Modern Approaches to the Monitoring of BiOdiversity

Informations projet

MAMBO

N° de convention de subvention: 101060639

DOI

10.3030/101060639

Projet clôturé

Date de signature de la CE 2 Juin 2022

Date de début 1 Septembre 2022

Date de fin 31 Août 2026

Financé au titre de

• Food, Bioeconomy Natural Resources, Agriculture and Environment

Coût total

€ 3 703 783,75

Contribution de l’UE

€ 3 703 783,00

Coordonné par

AARHUS UNIVERSITET
Denmark

CORDIS fournit des liens vers les livrables publics et les publications des projets HORIZON.

Les liens vers les livrables et les publications des projets du 7e PC, ainsi que les liens vers certains types de résultats spécifiques tels que les jeux de données et les logiciels, sont récupérés dynamiquement sur OpenAIRE .

Livrables

Data sets, microdata, etc (1)

High-resolution habitat type maps for French Mediterranean region

(High-resolution habitat type maps for French Mediterranean region)

Documents, reports (15)

Project identity, promotional materials pack and website running

(Project identity, promotional materials pack and website running)

Strategy for engagement document

(Strategy for engagement document)

Review of habitat condition metrics used across the EU, suitable for RS

(Review of habitat condition metrics used across the EU, suitable for RS)

Guidelines for data standards and technical specifications of MAMBO tools

(Guidelines for data standards and technical specifications of MAMBO tools )

Risk Management Plan

(Risk Management Plan)

Report on stakeholder mapping and network analysis

(Report on stakeholder mapping and network analysis)

Strategy for establishing a European wide consortium for the further development and deployment of image (T3.1) and sound (T3.2) recognition for European Animals and Plants

(Strategy for establishing a European wide consortium for the further development and deployment of image (T3.1) and sound (T3.2) recognition for European Animals and Plants )

Report on optimal positioning and linkage of MAMBO tools to KCBD and RI landscape

(Report on optimal positioning and linkage of MAMBO tools to KCBD and RI landscape )

Report of methods for deriving habitat condition metrics with LiDAR and drone data

(Report of methods for deriving habitat condition metrics with LiDAR and drone data )

Report on stakeholder needs

(Report on stakeholder needs)

Image and sound recognition models for European animals, taxonomic & spatial coverage

(Image and sound recognition models for European animals, taxonomic & spatial coverage)

Deliver framework and its technical implementation of MAMBO tools and technology supporting EU Pollinator Initiative

(Deliver framework and its technical implementation of MAMBO tools and technology supporting EU Pollinator Initiative )

Assessment of interoperability and maturity for upscaling habitat condition metrics

(Assessment of interoperability and maturity for upscaling habitat condition metrics )

Plan for the Exploitation and Dissemination of Results

(Plan for the Exploitation and Dissemination of Results )

Project Management and Quality Assurance Plan (Updated each reporting period)

(Project Management and Quality Assurance Plan (Updated each reporting period))

Other (5)

Open-source deep learning framework for habitat extent mapping - version 1.0

(Open-source deep learning framework for habitat extent mapping - version 1.0)

Open-source deep learning framework for habitat extent mapping - version 2.0

(Open-source deep learning framework for habitat extent mapping - version 2.0)

Example of Jupyter Notebook for LiDAR- or drone-derived habitat condition metrics (open-source web application)

(Example of Jupyter Notebook for LiDAR- or drone-derived habitat condition metrics (open-source web application))

Prototype workflow for deep learning to predict habitat condition metrics from LiDAR data; script and pre-trained deep neural networks available via GitHub

(Prototype workflow for deep learning to predict habitat condition metrics from LiDAR data; script and pre-trained deep neural networks available via GitHub )

Prototype workflow for deep learning to predict habitat condition metrics from drone data; script and pre-trained deep neural networks available via GitHub

(Prototype workflow for deep learning to predict habitat condition metrics from drone data; script and pre-trained deep neural networks available via GitHub )

Publications

Conference proceedings (13)

Challenges in Using AI-Based Citizen-Generated Plant Observations as Forensic Evidence in Biodiversity Investigations

