Skip to main content

Twinning for European excellence in Island Biodiversity Genomics

Deliverables

Events Year 1

Detailed information (title, date, location, content, participants) on the main events organised during year 1 will be submitted to the Commission Services and uploaded on the iBioGen website.

Events Year 2

Detailed information title date location content participants on the main events organised during year 2 will be submitted to the Commission Services and uploaded on the iBioGen website

Events Year 3

Detailed information title date location content participants on the main events organised during year 3 will be submitted to the Commission Services and uploaded on the iBioGen website

D2.3 Summer school teaching material online

Two workshops delivered successfully for a minimum of 30 students and integration with the field protocols and novel analytical techniques Course development and teaching materials created for future iterations of the course at various levels of background Online web resource for selftraining

D5.1 iBioGen website and social media page

Project website, which will be updated regularly and will include online resources for training and research in biodiversity genomics. iBioGen social media page, which will be updated regularly and will include detailed information about all dissemination events.

D 5.4 Video on biodiversity genomics for high-school students

Video on biodiversity genomics for highschool students which will be widely distributed across the schools of Cyprus and the Environmental Education Centers

D5.2 TED-Ed lesson

TEDEd lesson on the use of metabarcoding and environmental DNA for biodiversity monitoring

D3.3 Protocol videos

Videos demonstrating the unified series of protocols produced by the working group of Task 32 Two videos will be produced demonstrating practically the unified protocols generated for each of the two modules soil underground and aboveground biodiversity as these two modules require distinct protocols for sample collection and processing

D3.2 Protocol package

Modularbased protocol package for island biodiversity analysis presented in a scientific publication Task 32 will define a set of complementary genomicbased protocols designed to function as a multitool for biodiversity measurement and monitoring needs in the varied and complex island ecosystems and habitats of the EU While the focus of iBioGen is islands such protocols will be of more general interest for nonisland study systems The protocols will be published in a relevant methodological scientific journal eg Molecular Ecology Resources

D3.4 Island Genomics Observatories paper

Perspective publication launching the Island Genomic Observatories network A scientific journal publication presenting both the network and potential from implementing a modular communitylevel metabarcode data approach to address outstanding questions concerning island biodiversity and biomonitoring Potential journals to be considered are GigaScience Scientific Reports Global Ecology and Biogeography or Journal of Biogeography

D3.1 Symposium opinion paper and online report on key challenges

Publication of symposium output presented as a Forum Opinion or Point of View in scientific journals such as Trends in Ecology and Evolution Molecular Ecology Journal of BiogeographyThis publication will be accompanied by an online report on the identification of key challenges for Task 32 resulting from the workshop under Task 31 setting out key island biodiversity measurement and monitoring challenges to be addressed These challenges will be published on the iBioGen website to encourage external interest in the subsequent working group of Task 32

D4.2 iBioGen R package

R Package for the study of island biodiversity dynamics from genomic data We will make our implementations of tools for the study of island biodiversity dynamics from genomic data publicly available in an Rpackage called iBioGen This will greatly enhance the international visibility of the project

D4.1 Symposium review paper

Publication of review paper on methods models andor theory for studying island biodiversity dynamics from genomic data Potential scientific journals to be considered include Ecology Letters Molecular Ecology and Systematic Biology

D4.3 Paper on implementation in Cyprus

Publication of paper presenting the iBioGen R package using test data from Cyprus We will write a companion paper serving as a tutorial for use of the iBioGen R package using as test data the empirical case studies from Cyprus

Searching for OpenAIRE data...

Publications

Coming of age for COI metabarcoding of whole organism community DNA: towards bioinformatic harmonisation

Author(s): Creedy, Thomas; Andújar, Carmelo; Noguerales, Víctor; Overcast, Isaac; Papadopoulou, Anna; Morlon, Hélène; Vogler, Alfried; Emerson, Brent C.; Arribas, Paula
Published in: Molecular Ecology Resources, 22/3, 2022, Page(s) 847-861, ISSN 1755-098X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/1755-0998.13502

Revealing community assembly through barcoding: Mediterranean butterflies and dispersal variation.

