In 2018, the European Commission's Joint Reseach Centre will collect 1,000 soil samples across Europe and analyse soil biodiversity by means of DNA metabarcoding techniques. In particular, we will be using the Earth Microbiome Project protocols (http://www.earthmicrobiome.org/protocols-and-standards/) for 16S (bacteria), ITS (fungi) and 18S (eukaryotes). Beside this, we are open to (i) additional analyses based on DNA-fingerprinting and (ii) expand our daset.
For this, we are launching a call for support and collaboration. Here we want to collect the names of all people potentially interested in contributing to our project, named LUCAS Soil. Please note that we are seeking collaborators not just from Europe.
|You can find our open call and read all the details about our project in our recent publication: http://onlinelibrary.wiley.com/doi/10.1111/ejss.12499/full|
We offer 4 possible ways of collaboration:
|1. Propose new analyses for our points: if you know any protocols (different from those by the Earth Micrtobiome Project) for analysing soil organisms through DNA metabarcoding, then we may consider the possibility to apply them to our 1000 points.|
|2. Make your analyses on our points: you may visit one or more of our points (we will give you the details), collect your own samples and carry out analyses of your interest different from those included in our project (e.g. sampling soil mesofauna and earthworms). Then, we can exchange the data.|
|3. Make our analyses on your points: we give you our protocols and you analyse your soil samples using the same methodology. Then, you can compare your data to our 1,000 samples. Of course, we are interested in new points located not just in Europe, but also worldwide. Ideally, we would like to create a unique, standard, global soil biodiversity dataset.|
|4. Add your available data to ours: if you already have some data (i.e. DNA reads) generated through protocols similar to those we will be using (i.e. Earth Microbiome Project) in LUCAS 2018, then we can discuss how to combine our datasets. Of course, this can be done on data from all over the world.|
In the table below, you can mark one or more options. We will contact you to discuss the details of our possible collaboration. Please, bear in mind that this is a voluntary call and no funds are foreseen. However, all the scientific production derived from future collaborations will be shared.
LUCAS soil biodiversity data will be available by the end of 2018. For that, it may take time before we contact you. But we will not forget you. That's for sure!
We look forward to your feedback! If you have any questions, please get in touch: firstname.lastname@example.org
|Name||Institution||Country||Mark (X) the way(s) in which you would like to collaborate||Comments|
|1. Propose new analyses for our points||2. Make your analyses on our points||3. Make our analyses on your points||4. Add your available data to ours|
|Ugis Kagainis||Institute of Biology (University of Latvia)||Latviaemail@example.com||X||Under discussion|
Department of Ecology, Institute for Biology (University of Veterinary Medicine Budapest)
|Davorka Hackenberger||Department of Biology, University of Osijek||Croatia|
|Micael Schloter||Institute for Comparative Microbiome Analysis||Germany|
Department of Ecology, School of Biology, Aristotle University, Greece
School of Agricultural, Forestry, Food and Environmental Sciences, University of Basilicata, Potenza
Kunming Insititute of Botany, China Academy of Sciences
|Gareth W Griffith||IBERS, Aberystwyth University, Aberystwyth||Walesfirstname.lastname@example.org||X||X||X|
|Hojka Kraigher||Slovenian Forestry institute (SFI), Ljubljana||Sloveniaemail@example.com||x||x||x|
|Alain Brauman||UMR ECO&SOLS, Montpellier||Francefirstname.lastname@example.org||x||x||x|
|Joana Falcao Salles||University of Groningen, Groningen||Nethrelandsemail@example.com||x|
Department of Ecology, School of Biology, Aristotle University of Thessaloniki
|Herve Sanguin||Cirad, UMR LSTM, Montpellier||Francefirstname.lastname@example.org||X||X||X||X|
Mostly participated in symbiotic microbiome analysis and fruit tree-based agroecosystems. High expertise in big data treatment and in Mediterranean basin and West African microbiome analysis
|Luiz Domeignoz Horta||University of Massachusetts, Amherst, MA|
Jaime Rodriguez fernandez
|Bolivian Society of Entomology||Bolivia|
|Matthew Shepherd||Natural England||UK|
We have a monitoring programme of 37 sites around England with soil microbes being currently analysed by tRFLP and PLFA, we also have soil mesofauna samples, most of which will be metabarcoded this winter/spring, and nematode samples, which are archived awaiting anlaysis. The scheme also collects physico chemical soil data and vegetation data. I run a recording scheme for UK mites.
|Nejc Stopnisek||Michigan State University||USAemail@example.com||x|
|Lur Epelde||NEIKER, Basque Institute of Agricultural R&D||Spainfirstname.lastname@example.org||x|
Our 16S metabarcoding protocol is very similar to yours, we have carried out several soil samplings for different projects in the northern part of Spain, the results might be useful for your purposes, we will be happy to collaborate :)
Institute of biometereology (National research council )
|Michael Steinwandter||Eurac Research - Institute for Alpine Environment||Italy|