Auteurs: Pierre Bonnet, Antoine Affouard, Mathias Chouet, Jean-Christophe Lombardo, Hugo Gresse, Thomas Paillot, Vanessa Hequet, Hervé Goëau, Alexis Joly
Publié dans: Biodiversity Information Science and Standards, Numéro 9.181619, 2025
Éditeur: Pensoft
DOI: 10.3897/BISS.9.181619

LifeCLEF 2025 teaser: challenges on species presence prediction and identification, and individual animal identification

Auteurs: Alexis Joly, Lukáš Picek, Stefan Kahl, Hervé Goëau, Lukáš Adam, Christophe Botella, Maximilien Servajean, Diego Marcos, Cesar Leblanc, Théo Larcher, Jiří Matas, Klára Janoušková, Vojtěch Čermák, Kostas Papafitsoros, Robert Planqué, Willem-Pier Vellinga, H
Publié dans: European Conference on Information Retrieval, ECIR 2025, Numéro LNCS, volume 15576, 2025
Éditeur: Springer
DOI: 10.1007/978-3-031-88720-8_57

Overview of LifeCLEF 2025: Challenges on Species Presence Prediction and Identification, and Individual Animal Identification

Auteurs: Lukáš Picek, Stefan Kahl, Hervé Goëau, Lukáš Adam, Théo Larcher, Cesar Leblanc, Maximilien Servajean, Klára Janoušková, Jiří Matas, Vojtěch Čermák, Kostas Papafitsoros, Robert Planqué, Willem-Pier Vellinga, Holger Klinck, Tom Denton, Juan Sebastián Cañas,
Publié dans: Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2025
Éditeur: Springer
DOI: 10.1007/978-3-032-04354-2_19

Mapping Biodiversity at Very-High Resolution in Europe

Auteurs: César Leblanc, Lukas Picek, Benjamin Deneu, Pierre Bonnet, Maximilien Servajean, Rémi Palard, Alexis Joly
Publié dans: 2025 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW), 2025, ISSN 2160-7516
Éditeur: IEEE
DOI: 10.1109/CVPRW67362.2025.00221

Insect Identification in the Wild: The AMI Dataset

Auteurs: Aditya Jain, Fagner Cunha, Michael James Bunsen, Juan Sebastián Cañas, Léonard Pasi, Nathan Pinoy, Flemming Helsing, JoAnne Russo, Marc Botham, Michael Sabourin, Jonathan Fréchette, Alexandre Anctil, Yacksecari Lopez, Eduardo Navarro, Filonila Perez Pimentel, Ana Cecilia Zamora, José Alejandro Ramirez Silva, Jonathan Gagnon, Tom August, Kim Bjerge, Alba Gomez Segura, Marc Bélisle, Yves Basset, Kent P. McFarland, David Roy, Toke Thomas Høye, Maxim Larrivée, David Rolnick
Publié dans: Lecture Notes in Computer Science, Computer Vision – ECCV 2024, 2024
Éditeur: Springer Nature Switzerland
DOI: 10.1007/978-3-031-72913-3_4

MALPOLON: A Framework for Deep Species Distribution Modeling

Auteurs: Larcher, T., Picek, L., Deneu, B., Lorieul, T., Servajean, M., & Joly, A.
Publié dans: Machine Vision for Earth Observation, 2024
Éditeur: arXiv
DOI: 10.48550/ARXIV.2409.18102

Synergizing Digital, Biological, and Participatory Sciences for Global Plant Species Identification: Enabling access to a worldwide identification service

Auteurs: Pierre Bonnet , Antoine A.A. Affouard, Jean-Christophe J.-C. Lombardo , Mathias Chouet , Hugo Gresse , Vanessa Hequet , Remi Palard , Maxime Fromholtz , Vincent Espitalier , Hervé H.G. Goëau , Benjamin Deneu , Christophe Botella , Joaquim Estopinan , Césa
Publié dans: Biodiversity Information Science and Standards, 2023, ISSN 2535-0897
Éditeur: Pensoft Publishers
DOI: 10.3897/BISS.7.112545