Author(s): Brent C. Emerson; Eduardo Jiménez-García; Eduardo Jiménez-García; Daniel Suárez; Daniel Suárez
Published in: Journal of Animal Ecology, 89, 2020, Page(s) 1992-1996, ISSN 1365-2656
Publisher: British Ecological Society
DOI: 10.1111/1365-2656.13316

Connecting high‐throughput biodiversity inventories: Opportunities for a site‐based genomic framework for global integration and synthesis

Author(s): Paula Arribas, Carmelo Andújar, Martin I. Bidartondo, Kristine Bohmann, Éric Coissac, Simon Creer, Jeremy R. deWaard, Vasco Elbrecht, Gentile F. Ficetola, Marta Goberna, Susan Kennedy, Henrik Krehenwinkel, Florian Leese, Vojtech Novotny, Fredrik Ronquist, Douglas W. Yu, Lucie Zinger, Thomas J. Creedy, Emmanouil Meramveliotakis, Víctor Noguerales, Isaac Overcast, Hélène Morlon, Alfried P. Vogl
Published in: Molecular Ecology, 30/5, 2021, Page(s) 1120-1135, ISSN 0962-1083
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/mec.15797

Validated removal of nuclear pseudogenes and sequencing artefacts from mitochondrial metabarcode data.

Author(s): Carmelo Andújar; Thomas J. Creedy; Paula Arribas; Heriberto López; Antonia Salces-Castellano; Antonio J. Pérez-Delgado; Alfried P. Vogler; Alfried P. Vogler; Brent C. Emerson
Published in: Molecular Ecology Resources, 21, 2021, Page(s) 1772-1787, ISSN 1755-098X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/1755-0998.13337

DNA barcoding of bird species in Cyprus: a tool for conservation purposes

Author(s): ANDREAS C. DIMITRIOU, GIOVANNI FORCINA, CLAIRIE PAPAZOGLOU, PANICOS PANAYIDES, MONICA GUERRINI, ALAN CRABTREE, FILIPPO BARBANERA, SPYROS SFENTHOURAKIS
Published in: Bird Conservation International, 27/04, 2017, Page(s) 483-494, ISSN 0959-2709
Publisher: Cambridge University Press
DOI: 10.1017/S0959270916000472

H3ABioNet computational metagenomics workshop in Mauritius: training to analyse microbial diversity for Africa

Author(s): Shakuntala Baichoo, Gerrit Botha, Yasmina Jaufeerally-Fakim, Zahra Mungloo-Dilmohamud, Daniel Lundin, Nicola Mulder, Vasilis J. Promponas, Christos A. Ouzounis
Published in: Standards in Genomic Sciences, 10/1, 2015, ISSN 1944-3277
Publisher: Michigan State University
DOI: 10.1186/s40793-015-0111-0

Revisiting the saproxylic beetle ‘ Propomacrus cypriacus Alexis & Makris, 2002’ (Coleoptera: Euchiridae) using molecular, morphological and ecological data

Author(s): Spyros Sfenthourakis, Michael Hadjiconstantis, Christodoulos Makris, Andreas C. Dimitriou
Published in: Journal of Natural History, 51/17-18, 2017, Page(s) 1021-1034, ISSN 0022-2933
Publisher: Taylor & Francis
DOI: 10.1080/00222933.2017.1319521

Annotation inconsistencies beyond sequence similarity-based function prediction – phylogeny and genome structure

Author(s): Vasilis J. Promponas, Ioannis Iliopoulos, Christos A. Ouzounis
Published in: Standards in Genomic Sciences, 10/1, 2015, ISSN 1944-3277
Publisher: Michigan State University
DOI: 10.1186/s40793-015-0101-2

A validated workflow for rapid taxonomic assignment and monitoring of a national fauna of bees (Apiformes) using high throughput DNA barcoding

Author(s): Creedy, Thomas J.; Norman, Hannah; Tang, Cuong Q.; Qing Chin, Kai; Andujar, Carmelo; Arribas, Paula; O’Connor, Rory S.; Carvell, Claire; Notton, David G.; Vogler, Alfried P.
Published in: Molecular Ecology Resources, 20, 2019, Page(s) 40-53, ISSN 1755-098X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/1755-0998.13056