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[hal-04175404] Worldwide diversity of endophytic fungi and insects associated with dormant tree twigs
Abstract International trade in plants and climate change are two of the main factors causing damaging tree pests (i.e. fungi and insects) to spread into new areas. To mitigate these risks, a large-scale assessment of tree-associated fungi and insects is needed. We present records of endophytic fungi and insects in twigs of 17 angiosperm and gymnosperm genera, from 51 locations in 32 countries worldwide. Endophytic fungi were characterized by high-throughput sequencing of 352 samples from 145 tree species in 28 countries. Insects were reared from 227 samples of 109 tree species in 18 countries and sorted into taxonomic orders and feeding guilds. Herbivorous insects were grouped into morphospecies and were identified using molecular and morphological approaches. This dataset reveals the diversity of tree-associated taxa, as it contains 12,721 fungal Amplicon Sequence Variants and 208 herbivorous insect morphospecies, sampled across broad geographic and climatic gradients and for many tree species. This dataset will facilitate applied and fundamental studies on the distribution of fungal endophytes and insects in trees.
ano.nymous@ccsd.cnrs.fr.invalid (Iva Franić) 02 Aug 2023
https://hal.inrae.fr/hal-04175404v1
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[hal-04171563] Climate, host and geography shape insect and fungal communities of trees
Abstract Non-native pests, climate change, and their interactions are likely to alter relationships between trees and tree-associated organisms with consequences for forest health. To understand and predict such changes, factors structuring tree-associated communities need to be determined. Here, we analysed the data consisting of records of insects and fungi collected from dormant twigs from 155 tree species at 51 botanical gardens or arboreta in 32 countries. Generalized dissimilarity models revealed similar relative importance of studied climatic, host-related and geographic factors on differences in tree-associated communities. Mean annual temperature, phylogenetic distance between hosts and geographic distance between locations were the major drivers of dissimilarities. The increasing importance of high temperatures on differences in studied communities indicate that climate change could affect tree-associated organisms directly and indirectly through host range shifts. Insect and fungal communities were more similar between closely related vs. distant hosts suggesting that host range shifts may facilitate the emergence of new pests. Moreover, dissimilarities among tree-associated communities increased with geographic distance indicating that human-mediated transport may serve as a pathway of the introductions of new pests. The results of this study highlight the need to limit the establishment of tree pests and increase the resilience of forest ecosystems to changes in climate.
ano.nymous@ccsd.cnrs.fr.invalid (Iva Franić) 17 May 2024
https://hal.inrae.fr/hal-04171563v1
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[hal-04672656] Building integrated plant health surveillance: a proactive research agenda for anticipating and mitigating disease and pest emergence
In an era marked by rapid global changes, the reinforcement and modernization of plant health surveillance systems have become imperative. Sixty-five scientists present here a research agenda for an enhanced and modernized plant health surveillance to anticipate and mitigate disease and pest emergence. Our approach integrates a wide range of scientific fields (from life, social, physical and engineering sciences) and identifies the key knowledge gaps, focusing on anticipation, risk assessment, early detection, and multi-actor collaboration. The research directions we propose are organized around four complementary thematic axes. The first axis is the anticipation of pest emergence, encompassing innovative forecasting, adaptive potential, and the effects of climatic and cropping system changes. The second axis addresses the use of versatile broad-spectrum surveillance tools, including molecular or imaging diagnostics supported by artificial intelligence, and monitoring generic matrices such as air and water. The third axis focuses on surveillance of known pests from new perspectives, i.e., using novel approaches to detect known species but also anticipating and detecting, within a species, the populations or genotypes that pose a higher risk. The fourth axis advocates the management of plant health as a commons through the establishment of multi-actor and cooperative surveillance systems for long-term data-driven alert systems and information dissemination. We stress the importance of integrating data and information from multiple sources through open science databases and metadata, alongside developing methods for interpolating and extrapolating incomplete data. Finally, we advocate an Integrated Health Surveillance approach in the One Health context, favoring tailored and versatile solutions to plant health problems and recognizing the interconnected risks to the health of plants, humans, animals and the environment, including food insecurity, pesticide residues, environmental pollution and alterations of ecosystem services.
ano.nymous@ccsd.cnrs.fr.invalid (S. Soubeyrand) 26 Aug 2024
https://hal.inrae.fr/hal-04672656v1
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[hal-03846951] A large-scale dataset reveals taxonomic and functional specificities of wild bee communities in urban habitats of Western Europe
Wild bees are declining, mainly due to the expansion of urban habitats that have led to land-use changes. Effects of urbanization on wild bee communities are still unclear, as shown by contrasting reports on their species and functional diversities in urban habitats. To address this current controversy, we built a large dataset, merging 16 surveys carried out in 3 countries of Western Europe during the past decades, and tested whether urbanization influences local wild bee taxonomic and functional community composition. These surveys encompassed a range of urbanization levels, that were quantified using two complementary metrics: the proportion of impervious surfaces and the human population density. Urban expansion, when measured as a proportion of impervious surfaces, but not as human population density, was significantly and negatively correlated with wild bee community species richness. Taxonomic dissimilarity of the bee community was independent of both urbanization metrics. However, occurrence rates of functional traits revealed significant differences between lightly and highly urbanized communities, for both urbanization metrics. With higher human population density, probabilities of occurrence of above-ground nesters, generalist and small species increased. With higher soil sealing, probabilities of occurrence of above-ground nesters, generalists and social bees increased as well. Overall, these results, based on a large European dataset, suggest that urbanization can have negative impacts on wild bee diversity. They further identify some traits favored in urban environments, showing that several wild bee species can thrive in cities.