Lecture Notes in Computer Science

Auteurs: Alexis Joly, Hervé Goëau, Stefan Kahl, Lukáš Picek, Christophe Botella, Diego Marcos, Milan Šulc, Marek Hrúz, Titouan Lorieul, Sara Si Moussi, Maximilien Servajean, Benjamin Kellenberger, Elijah Cole, Andrew Durso, Hervé Glotin, Robert Planqué, Willem-Pie
Publié dans: ECIR 2023 LNCS proceedings, 2023, ISSN 0302-9743
Éditeur: Springer
DOI: 10.1007/978-3-031-28241-6_65

ChiroEcho: extending automated bat vocalisation classification beyond the learned taxonomy

Auteurs: Ghani B., Eversteijn W. , van Hirtum M., Cañas J.S. , Kalkman V.J., Stowell D. , and Baier A.L.
Publié dans: CV4Ecology Workshop, European Conference on Computer Vision (ECCV), 2026
Éditeur: arXiv
DOI: 10.48550/ARXIV.2608.18191

Clustering and novel class recognition: evaluating bioacoustic deep learning feature extractors

Auteurs: Vincent S. Kather, Burooj Ghani, Dan Stowell
Publié dans: Emerging Bioacousticians Days, 2025
Éditeur: arxiv logo
DOI: 10.48550/ARXIV.2504.06710

Lecture Notes in Computer Science

Auteurs: Alexis Joly, Hervé Goëau, Stefan Kahl, Lukáš Picek, Christophe Botella, Diego Marcos, Milan Šulc, Marek Hrúz, Titouan Lorieul, Sara Si Moussi, Maximilien Servajean, Benjamin Kellenberger, Elijah Cole, Andrew Durso, Hervé Glotin, Robert Planqué, Willem-Pie
Publié dans: Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2023, ISSN 0302-9743
Éditeur: Springer
DOI: 10.1007/978-3-031-42448-9_27

GeoPl@ntNet: A High-Resolution Biodiversity Mapping Platform for Environmental Forensics

Auteurs: Rémi Palard, César Leblanc, Lukas Picek, Benjamin Deneu, Thomas Paillot, Antoine Affouard, Mathias Chouet, Maximilien Servajean, Pierre Bonnet, Alexis Joly
Publié dans: Biodiversity Information Science and Standards, Numéro 9.e181374, 2025
Éditeur: Pensoft
DOI: 10.3897/BISS.9.181374

Comparison between transformers and convolutional models for fine-grained classification of insects

Auteurs: Rita Pucci, Vincent J. Kalkman, Dan Stowell
Publié dans: Workshop Camera Traps, AI and Ecology, 2023
Éditeur: Computer Vision Group Jena
DOI: 10.48550/arXiv.2307.11112

Other (8)

The GeoLifeCLEF 2023 Dataset to evaluate plant species distribution models at high spatial resolution across Europe

Auteurs: Christophe Botella, Benjamin Deneu, Diego Marcos, Maximilien Servajean, Joaquim Estopinan, et al..
Publié dans: ArXiv preprint - Populations and Evolution, 2023, ISSN 2331-8422
Éditeur: ArXiv.org
DOI: 10.48550/arXiv.2308.05121

D4.10 Demonstrator pipeline for habitat condition metric extraction and parallel and distributed computing in a cloud environment

Auteurs: W. Daniel Kissling, Jinhu Wang, Yifang Shi
Publié dans: 2026
Éditeur: Pensoft Publishers
DOI: 10.3897/ARPHAPREPRINTS.E190520

A General Method for Detection and Segmentation of Terrestrial Arthropods in Images

Auteurs: Asger Svenning, Guillaume Mougeot, Jamie Alison, Daphne Chevalier, Nisa Luise Chavez Molina, Song-Quan Ong, Kim Bjerge, Juli Carrillo, Toke Thomas Hoeye, Quentin Geissmann
Publié dans: 2025
Éditeur: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.04.08.647223

GeoPlant: Spatial Plant Species Prediction Dataset

Auteurs: Lukas Picek, Christophe Botella, Maximilien Servajean, César Leblanc, Rémi Palard, Théo Larcher, Benjamin Deneu, Diego Marcos, Pierre Bonnet, Alexis Joly
Publié dans: 2024
Éditeur: arxiv
DOI: 10.48550/ARXIV.2408.13928

