Author
Listed:
- Pierre‐louis Stenger
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Audrey Léopold
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Kelly Dinh
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Pierre Mournet
(UMR AGAP - Amélioration génétique et adaptation des plantes méditerranéennes et tropicales - Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement - INRAE - Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement - Institut Agro Montpellier - Institut Agro - Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement - UM - Université de Montpellier, Cirad-BIOS - Département Systèmes Biologiques - Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement)
- Nadia Robert
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Julien Drouin
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Jacques Wamejonengo
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Sylvie Russet
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
- Thomas Ibanez
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien, UMR AMAP - Botanique et Modélisation de l'Architecture des Plantes et des Végétations - Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement - CNRS - Centre National de la Recherche Scientifique - IRD [Occitanie] - Institut de Recherche pour le Développement - INRAE - Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement - UM - Université de Montpellier)
- Laurent Maggia
(UMR AGAP - Amélioration génétique et adaptation des plantes méditerranéennes et tropicales - Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement - INRAE - Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement - Institut Agro Montpellier - Institut Agro - Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement - UM - Université de Montpellier, Cirad-BIOS - Département Systèmes Biologiques - Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement)
- Fabian Carriconde
(IAC - Institut Agronomique Néo-Calédonien, Equipe Sol & Végétation (SolVeg) - IAC - Institut Agronomique Néo-Calédonien)
Abstract
Soil health and One Health are global concerns, necessitating the development of refined indicators for effective monitoring. In response, we present the Anaconda R Package, a novel tool designed to enhance the analysis of eDNA data for biomonitoring purposes. Employing a combination of different approaches, this package allows for a comprehensive investigation of species abundance and community composition under diverse conditions. This study applied the Anaconda package to examine the impact of two types of duration fire-fallow cropping systems, using natural forests as a reference, on soil fungal and bacterial communities in Mare ´Island (New Caledonia). Condition-specific taxa were identified, particularly pathogenic fungi and bacteria, demonstrating the importance of long-term fallowing efforts. Notably, this package also revealed the potential contributions of beneficial soil microbes, including saprophytes and plant-endophyte fungi, in suppressing soil-borne pathogens. Over-represented microbial ASVs associated with both plant and animal pathogens, including those of potential concern for human health, were identified. This underscores the importance of maintaining intrinsic balance for effective disease suppression. Importantly, the advanced analytical and statistical methods offered by this package should be harnessed to comprehensively investigate the effects of agricultural practice changes on soil health within the One Health framework. Looking ahead, the application of this method extends beyond the realm of One Health, offering valuable insights into various ecological scenarios. Its versatility holds promise for elucidating complex interactions and dynamics within ecosystems. By leveraging this tool, researchers can explore the broader implications of agricultural practice modifications, facilitating informed decisions and sustainable environmental management.
Suggested Citation
Pierre‐louis Stenger & Audrey Léopold & Kelly Dinh & Pierre Mournet & Nadia Robert & Julien Drouin & Jacques Wamejonengo & Sylvie Russet & Thomas Ibanez & Laurent Maggia & Fabian Carriconde, 2025.
"Advancing biomonitoring of eDNA studies with the Anaconda R package: Integrating soil and One Health perspectives in the face of evolving traditional agriculture practices,"
Post-Print
hal-04904826, HAL.
Handle:
RePEc:hal:journl:hal-04904826
DOI: 10.1371/journal.pone.0311986
Note: View the original document on HAL open archive server: https://hal.inrae.fr/hal-04904826v1
Download full text from publisher
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