishop, Chris Fletcher, Patrick Adkins, Nova Mieszkowska, Rebekka Uhl, Freja Azzopardi, Dominic Phillips, Inez Januszczak 2023. DToL Taxon-specific Standard Operating Procedures for Marine Metazoa. protocols.io https://dx.doi.org/10.17504/protocols.io.n92ldpdxnl5b/v2Version created by Inez Januszczak
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
This is a working protocol that may be subject to changes in the future.
Created: May 30, 2023
Last Modified: May 30, 2023
Collection Integer ID: 82627
Keywords: SOP, Marine Metazoa Working Group, Darwin Tree of Life Project, Marine Biological Association, Natural History Museum, Standard Operating Procedure, DNA barcoding, whole genome sequencing, Anthozoa, Bivalvia, Cephalopoda, Bryozoa, Chitons, Ascidiacea, Crustacea, Echinodermata, Gastropoda, Medusozoa, Ctenophora, Polychaeta, Porifera, Pycnogonida, Sipuncula, marine metazoa, specific standard operating procedures for marine metazoa, marine biological association, dtol taxon, dna barcoding, darwin tree of life project, whole genome sequencing, genome, darwin tree of life, other metazoa working group, bryozoa, darwin tree, cephalopoda, gastropoda, echinodermata, various taxa, whole genome, medusozoa, dna, tissue sample, crustacea, team members from the other metazoa working group, ctenophora, procedure, colonial ascidiacea
Abstract
These Standard Operating Procedures (SOPs) contain guidance on how to process the various taxa that fall under the ‘Marine Metazoa’ category within the scope of the Darwin Tree of Life (DToL) project. The guidance specifically refers to the tissue samples needed for DNA barcoding (which takes place at the Natural History Museum (NHM) and at the Marine Biological Association (MBA)) and outlines the dissected tissues required for whole genome sequencing, which takes place at the Wellcome Sanger Institute. Every specimen is submitted for DNA barcoding first before potentially being sent to the Wellcome Sanger Institute. These SOPs were assembled by sampling team members from the Other Metazoa Working Group for the Darwin Tree of Life project, with contributions from experts from the Natural History Museum and the Marine Biological Association.
Please see the Guidelines for more details on how to best use these SOPs, as well as for relevant contact information and acknowledgements.
The available SOPs are listed below. Please note more may be added in future:
1- Anthozoa
2- Bivalvia
3 - Bryozoa
4 - Chitons
5 - Cephalopoda
6 - Colonial Ascidiacea
7.1 - Crustacea - Decapoda
7.2 - Crustacea - Peracarida
7.3 - Crustacea - Cirripedia
8 - Echinodermata
9 - Gastropoda
10 - Medusozoa and Ctenophora
11 - Polychaeta
12 - Porifera
13 - Pycnogonida
14 - Sipuncula
15 - Unitary Ascidiacea
Guidelines
Use: The taxon-specific dissection procedures are split according to taxonomic order. They outline how to dissect specimens for DNA barcoding, genome sequencing, and specimen vouchering when relevant. Different taxa often require different sampling, preparation, photography, storage techniques and processes.
When relevant, the set of instructions are accompanied by taxon-specific pictorial dissection guides.
Details for field collection type, photography, dissection, storage and voucher curation of broad taxon groups are provided.
Please see the Sanger Sample Submission SOP (link below) for general details on physical handling of specimens, including cold chain use, and collation of metadata for sample submission to Sanger. These details are not included in this set of SOPs.
This SOP will be reviewed on an ad hoc basis by the Other Metazoa Working Group to incorporate feedback from the community.
Raising issues: We are still developing best practice and elements of this SOP are subject to change. If you would like to share any advice, comments, techniques or lessons learned, please do not hesitate to email [email protected] or [email protected].
Please note these SOPs do not cover every marine Metazoa order, instead focusing on the most common groups within the British Isles and the ones most frequently encountered within the scope of the DToL project. More groups may be added in the future.
Lawniczak, Mara KN, Robert P. Davey, Jeena Rajan, Lyndall L. Pereira-da-Conceicoa, Estelle Kilias, Peter M. Hollingsworth, Ian Barnes et al. "Specimen and sample metadata standards for biodiversity genomics: a proposal from the darwin tree of life project." Wellcome Open Research 7, no. 187 (2022): 187.
Pictorial dissection guide graphics: Chris Fletcher (Natural History Museum (NHM)).
Photos: Chris Fletcher (NHM), John Bishop (Marine Biological Association (MBA)).
Acknowledgements
Thank you to all the Curators and Scientific Associates at the NHM and at the MBA for looking over and revising these SOPs.
Thank you to the Darwin Tree of Life Principle Investigators Dr. Gavin Broad (NHM) and Dr. Michael Cunliffe (MBA) for supporting the publication of these SOPs.