Modelling Species Distributions with Deep Learning to Predict Plant Extinction Risk and Assess Climate Change Impacts

Auteurs: Joaquim Estopinan, Pierre Bonnet, Maximilien Servajean, François Munoz, Alexis Joly
Publié dans: 2024
Éditeur: Arxiv
DOI: 10.48550/arXiv.2401.05470

InsectSet459: an open dataset of insect sounds for bioacoustic machine learning

Auteurs: Marius Faiß, Burooj Ghani, Dan Stowell
Publié dans: arXiv, 2025
Éditeur: arXiv
DOI: 10.48550/ARXIV.2503.15074

D5.3 Technical training workshop

Auteurs: W. Daniel Kissling, France Gerard, Pierre Bonnet
Publié dans: 2026
Éditeur: Pensoft Publishers
DOI: 10.3897/ARPHAPREPRINTS.E200563

D6.2 Geospatial data products of habitat metrics derived from LiDAR point clouds at national scales for multiple countries and time periods, findable and accessible through data portals, relevant catalogues or digital repositories

Auteurs: W. Daniel Kissling, Jinhu Wang
Publié dans: 2026
Éditeur: Pensoft Publishers
DOI: 10.3897/ARPHAPREPRINTS.E188540

Peer reviewed articles (23)

Cross-platform forest understanding: A multi-platform synergistic training framework for generalized forest point cloud segmentation

Auteurs: Jiang, J., Shen, Y., Wang, J., Kissling, W.D., Hollaus, M., Su, H., Wang, J., Ferreira, V., Pfeifer, N.
Publié dans: Remote Sensing of Environment, Numéro 115467, 2026, ISSN 0034-4257
Éditeur: Elsevier BV
DOI: 10.5281/ZENODO.17465839

Modern Approaches to the Monitoring of Biоdiversity (MAMBO)

Auteurs: Høye TT, August T, Balzan MV, Biesmeijer K, Bonnet P, Breeze TD, Dominik C, Gerard F, Joly A, Kalkman V, Kissling WD, Metodiev T, Moeslund J, Potts S, Roy DB, Schweiger O, Senapathi D, Settele J, Stoev P, Stowell D
Publié dans: Research Ideas and Outcomes, Numéro 9, 2023, ISSN 2367-7163
Éditeur: Pensoft Publishers
DOI: 10.3897/RIO.COLL.223

Towards edge processing of images from insect camera traps

Auteurs: Kim Bjerge, Henrik Karstoft, Toke T. Høye
Publié dans: Remote Sensing in Ecology and Conservation, 2025, ISSN 2056-3485
Éditeur: Wiley
DOI: 10.1002/RSE2.70007

Adapting a Globally-Trained Plant Identification Model for Multi-Species Detection of Invasive Alien Plants in Roadside Imagery

Auteurs: Hervé Goëau, Vincent Espitalier, Jean-Christophe Lombardo, Christophe Botella, Toke Thomas Høye, Mads Dyrmann, Pierre Bonnet, Alexis Joly
Publié dans: Biodiversity Information Science and Standards, Numéro 10, 2026, ISSN 2535-0897
Éditeur: Pensoft Publishers
DOI: 10.3897/BISS.10.183020

Data from three camera trapping pilots in the Amsterdam Water Supply Dunes of the Netherlands

Auteurs: Julian C. Evans, Rotem Zilber, W. Daniel Kissling
Publié dans: Data in Brief, Numéro 54, 2025, ISSN 2352-3409
Éditeur: Elsevier BV
DOI: 10.1016/J.DIB.2024.110544

PlantCLEF 2025: Advancing AI-based Multi-Species Plant Identification in Vegetation Quadrats for Supporting Environmental Law and Biodiversity Monitoring

Auteurs: Giulio Martellucci, Hervé Goëau, Pierre Bonnet, Fabrice Vinatier, Alexis Joly
Publié dans: Biodiversity Information Science and Standards, Numéro 9, 2025, ISSN 2535-0897
Éditeur: Pensoft Publishers
DOI: 10.3897/BISS.9.181733

Twelve quick tips for applying deep learning to animal sounds

Auteurs: Burooj Ghani, Anne Leonie Baier, Vincent J. Kalkman, Dan Stowell
Publié dans: PLOS Computational Biology, Numéro 22, 2026, ISSN 1553-7358
Éditeur: Public Library of Science (PLoS)
DOI: 10.1371/JOURNAL.PCBI.1014604

Laserfarm – A high-throughput workflow for generating geospatial data products of ecosystem structure from airborne laser scanning point clouds

Auteurs: Kissling, W.D.; Shi, Y.; Koma, Z.; Meijer, C.; Ku, O.; Nattino, F.; Seijmonsbergen, A.C.; Grootes, M.W.
Publié dans: Ecological Informatics, Numéro v.72, 2022, ISSN 1574-9541
Éditeur: Elsevier
DOI: 10.1016/J.ECOINF.2022.101836

From Presence‐Only to Abundance Species Distribution Models Using Transfer Learning

Auteurs: Benjamin Bourel, Alexis Joly, Maximilien Servajean, Simon Bettinger, José Antonio Sanabria‐Fernández, David Mouillot
Publié dans: Ecology Letters, Numéro 28, 2025, ISSN 1461-023X
Éditeur: Wiley
DOI: 10.1111/ELE.70177

Diversity and Distributions

Auteurs: W. Daniel Kissling, Yifang Shi
Publié dans: Diversity and Distributions, Numéro v. 29, 2023, ISSN 1366-9516
Éditeur: Wiley
DOI: 10.1111/ddi.13760

Hierarchical classification of insects with multitask learning and anomaly detection

Auteurs: Bjerge, Kim; Geissmann, Quentin; Alison, Jamie; Mann, Hjalte M.R.; Høye, Toke Thomas; Dyrmann, Mads; Karstoft, Henrik
Publié dans: Ecological Informatics, Numéro v.77, 2023, ISSN 1574-9541
Éditeur: Elsevier BV
DOI: 10.1016/J.ECOINF.2023.102278

LiDAR-derived dataset of extracted trees and shrubs from AHN4 airborne laser scanning in the Oostvaardersplassen wetland, the Netherlands

Auteurs: Jinhu Wang, W. Daniel Kissling
Publié dans: Data in Brief, Numéro 68, 2026, ISSN 2352-3409
Éditeur: Elsevier BV
DOI: 10.1016/J.DIB.2026.113169

Accurate detection and identification of insects from camera trap images with deep learning

Auteurs: Kim Bjerge; Jamie Alison; Mads Dyrmann; Carsten Eie Frigaard; Hjalte M. R. Mann; Toke Thomas Høye
Publié dans: PLOS Sustainability and Transformation, 2023, ISSN 2767-3197
Éditeur: Public Library of Science
DOI: 10.1101/2022.10.25.513484

A list of sound producing European grasshoppers and the availability of their sounds in Xeno-canto

Auteurs: Baudewijn Odé, Faiß Marius, Burooj Ghani, Axel Hochkirch, Robert Planqué, Willem-Pier Vellinga, Vincent J. Kalkman
Publié dans: Articulata, 2025, ISSN 0171-4090
Éditeur: Deutsche Gesellschaft für Orthopterologie
DOI: 10.62323/A100191

Applying the maximum entropy principle to neural networks enhances multi‐species distribution models

Auteurs: Maxime Ryckewaert, Diego Marcos, Christophe Botella, Maximilien Servajean, Pierre Bonnet, Alexis Joly
Publié dans: Methods in Ecology and Evolution, Numéro 17, 2026, ISSN 2041-210X
Éditeur: Wiley
DOI: 10.1111/2041-210X.70262

Fully automatic extraction of morphological traits from the web: Utopia or reality?

Auteurs: Marcos, D., van de Vlasakker, R., Athanasiadis, I. N., Bonnet, P., Goëau, H., Joly, A., ... & Panousis, K. P.
Publié dans: Applications in Plant Sciences, Numéro 13(3), 2025, ISSN 2168-0450
Éditeur: Wiley
DOI: 10.1002/APS3.70005

Spaceborne Canopy Height Products Should Be Complemented With Airborne Laser Scanning Data: Toward a European Canopy Height Model

Auteurs: Vítězslav Moudrý, Ruben Remelgado, Matthias Forkel, Michele Torresani, Gaia Vaglio Laurin, Eliška Šárovcová, Virginia E. Garcia Millan, Fabian Jörg Fischer, Tommaso Jucker, Michal Gallay, Patrick Kacic, Christopher R. Hakkenberg, Žiga Kokalj, Krzysztof Stereńczak, Yousef Erfanifard, Duccio Rocchini, Jiří Prošek, Stephanie Roilo, Kateřina Gdulová, Anna F. Cord, Michela Perrone, Juan Alberto Molina‐Valero, Jiří Šmída, Peter Surový, Zlatica Melichová, Marco Malavasi, Rudolf Urban, Martin Štroner, Dominik Seidel, Szilárd Szabó, László Bertalan, Anette Eltner, Roberto Cazzolla Gatti, Ján Kaňuk, Vojtěch Barták, Daniel Franke, Benjamin Brede, Qian Song, Mikhail Urbazaev, W. Daniel Kissling
Publié dans: Earth and Space Science, Numéro 13, 2026, ISSN 2333-5084
Éditeur: American Geophysical Union (AGU)
DOI: 10.1029/2025EA004544

A deep learning pipeline for time-lapse camera monitoring of insects and their floral environments

Auteurs: Kim Bjerge, Henrik Karstoft, Hjalte M.R. Mann, Toke T. Høye
Publié dans: Ecological Informatics, Numéro 84, 2024, ISSN 1574-9541
Éditeur: Elsevier BV
DOI: 10.1016/J.ECOINF.2024.102861

Adapting a global plant identification model to detect invasive alien plant species in high-resolution road side images

Auteurs: Vincent Espitalier, Jean-Christophe Lombardo, Hervé Goëau, Christophe Botella, Toke Thomas Høye, Mads Dyrmann, Pierre Bonnet, Alexis Joly
Publié dans: Ecological Informatics, Numéro 89, 2025, ISSN 1574-9541
Éditeur: Elsevier BV
DOI: 10.1016/J.ECOINF.2025.103129

AI Species Identification Using Image and Sound Recognition for Citizen Science, Collection Management and Biomonitoring: From Training Pipeline to Large-Scale Models

Auteurs: Laurens Hogeweg, Ni Yan, Django Brunink, Khadija Ezzaki-Chokri, Wilfred Gerritsen, Rita Pucci, Burooj Ghani, Dan Stowell, Vincent Kalkman
Publié dans: Biodiversity Information Science and Standards, Numéro 8, 2024, ISSN 2535-0897
Éditeur: Pensoft Publishers
DOI: 10.3897/BISS.8.136839

Adapting a global plant identification model to detect invasive alien plant species in high-resolution road side images

Auteurs: Vincent Espitalier, Jean-Christophe Lombardo, Hervé Goëau, Christophe Botella, Toke Thomas Høye, Mads Dyrmann, Pierre Bonnet, Alexis Joly
Publié dans: Ecological Informatics, Numéro 89, 2026, ISSN 1574-9541
Éditeur: Elsevier BV
DOI: 10.1016/J.ECOINF.2025.103129

A workflow for extracting ungulate trails in wetlands using 3D point clouds obtained from airborne laser scanning

Auteurs: Jinhu Wang, Perry Cornelissen, W. Daniel Kissling
Publié dans: Frontiers in Remote Sensing, Numéro 6, 2025, ISSN 2673-6187
Éditeur: Frontiers Media SA
DOI: 10.3389/FRSEN.2025.1599128

Performance of Computer Vision Algorithms for Fine‐Grained Classification Using Crowdsourced Insect Images

Auteurs: Rita Pucci, Vincent J. Kalkman, Dan Stowell
Publié dans: IET Computer Vision, Numéro 19, 2025, ISSN 1751-9632
Éditeur: Institution of Engineering and Technology (IET)
DOI: 10.1049/CVI2.70006

Thesis and dissertations (1)

A predictive approach to determining the joint conservation status of species | Une approche prédictive de la détermination du statut de conservation conjoint des espèces

Auteurs: Joaquim Estopinan
Publié dans: HAL, 2024
Éditeur: HAL CCSD