ano.nymous@ccsd.cnrs.fr.invalid (Arthur Fauviau) 10 Nov 2022
https://hal.science/hal-03846951v1
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[hal-02799903] Natural history of the Processionary Moths (Thaumetopoea spp.): New insights in relation to climate change
It is difficult to find a genus of Lepidoptera showing the high variability of life history traits observed in Thaumetopoea. There are typical summer feeding close to winter feeding species, and in one special case a recent switch has been detected even within one species, the pine processionary moth, indicating that the natural history traits are constantly evolving at a fast rate. There are species adapted to cold conditions of high mountains and high latitude close to truly Mediterranean and sub-desert region species. All species have gregarious behaviour as larva and are protected against vertebrate predators by urticating setae.
ano.nymous@ccsd.cnrs.fr.invalid (Andrea Battisti) 05 Jun 2020
https://hal.inrae.fr/hal-02799903v1
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[hal-02633238] Ghost mtDNA haplotypes generated by fortuitous NUMTs can deeply disturb infra-specific genetic diversity and phylogeographic pattern
Nuclear copies of mitochondrial DNA (NUMTs or mitochondrial pseudogenes) are known to impede the detection of interspecific genetic diversity. But the effect of these artifacts on phylogeographic reconstruction remains under evaluated. In this study, we analysed a set of 115 sequences of a fragment of the cytochrome c oxidase subunit I gene (COI) of Monochamus galloprovincialis (Coleoptera, Cerambycidae) for which overlapping signals in sequencing electropherograms were observed. Comparison of full and corrected ‘ambiguities-free’ data sets reveals the prevalence of numerous supernumerary haplotypes that deeply affect genetic diversity indices and phylogeographic patterns of this species. Slightly divergent pseudogenes were recovered in 49 of the 115 sequences. These results highlight the potential misdetection of NUMTs using current control methods and the consequences on phylogeographic structure. To test the frequency of unintended amplification of NUMTs, a cloning was performed on 15 individuals. An average of 3.72 and a maximum of six paralogous sequences with different levels of divergence were identified among individual cloned. Within individual pairwise distance between paralogs raised 1.4%. This work calls for awareness to the presence of undetected NUMTs within mitochondrial data sets, especially at infra-specific level.
ano.nymous@ccsd.cnrs.fr.invalid (Julien Haran) 27 May 2020
https://hal.inrae.fr/hal-02633238v1
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[anses-04855184] Avis de L'Anses relatif à « la catégorisation de Trichoferus campestris »
Dans le cadre de la surveillance des organismes réglementés ou émergents (SORE), un dispositif de piégeage a été déployé par la DGAL en 2021 avec l’appui de l’INRAE et de l’ONF. L’objectif de ce dispositif est d’effectuer une surveillance passive dans les sites d’entrée potentiels (ports, aéroports, marché d’intérêt national (MIN) des organismes réglementés ou émergents. Ce piégeage est qualifié de « large spectre » car il peut concerner plusieurs filières de production suivies dans le cadre de la SORE (forêts, jardins et espaces verts et infrastructures (JEVI), arboriculture fruitière) en ciblant cependant majoritairement les insectes coléoptères des ligneux. Les principes de la surveillance mise en œuvre s’appuient sur les résultats précédemment acquis dans le cadre du projet PORTRAP, utilisant des pièges génériques multi-composés pour la détection précoce d’insectes exotiques xylophages dans les sites potentiels d’entrée sur le territoire national. Les pièges ont été disposés sur 13 sites (7 ports maritimes, 1 port fluvial, 4 aéroports et 1 marché national) dispersés sur le territoire (France continentale). Au total 9279 individus appartenant à 110 espèces différentes ont été capturés. Aucune espèce d’insecte de quarantaine prioritaire n’a été piégée. En revanche, la présence d’individus appartenant à 8 espèces de coléoptères exotiques, a priori non répandues sur notre territoire, des familles Cerambycidae et Curculionidae (sous-familles des Scolytinae et Platypodinae) a été relevée. Les 8 espèces d’insectes exotiques sont les suivantes : Cerambycidae : Cordylomera spinicornis (Fabricius, 1775), Trichoferus campestris (Faldermann, 1835), Xylotrechus chinensis (Chevrolat, 1852), Xylotrechus stebbingi Gahan, 1906 ; Curculionidae : Amasa sp. near truncata, Euplatypus hintzii (Schaufuss, 1897), Euplatypus parallelus (Fabricius, 1801), Xyleborus affinis Eichhoff, 1868. Ainsi, il est demandé la réalisation d’une catégorisation des 8 espèces d’insectes exotiques en utilisant les critères de risque listés ci-dessous, afin de déterminer leur nuisibilité et de prioriser sur cette base la réalisation d’analyses de risque portant sur ces insectes. Critères de risque a. Caractéristiques des espèces - Cycle biologique, - Plantes hôtes, - Symptômes, - Aires de distribution, - Nuisibilité dans ces aires de distribution, - Probabilité d’entrée et de transfert vers les plantes hôtes. b. Probabilité d’établissement - Présence d’hôtes appropriés, conditions climatiques et autres facteurs abiotiques favorables à l’établissement des 8 espèces d’insecte dans la zone ARP, - Identification d’ennemis naturels potentiels dans la zone ARP, et d’autres facteurs biotiques ainsi que les pratiques culturales pouvant contribuer à empêcher leur établissement, - Définition des zones d’établissement potentielles dans la zone ARP. c. Probabilité de dissémination - Moyens de dissémination (naturelle et assistée) dans la zone ARP, - Magnitude de la dissémination des 8 espèces d’insecte. d. Conséquences potentielles - Évaluation de l’impact économique en terme de production, associé aux 8 espèces d’insectes pour l’agriculture, la sylviculture et l’horticulture dans leur zone de répartition géographique actuelle et dans la zone ARP, - Évaluation de l’impact en JEVI dans la zone ARP. e. Conclusions des catégorisations des organismes nuisibles Dans cet avis, la catégorisation de Trichoferus campestris est présentée.
ano.nymous@ccsd.cnrs.fr.invalid (Jean-Claude Gregoire) 24 Dec 2024
https://anses.hal.science/anses-04855184v1
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[anses-04353534] Avis de l'Anses relatif à « la catégorisation de Xylotrechus chinensis »
Dans le cadre de la surveillance des organismes réglementés ou émergents (SORE), un dispositif de piégeage a été déployé par la DGAL en 2021 avec l’appui de l’INRAE et de l’ONF. L’objectif de ce dispositif est d’effectuer une surveillance passive dans les sites d’entrée potentiels (ports, aéroports, marchés d’intérêt national (MIN) des organismes réglementés ou émergents (SORE). Ce piégeage est qualifié de « large spectre » car il peut concerner plusieurs filières de production suivies dans le cadre de la SORE (forêts, jardins et espaces verts et infrastructures (JEVI), arboriculture fruitière) en ciblant cependant majoritairement les insectes coléoptères des ligneux. Les principes de la surveillance mise en œuvre s’appuient sur les résultats précédemment acquis dans le cadre du projet PORTRAP, utilisant des pièges génériques multi-composés pour la détection précoce d’insectes exotiques xylophages dans les sites potentiels d’entrée sur le territoire national. Les pièges ont été disposés sur 13 sites (7 ports maritimes, 1 port fluvial, 4 aéroports et 1 marché national) dispersés sur le territoire (France continentale). Au total 9279 individus appartenant à 110 espèces différentes ont été capturés. Aucune espèce d’insecte de quarantaine prioritaire n’a été piégée. En revanche, la présence d’individus appartenant à 8 espèces de coléoptères exotiques, a priori non répandues sur notre territoire, des familles Cerambycidae et Curculionidae (sous-familles des Scolytinae et Platypodinae) a été relevée. Les 8 espèces d’insectes exotiques sont les suivantes : Cerambycidae : Cordylomera spinicornis (Fabricius, 1775), Trichoferus campestris (Faldermann, 1835), Xylotrechus chinensis (Chevrolat, 1852), Xylotrechus stebbingi (Gahan, 1906) ; Curculionidae : Amasa sp. near truncata, Euplatypus hintzii (Schaufuss, 1897), Euplatypus parallelus (Fabricius, 1801), Xyleborus affinis Eichhoff, 1868. Ainsi, il est demandé la réalisation d’une catégorisation des 8 espèces d’insectes exotiques en utilisant les critères de risque listés ci-dessous, afin de déterminer leur nuisibilité et de prioriser sur cette base la réalisation d’analyses de risque portant sur ces insectes.
ano.nymous@ccsd.cnrs.fr.invalid (Jean-Claude Gregoire) 19 Dec 2023
https://anses.hal.science/anses-04353534v1
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[anses-04415035] Analyse des risques sanitaires liés à l’exposition aux chenilles émettrices de poils urticants et élaboration de recommandations de gestion
Les chenilles de Lépidoptères tels que les processionnaires du pin (Thaumetopoea pityocampa Denis et Schiffermüller 1775) et du chêne (Thaumetopoea processionea L. 1758), le bombyx cul-brun (Euproctis chrysorrhoea L. 1758) et la Lithosie quadrille (Lithosia quadra L. 1758), produisent des poils urticants qui, par contact direct cutané ou par inhalation, peuvent entraîner des réactions urticariennes ou allergiques chez l’espèce humaine avec un impact sanitaire significatif en cas de pullulation. Ces espèces peuvent, de plus, avoir des impacts sur certains végétaux (chêne, pin, etc.) et animaux (chien, chat, animaux d’élevage, etc.).Plusieurs espèces de ces Lépidoptères semblent accroître d’année en année leur airede répartition sur le territoire national, telle que la processionnaire du pin dont la présence était limitée historiquement au sud de la Loire et qui remonte graduellement vers le nord et en altitude à la faveur du dérèglement climatique. Le dérèglement climatique pourrait également avoir un impact sur l’évolution de l’aire de répartition et la phénologie des autres espèces de Lépidoptères à chenilles urticantes. Les chenilles émettrices de poils urticants constituent ainsi un enjeu de santé globale (en France hexagonale et ultramarine) dans les zones où elles sont déjà présentes ou dans des zones indemnes qu’elles pourraient coloniser dans un avenir proche.
ano.nymous@ccsd.cnrs.fr.invalid (Nicolas Desneux) 24 Jan 2024
https://anses.hal.science/anses-04415035v1
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[hal-03366792] Preventing invasions of Asian longhorn beetle and citrus longhorn beetle: are we on the right track?
Two Asian longhorn beetles, Anoplophora glabripennis and Anoplophora chinensis, are among the most serious alien invasive species attacking forest and urban trees, both in North America and Europe. Major efforts have been put into preventing further entry and establishment of the two species as well as promoting their successful eradication. Here, we review these efforts, their progress and outcome, and scientific advancements in monitoring and control methods. The combined international activities and harmonizing legislative changes in detection and eradication methods have proven worthwhile, with more than 45% of eradication programmes successful in the last 12 years. Some countries were able to completely eradicate all populations and others managed to reduce the area affected. Although the costs of the eradication programmes can be very high, the benefits outweigh inaction. Attempts to eradicate A. chinensis have been more challenging in comparison with those targeting A. glabripennis. For both species, efforts are hampered by the ongoing arrival of new beetles, both from their native regions in Asia and from other invaded regions via bridgehead effects. The methods used for eradication have not changed much during the last decade, and host removal is still the method most commonly used. On the other hand, detection methods have diversified during the last decade with advances in semiochemical research and use of detection dogs. The next decade will determine if eradications continue to be successful, particularly in the case of A. chinensis, which has been targeted in some countries for containment instead of eradication. Key Message: • Anoplophora glabripennis and Anoplophora chinensis are invasive wood borers native to Asia • Both species are serious pests in their invaded range, attacking healthy forest and urban trees • We analyse data from 2008–2020, regarding interceptions, establishments and eradications • In Europe and North America more than 45% of eradication programmes were successful • Innovations on management strategies and recent scientific achievements are reviewed
ano.nymous@ccsd.cnrs.fr.invalid (Sofia Branco) 05 Oct 2021
https://hal.inrae.fr/hal-03366792v1
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[anses-03324474] Human exposure to larvae of processionary moths in France: study of symptomatic cases registered by the French poison control centres between 2012 and 2019
Contact with the setae of larvae (caterpillars) of pine or oak processionary moths could induce urticarial or allergic reactions in humans. These species are present in France and presently expanding towards highly populated areas due to climate change and/or human-mediated translocations. We aimed to describe the symptomatic cases of exposure to processionary larvae in France.
ano.nymous@ccsd.cnrs.fr.invalid (Pauline Vasseur) 23 Aug 2021
https://anses.hal.science/anses-03324474v1
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[hal-02653040] Permanent genetic resources added to molecular ecology resources database 1 august 2011-30 september 2011
This article documents the addition of 299 microsatellite marker loci and nine pairs of single-nucleotide polymorphism (SNP) EPIC primers to the Molecular Ecology Resources (MER) Database. Loci were developed for the following species: Alosa pseudoharengus, Alosa aestivalis, Aphis spiraecola, Argopecten purpuratus, Coreoleuciscus splendidus, Garra gotyla, Hippodamia convergens, Linnaea borealis,Menippe mercenaria,Menippe adina, Parus major, Pinus densiflora, Portunus trituberculatus, Procontarinia mangiferae, Rhynchophorus ferrugineus, Schizothorax richardsonii, Scophthalmus rhombus, Tetraponera aethiops, Thaumetopoea pityocampa, Tuta absoluta and Ugni molinae. These loci were cross-tested on the following species: Barilius bendelisis, Chiromantes haematocheir, Eriocheir sinensis, Eucalyptus camaldulensis, Eucalyptus cladocalix, Eucalyptus globulus, Garra litaninsis vishwanath, Garra para lissorhynchus, Guindilla trinervis, Hemigrapsus sanguineus, Luma chequen. Guayaba, Myrceugenia colchagu¨ensis, Myrceugenia correifolia, Myrceugenia exsucca, Parasesarma plicatum, Parus major, Portunus pelagicus, Psidium guayaba, Schizothorax richardsonii, Scophthalmus maximus, Tetraponera latifrons, Thaumetopoea bonjeani, Thaumetopoea ispartensis, Thaumetopoea libanotica, Thaumetopoea pinivora, Thaumetopoea pityocampa ena clade, Thaumetopoea solitaria, Thaumetopoea wilkinsoni and Tor putitora. This article also documents the addition of nine EPIC primer pairs for Euphaea decorata, Euphaea formosa, Euphaea ornata and Euphaea yayeyamana.
ano.nymous@ccsd.cnrs.fr.invalid (S.W. A'Hara) 29 May 2020
https://hal.inrae.fr/hal-02653040v1
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[hal-02687264] Analyse de la faible colonisation des cônes de pin cembro (Pinus cembra L.) par les insectes
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 01 Jun 2020
https://hal.inrae.fr/hal-02687264v1
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[hal-02766336] Why seed cones of Pinus from the Cembrae subsection are less colonized by insects than cones of other alpine conifers ?
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 04 Jun 2020
https://hal.inrae.fr/hal-02766336v1
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[hal-02673315] Why are seed cones of Swiss stone pine (Pinus cembra) not attacked by the specialized pine cone weevil, Pissodes validirostris ? A case of host selection vs. host suitability
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 31 May 2020
https://hal.inrae.fr/hal-02673315v1
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[hal-02659142] Larch- and pine-feeding host races of the larch bud moth (Zeiraphera diniana) have cyclic and synchronous population fluctuations
Population cycles of many forest-defoliating insects often show synchronous fluctuations at both intra-specific (spatial synchrony) and inter-specific levels. However,population dynamics of different host-associated biotypes of the same species, such as those of the larch budmoth (LBM), Zeiraphera diniana (Lepidoptera: Tortricidae), have never been compared. This species causes extensive defoliation of larch forests every 8 to 9 years in the Alps, but it consists of two genetically-differentiated host races, the first one developing on European larch, Larix decidua, and the other one developing on Swiss stone pine, Pinus cembra. The dynamics of Zeiraphera populations have been extensively studied on larch, whereas little is known about larval density and possible population fluctuations on sympatric pines. A larval census on Swiss stone pine was conducted in the Swiss Alps intermittently between 1958 to 2004 and in the French Alps from 1992 to 2004. Population density of Zeiraphera on pine varied up to 5000-fold and showed periodic oscillations, with five peaks in Switzerland and one in France. Because the feeding activity of the pine race is restricted to the elongating shoot of the current year, no conspicuous defoliation of pine trees was noted during years of high larval densities. Zeiraphera populations on pine oscillated in significant synchrony with larch-associated populations, and peak densities were observed either the same year or shifted by±one year. Our results did not allow any explanation for cyclic fluctuations of LBM on pine, but the synchrony with the larch race's cycle suggests that studies on genetics as well as on parasitism should be intensified.
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 30 May 2020
https://hal.inrae.fr/hal-02659142v1
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[hal-02695337] Efficiency of spraying mountain pine cones with oleoresin of Swiss stone pine cones to prevent insect attack
The difference in cone colonization by specialized insects that had been observed between Swiss stone pine (Pinus cembra L.) and mountain pine (P. uncinata Ram.) prompted us to test whether volatiles and oleoresin of Swiss stone pine cones may serve as a barrier for insect attack. The volatiles emitted by cones of both pine species were sampled using headspace techniques in the French Alps. The cone volatiles of both species essentially consisted of seven similar monoterpenes, but the terpene profiles markedly differed between species. α-Pinene (67% of the total), β-pinene, and limonene + β-phellandrene were dominant in the cone volatiles of Swiss stone pine, while the cone emissions of mountain pine showed no dominant terpenoid. The cone oleoresin of P. cembra significantly differed from cone volatiles by a lower level of α-pinene and higher levels of β-pinene and limonene + β-phellandrene. Field sprays of mountain pine cones with oleoresin extracts of Swiss stone pine cones significantly reduced the overall damage of specialized cone insects. None of the cones sprayed with oleoresin were attacked, whereas 11% and 31% of the unsprayed control cones were damaged by insects. Specific cone damage due to a cone weevil, Pissodes validirostris Gyll. (Coleoptera: Curculionidae), and a cone pyralid, Dioryctria mutatella Fuchs (Lepidoptera: Pyralidae), were significantly decreased in one year. The volatile profile of the sprayed cones differed markedly from that of unsprayed mountain pine cones, especially in the higher level of myrcene. However, the volatile profile of the sprayed cones also differed from that of the oleoresin extract used for spraying. The role of monoterpenes in protecting the sprayed cones from insect attack is discussed.
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 01 Jun 2020
https://hal.inrae.fr/hal-02695337v1
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[hal-02659519] Systematics of the Dioryctria abietella species group (Lepidoptera: Pyralidae) based on mitochondrial DNA
Coneworms of the genus Dioryctria Zeller include a number of serious pests of conifer seeds that are notoriously difficult to distinguish as species. We surveyed mitochondrial DNA variation within the abietella species group by sequencing 451 bp of COI and 572 bp of COII genes from 64 individuals of 6 major species in the group. In addition to examining phylogenetic relationships within European members of the group, the study focused on the two most damaging species, D. abietivorella Grote from North America and D. abietella Denis and Schiffermüller from Europe and Asia, which have been considered taxonomically synonymous in the past. In order to detect different levels of divergence, we extensively sampled in seed orchards and natural forests for D. abietella on different hosts. Maximum parsimony and maximum likelihood analyses confirmed the monophyly of the abietella species group and its separation into three clades. The grouping of North American species (Clade A) received strong support in both analyses, whereas relationships between Clade A and the two other European clades were weakly supported. D. simplicella Heinemann could not be unambiguously separated from D. abietella populations. The diverse haplotypes observed in the network analysis conducted with eight populations of polyphagous D. abietella suggested the presence of two distinct lineages in France.
ano.nymous@ccsd.cnrs.fr.invalid (Géraldine Roux-Morabito) 30 May 2020
https://hal.inrae.fr/hal-02659519v1
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[hal-02624874] Common pheromone use among host-associated populations of the browntail moth, Euproctis chrysorrhoea, displaying different adult phenologies
The diversity of herbivorous insects may arise from colonization and subsequent specialization on different host plants. Such specialization requires changes in several insect traits, which may lead to host race formation if they reduce gene flow among populations that feed on different plants. Behavioural changes may play a relevant role in host race formation, for example if different races evolve distinct sexual communication signals or adult phenology. Previous research has revealed differences in larval phenology in different host-associated populations of the browntail moth, Euproctis chrysorrhoea (Lepidoptera: Erebidae). Here, sex pheromones among populations of this species are compared, and pheromone trapping data obtained is used in the field to build a phenological model that tests whether populations that feed on different plants differ in their adult flight period. The chemical and electrophysiological analyses revealed that two E. chrysorrhoea populations (on Prunus and on Arbutus unedo) use the same sex pheromone component for mate finding. Our trapping data, however, showed that males fly on average 25 days earlier in populations whose larvae feed on A. unedo compared to those whose larvae feed on Quercus species. Although the shifted phenology described here may underlie host-plant specialization in E. chrysorrhoea, and adults of this species are short-lived, the use of a common sexual pheromone and a large overlap in flight periods suggest that host race formation via allochronic isolation is unlikely in this moth.
ano.nymous@ccsd.cnrs.fr.invalid (Enric Frago) 26 May 2020
https://hal.inrae.fr/hal-02624874v1
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[hal-02698417] Cone and foliage volatiles emitted by Pinus Cembra and some related conifer species
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 01 Jun 2020
https://hal.inrae.fr/hal-02698417v1
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[hal-02689937] A survey of insects attacking seed cones of Pinus cembra in the Alps, the Pyrenees and Massif Central
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 01 Jun 2020
https://hal.inrae.fr/hal-02689937v1
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[hal-02688368] Insect damge to cones and other mortality factors limiting natural regeneration potential of Swiss stone pine (Pinus cembra L.) in the northern French Alps
[...]
ano.nymous@ccsd.cnrs.fr.invalid (Laurent Dormont) 01 Jun 2020
https://hal.inrae.fr/hal-02688368v1
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[hal-04664072] Chapitre 2. Les bio-invasions d'insectes
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ano.nymous@ccsd.cnrs.fr.invalid (Alain Roques) 29 Jul 2024
https://hal.science/hal-04664072v1
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[hal-02108696] The ECOTROP field school: Inventorying Afro-tropical invertebrate biodiversity through student activities and the use of DNA barcoding.
Tropical ecosystems have been popularized as the most biodiverse habitats on Earth. However, biodiversity research in the tropics has mainly focused on charismatic vertebrates and higher plants so far, neglecting invertebrates that represent the bulk of local species richness. As a consequence, our knowledge of tropical invertebrate communities remains strongly impeded by both Linnaean and Wallacean shortfalls, and identifying species in a study site often remains a formidable challenge that inhibits the use of these organisms as indicators for ecological and conservation studies. Here, we present a summary of the results of sampling activities conducted by students during the ECOTROP field-school, a training program in tropical ecology where African and European students gained training in fieldwork and study design, and became involved in the front-end processing of samples for DNA barcoding. Most of the activities were oriented towards local surveys of invertebrate biodiversity in forest and savannah ecosystems of the northern section of Lope National Park in Gabon. During five successive editions of the program, a totalof more than 12 500 invertebrates were sampled, and more than 11 000 barcodes were generated. More data will be added in the near future through the processing of samples obtained from two Malaise traps deployed in a forest and a savannah for 12 months in 2014 and 2015. A total of nearly 3000 Barcode Index Numbers (BINs, as a proxy for species diversity) have been obtained to date, most of which belong to Lepidoptera (1664) and Coleoptera (709). For many groups of interest, the number of BINs observed exceeded the number of species recorded for the country. This highlights how combining standardized sampling, DNA barcoding, and experimental learning can significantly enhance local knowledge of biodiversity and ecological community dynamics, while training young biologists to meet the future challenges of biological conservation.
ano.nymous@ccsd.cnrs.fr.invalid (Thibaud Decaëns) 24 Apr 2019
https://hal.umontpellier.fr/hal-02108696v1
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[hal-01536447] Stay out (almost) all night contrasting responses in flight activity among tropical moth assemblages
Variations in diel activity among hyperdiverse tropical communities of moths, despite representing a key component of niche partitioning between species, have barely been studied so far. Using light trapping from dawn to sunset over a 1-year period in French Guiana, we investigated these variations within and between two families of moths (Sphingidae and Saturniidae). Our results revealed contrasting patterns in flight activity at night between Sphingidae and Saturniidae. Sphingidae reached their peak in species richness and abundance between 7:00 and 8:00 p.m., followed by a decrease around 11:00 p.m. to midnight, whereas Saturniidae were continuously present throughout the night, with a peak around midnight. In addition, we found changes in diel activity among some of the most common genera in each family, highlighting distinct behavioral, physiological, and functional traits among taxa. Given differences in flight activity at different taxonomic levels, it is strongly recommended to monitor by light trapping throughout the night to effectively sample saturniid and sphingid assemblages, even though the activity of Sphingidae sharply declines after midnight. These results improve the general natural history information of tropical moths and reinforce the need of further research on the ecological and taxonomic consequences of differences in diel activity.
ano.nymous@ccsd.cnrs.fr.invalid (Greg Lamarre) 11 Jun 2017
https://hal.science/hal-01536447v1
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[hal-02798213] Using DNA barcoding as a tool to describe moth community patterns in Lopé and Ivindo National Parks, Gabon
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ano.nymous@ccsd.cnrs.fr.invalid (Sylvain Delabye) 05 Jun 2020
https://hal.inrae.fr/hal-02798213v1
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[hal-02801284] DNA barcoding and DNA metabarcoding as tools for rapid inventory and high-throughput identification of Lepidoptera species in Amazonia
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ano.nymous@ccsd.cnrs.fr.invalid (Rodolphe Rougerie) 05 Jun 2020
https://hal.inrae.fr/hal-02801284v1
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[hal-04758162] Isotrias hybridana (Hübner, [1817]) et Isotrias rectifasciana (Haworth, [1811]) sont une même espèce (Lepidoptera : Tortricidae)
Des difficultés pour différencier les mâles d’Isotrias hybridana de ceux d’I. rectifasciana ont été rencontrées lors de l’inventaire des lépidoptères sur plusieurs sites d’Occitanie. Afin de résoudre ce problème, une série d’individus d’Isotrias a été analysée. L’analyse a pris en compte des critères de morphologie externe, de structures génitales et de séquences code-barre ADN. Les résultats de l’analyse morphologique indiquent que les deux taxons ne peuvent pas être distingués, non seulement pour les mâles mais également pour les femelles, car le critère habituellement utilisé pour les différencier n’est pas discriminant. Les codes-barres ADN disponibles à l’échelle européenne suggèrent aussi qu’il n’y a qu’une seule espèce.
ano.nymous@ccsd.cnrs.fr.invalid (Gérard Labonne) 20 Dec 2024
https://hal.inrae.fr/hal-04758162v1
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[hal-04758148] Exploring the diversity of Gracillariidae (Lepidoptera) in South Africa: host plants, distribution, and DNA barcoding analysis, with the description of nine new species
Despite relatively extensive historical exploration being carried out on Lepidopteran fauna of South Africa, leaf-mining micromoths of the family Gracillariidae remain a source of discovery, with many new species awaiting description. In the present work, 32 gracillariid species from South Africa are treated. For each species, hostplant and distribution information is provided, supplemented by taxonomic and molecular analysis where necessary. Nine species are described here as new to science: Ectropina spirostachydis sp. nov., Leucocercops curatellifoliae sp. nov., Phodoryctis tephrosiella sp. nov., Telamoptilia cordati sp. nov., Phyllonorycter pseudogrewiella sp. nov., Cameraria melhaniella sp. nov., Phyllocnistis magalismontani sp. nov., P. allisonae sp. nov. and P. faureae sp. nov. Sixteen host plant species are reported for the first time for the family Gracillariidae: Searsia pyroides (Anacardiaceae), Parinari curatellifolia (Chrysobalanaceae), Combretum zeyheri, Terminalia sericea (Combretaceae), Euclea divinorum (Ebenaceae), Spirostachys africana (Euphorbiaceae), Peltophorum africanum, Tephrosia rhodesica, Schotia brachypetala (Fabaceae), Cryptocarya transvaalensis (Lauraceae), Melhania acuminata (Malvaceae), Syzygium guineense (Myrtaceae), Ochna pretoriensis (Ochnaceae), Protea rubropilosa, Faurea saligna (Proteaceae), Englerophytum magalismontanum (Sapotaceae). Caloptilia mwamba De Prins, 2015 is recorded for the first time in South Africa.
ano.nymous@ccsd.cnrs.fr.invalid (Paolo Triberti) 20 Dec 2024
https://hal.inrae.fr/hal-04758148v1
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[hal-02809471] Shared but overlooked: 30 species of Holarctic Microlepidoptera revealed by DNA barcodes and morphology
This study reports 30 species of Lepidoptera previously known from either the Palearctic or the Nearctic that are newly recorded as Holarctic. For 28 of these species, their intercontinental distributions were initially detected through DNA barcode analysis and subsequently confirmed by morphological examination; two Palearctic species were first detected in North America through morphology and then barcoded. When possible, the origin and status of each species (introduced, overlooked Holarctic species, or unknowingly re-described) is discussed, and its morphology is diagnosed and illustrated. The species involved include Tineidae: Scardia amurensis Zagulajev, Triaxomera parasitella (Hübner), Nemapogon cloacella (Haworth), Elatobia montelliella (Schantz), Tinea svenssoni Opheim; Gracillariidae: Caloptilia suberinella (Tengström), Parornix betulae (Stainton); Phyllonorycter maestingella (Müller); Yponomeutidae: Paraswammerdamia albicapitella (Scharfenberg), P. conspersella (Tengström); Plutellidae: Plutella hyperboreella Strand; Lyonetiidae: Lyonetia pulverulentella Zeller; Autostichidae: Oegoconia deauratella (Herrich-Schäffer), O. novimundi (Busck); Blastobasidae: Blastobasis glandulella (Riley), B. maroccanella (Amsel), B. tarda Meyrick; Depressariidae: Agonopterix conterminella (Zeller), Depressaria depressana (F.); Coleophoridae: Coleophora atriplicis Meyrick, C. glitzella Hofmann, C. granulatella Zeller, C. texanella Chambers, C. vitisella Gregson ; Scythrididae: Scythris sinensis (Felder & Rogenhofer); Gelechiidae: Altenia perspersella (Wocke), Gnorimoschema jalavai Povolný, Scrobipalpa acuminatella (Sircom), Sophronia gelidella Nordman; Choreutidae: Anthophila fabriciana (L.); and Tortricidae: Phiaris bipunctana (F.). These cases of previously unrecognized faunal overlap have led to their redescription in several instances. Five new synonyms are proposed: Blastobasis glandulella (Riley, 1871) = B. huemeri Sinev, 1993, syn. nov.; B. tarda Meyrick, 1902 =Neoblastobasis ligurica Nel & Varenne, 2004, syn. nov.; Coleophora atriplicis Meyrick, 1928 = C. cervinella McDunnough, 1946, syn. nov.; C. texanella Chambers, 1878 = C. coxi Baldizzone & van der Wolf, 2007, syn. nov., and = C. vagans Walsingham, 1907, syn. nov. Lectotypes are designated for Blastobasis tarda Meyrick and Coleophora texanella Chambers. Type specimens were examined where pertinent to establish new synonymies. We identify 12 previously overlooked cases of species introductions, highlighting the power of DNA barcoding as a tool for biosurveillance.
ano.nymous@ccsd.cnrs.fr.invalid (Jean-François Landry) 06 Jun 2020
https://hal.inrae.fr/hal-02809471v1
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[hal-04273563] Patterns of speciation in a parapatric pair of Saturnia moths as revealed by target capture
The focus of this study has been to understand the evolutionary relationships and taxonomy of a widely distributed parapatric species pair of wild silk moths in Europe: Saturnia pavonia and Saturnia pavoniella (Lepidoptera: Saturniidae). To address species delimitation in these parapatric taxa, target enrichment and mtDNA sequencing was employed alongside phylogenetic, admixture, introgression, and species delimitation analyses. The dataset included individuals from both species close to and farther away from the contact zone as well as two hybrids generated in the lab. Nuclear markers strongly supported both S. pavonia and S. pavoniella as two distinct species, with hybrids forming a sister group to S. pavoniella. However, the Maximum Likelihood (ML) tree generated from mtDNA sequencing data presented a different picture, showing both taxa to be phylogenetically intermixed. This inconsistency is likely attributable to mitonuclear discordance, which can arise from biological factors (e.g., introgressive hybridization and/or incomplete lineage sorting). Our analyses indicate that past introgressions have taken place, but that there is no evidence to suggest an ongoing admixture between the two species, demonstrating that the taxa have reached full postzygotic reproductive isolation and hence represent two distinct biological species. Finally, we discuss our results from an evolutionary point of view taking into consideration the past climatic oscillations that have likely shaped the present dynamics between the two species. Overall, our study demonstrates the effectiveness of the target enrichment approach in resolving shallow phylogenetic relationships under complex evolutionary circumstances and that this approach is useful in establishing robust and well-informed taxonomic delimitations involving parapatric taxa.
ano.nymous@ccsd.cnrs.fr.invalid (Maria Khan) 07 Nov 2023
https://hal.inrae.fr/hal-04273563v2
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[hal-03149644] Evaluating DNA Barcoding for Species Identification and Discovery in European Gracillariid Moths
Gracillariidae is the most species-rich leaf-mining moth family with over 2,000 described species worldwide. In Europe, there are 263 valid named species recognized, many of which are difficult to identify using morphology only. Here we explore the use of DNA barcodes as a tool for identification and species discovery in European gracillariids. We present a barcode library including 6,791 COI sequences representing 242 of the 263 (92%) resident species. Our results indicate high congruence between morphology and barcodes with 91.3% (221/242) of European species forming monophyletic clades that can be identified accurately using barcodes alone. The remaining 8.7% represent cases of non-monophyly making their identification uncertain using barcodes. Species discrimination based on the Barcode Index Number system (BIN) was successful for 93% of species with 7% of species sharing BINs. We discovered as many as 21 undescribed candidate species, of which six were confirmed from an integrative approach; the other 15 require additional material and study to confirm preliminary evidence. Most of these new candidate species are found in mountainous regions of Mediterranean countries, the South-Eastern Alps and the Balkans, with nine candidate species found only on islands. In addition, 13 species were classified as deep conspecific lineages, comprising a total of 27 BINs with no intraspecific morphological differences found, and no known ecological differentiation. Double-digest restriction-site associated DNA sequencing (ddRAD) analysis showed strong mitonuclear discrepancy in four out of five species studied. This discordance is not explained by Wolbachia-mediated genetic sweeps. Finally, 26 species were classified as “unassessed species splits” containing 71 BINs and some involving geographical isolation or ecological specialization that will require further study to test whether they represent new cryptic species.
ano.nymous@ccsd.cnrs.fr.invalid (Carlos Lopez-Vaamonde) 23 Feb 2021
https://hal.sorbonne-universite.fr/hal-03149644v1
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[hal-04236314] Patterns of Speciation in a parapatric pair of Saturnia moths as revealed by Target Capture
The focus of this study was to understand the evolutionary relationships and taxonomy of widely distributed parapatric pair of Saturnia pavonia and Saturnia pavoniella (Lepidoptera: Saturniidae) in Europe. To address species delimitation challenges associated with many parapatric taxa, target enrichment and mtDNA sequencing was employed alongside analyses of admixture, gene flow, hybridization, and introgression. The dataset included individuals from both species as well as two hybrids from and broadly outside the contact zone. Nuclear markers strongly supported both S. pavonia and S. pavoniella as two distinct species, with the hybrids grouping together as intermediate and separate from both species. However, the maximum likelihood (ML) tree generated from mtDNA sequencing data presented a different picture, showing both taxa to be phylogenetically intermixed. This inconsistency may be attributed to mitonuclear discordance, which can arise from biological factors (e.g., introgressive hybridization or incomplete lineage sorting) or operational factors (e.g., misidentification or incorrect species delimitation). We further discuss our results from evolutionary point of view taking into consideration the past climatic oscillations that has likely shaped the present dynamics between the species. Overall, this study demonstrated the effectiveness of the target enrichment approach in resolving the phylogenetic relationships and providing insights into the taxonomic and phylogenetic relationships between these species.
ano.nymous@ccsd.cnrs.fr.invalid (Maria Khan) 10 Oct 2023
https://hal.inrae.fr/hal-04236314v1
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[hal-02650363] Genetic patterns in European geometrid moths revealed by the Barcode Index Number (BIN) system
Background: The geometrid moths of Europe are one of the best investigated insect groups in traditional taxonomy making them an ideal model group to test the accuracy of the Barcode Index Number (BIN) system of BOLD (Barcode of Life Datasystems), a method that supports automated, rapid species delineation and identification. Methodology/Principal Findings: This study provides a DNA barcode library for 219 of the 249 European geometrid moth species (88%) in five selected subfamilies. The data set includes COI sequences for 2130 specimens. Most species (93%) were found to possess diagnostic barcode sequences at the European level while only three species pairs (3%) were genetically indistinguishable in areas of sympatry. As a consequence, 97% of the European species we examined were unequivocally discriminated by barcodes within their natural areas of distribution. We found a 1:1 correspondence between BINs and traditionally recognized species for 67% of these species. Another 17% of the species (15 pairs, three triads) shared BINs, while specimens from the remaining species (18%) were divided among two or more BINs. Five of these species are mixtures, both sharing and splitting BINs. For 82% of the species with two or more BINs, the genetic splits involved allopatric populations, many of which have previously been hypothesized to represent distinct species or subspecies. Conclusions/Significance: This study confirms the effectiveness of DNA barcoding as a tool for species identification and illustrates the potential of the BIN system to characterize formal genetic units independently of an existing classification. This suggests the system can be used to efficiently assess the biodiversity of large, poorly known assemblages of organisms. For the moths examined in this study, cases of discordance between traditionally recognized species and BINs arose from several causes including overlooked species, synonymy, and cases where DNA barcodes revealed regional variation of uncertain taxonomic significance.
ano.nymous@ccsd.cnrs.fr.invalid (Axel Hausmann) 29 May 2020
https://hal.inrae.fr/hal-02650363v1
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[hal-02640423] Species-Level Para- and Polyphyly in DNA Barcode Gene Trees: Strong Operational Bias in European Lepidoptera
The proliferation of DNA data is revolutionizing all fields of systematic research. DNA barcode sequences, now available for millions of specimens and several hundred thousand species, are increasingly used in algorithmic species delimitations. This is complicated by occasional incongruences between species and gene genealogies, as indicated by situations where conspecific individuals do not form a monophyletic cluster in a gene tree. In two previous reviews, non-monophyly has been reported as being common in mitochondrial DNA gene trees. We developed a novel web service “Monophylizer” to detect non-monophyly in phylogenetic trees and used it to ascertain the incidence of species non-monophyly in COI (a.k.a. cox1) barcode sequence data from 4977 species and 41,583 specimens of European Lepidoptera, the largest data set of DNA barcodes analyzed from this regard. Particular attention was paid to accurate species identification to ensure data integrity. We investigated the effects of tree-building method, sampling effort, and other methodological issues, all of which can influence estimates of non-monophyly. We found a 12% incidence of non-monophyly, a value significantly lower than that observed in previous studies. Neighbor joining (NJ) and maximum likelihood (ML) methods yielded almost equal numbers of non-monophyletic species, but 24.1% of these cases of non-monophyly were only found by one of these methods. