Evaluation of two short overlapping rbcL markers for diatom metabarcoding of environmental samples: Effects on biomonitoring assessment and species resolution

Autor: Rosa Trobajo, David Mann, Javier Pérez Burillo

Publikováno v: IRTA Pubpro. Open Digital Archive
Institut de Recerca i Tecnologia Agroalimentàries (IRTA)

Two short diatom rbcL barcodes, 331-bp and 263-bp in length, have frequently been used in diatom metabarcoding studies. They overlap in a common 263-bp region but differ in the presence or absence of a 68-bp tail at the 5′ end. Though the effective

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3d05336dbaa3011372872720ff59187f
http://hdl.handle.net/20.500.12327/1891

DNA metabarcoding reveals differences in distribution patterns and ecological preferences among genetic variants within some key freshwater diatom species

Autor: Manel Leira, Rosa Trobajo, Javier Pérez-Burillo, David G. Mann, François Keck, Frédéric Rimet, Javier Sigró

Publikováno v: Science of the Total Environment
Science of the Total Environment, Elsevier, 2021, 798, pp.149029. ⟨10.1016/j.scitotenv.2021.149029⟩
IRTA Pubpro. Open Digital Archive
Institut de Recerca i Tecnologia Agroalimentàries (IRTA)

Our study evaluates differences in the distribution and ecology of genetic variants within several ecologically important diatom species that are also key for Water Framework Directive monitoring of European rivers: Fistulifera saprophila (FSAP), Ach

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7e6642b5b292f1aafd7deb3362afb8c8
https://hal.inrae.fr/hal-03424509

Species sensitivity analysis as a tool for interpreting diatom metabarcoding for WFD bioassessment

Autor: Valentin Vasselon, Frédéric Rimet, David G. Mann, Agnès Bouchez, Rosa Trobajo, Javier Pérez Burillo

Publikováno v: ARPHA Conference Abstracts 4: e64959

Recent metabarcoding work in European rivers, including our own studies of Mediterranean rivers in Catalonia (Pérez-Burillo et al. 2020), has shown promising agreement between morphology- (LM) and DNA-based (HTS) assessments of diatom periphyton for

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::955de9bed748a83cb5b0234a84400a5a
https://zenodo.org/record/4600036

The Fellowship of the Ring Test: DNAqua-Net WG2 initiative to compare diatom metabarcoding protocols used in routine freshwater biomonitoring for standardisation

Autor: Laure Apothéloz-Perret-Gentil, Martyn Kelly, Valentin Vasselon, Cécile Chardon, Matthieu Lewis, Clémence Genthon, Susanna Theroux, Andreia Mortágua, Tina Elersek, Juliane Bettig, Jan Pawlowski, Erik Pilgrim, Camilla Capelli, Marina Moletta-Denat, Rosa Trobajo, Ana Baričević, Kálmán Tapolczai, Salomé F.P. Almeida, David Wanless, Kevin K. Beentjes, Jonathan Warren, Kerry Walsh, Maša Zupančič, Jonathan Porter, Frédéric Rimet, Jonas Zimmermann, Marlen Vasquez Hadjilyra, Melanie Hurtz, Louis Jacas, Karmen Stanic, Martin Pfannkuchen, Maria Kahlert, Berry van der Hoorn, Agnès Bouchez, Éva Ács, Federica Mauri, Javier Pérez Burillo, Mónika Duleba, Bonnie Bailet, Karl Andree, Jan Macher, Panayiota Pissaridou

Publikováno v: ARPHA Conference Abstracts 4: e65142

During the past decade genetic approaches have been developed to monitor biodiversity in aquatic ecosystems. These enable access to taxonomic and genetic information from biological communities using DNA from environmental samples (e.g. water, biofil

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::58be12cef76001ae5aeb1d0df7cca884
https://zenodo.org/record/4600150

New molecular methods to assess biodiversity. Potentials and pitfalls of DNA metabarcoding: a workshop report

Autor: Tomas Roslin, Maša Zupančič, Raquel González, Jasmina Sargac, Jasmina Kamberović, Cecilia Di Bernardi, Valentin Vasselon, Judit Fekete, Norbert Häubner, Olle Terenius, Jasna Hanjalić, Carlotta Meriggi, Kálmán Tapolczai, James Orr, Verena Dully, Alexander M. Weigand, Ilkka Nousiainen, Javier Pérez Burillo, Eirini Gratsia, Isa Wallin, Patrik Bohman, Athina Papatheodoulou, Andrea González, Muhammad Shahbaz, Bonnie Bailet, Maria Kahlert, Katarina Tosic, Sari Peura, Cintia Organo Quintana, David Castro, Malin Strand, Anders Alfjorden, Florian Leese, Pier Luigi Buttigieg, Katherine Apunte-Ramos, Jan Macher, Larissa Frühe, Ann-Marie Kelly, Sarah Ørberg

Publikováno v: Kahlert, M, Alfjorden, A, Apunte-Ramos, K, Bailet, B, Burillo, J P, Gonzalez, A G C, Castro, D, Bernardi, C D, Dully, V, Fekete, J, Frühe, L, González, R, Gratsia, E, Hanjalić, J, Kamberović, J, Kelly, A-M, Meriggi, C, Nousiainen, I, Ørberg, S B, Orr, J, O. Quintana, C, Papatheodoulou, A, Sargac, J, Shahbaz, M, Tapolczai, K, Tosic, K, Wallin, I, Zupančič, M, Bohman, P, Buttigieg, P L, Häubner, N, Leese, F, Niklas Macher, J, Peura, S, Roslin, T, Strand, M, Terenius, O, Vasselon, V & Weigand, A M 2019, ' New molecular methods to assess biodiversity : Potentials and pitfalls of DNA metabarcoding: a workshop report ', Research Ideas and Outcomes, bind 5, s. e38915 . https://doi.org/10.3897/rio.5.e38915
Research Ideas and Outcomes, Vol 5, Iss, Pp 1-9 (2019)

This report presents the outcome of the joint work of PhD students and senior researchers working with DNA-based biodiversity assessment approaches with the goal to facilitate others the access to definitions and explanations about novel DNA-based me

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8199631c8cc35999e9ed0ec84d0d84ca
https://zenodo.org/record/3369498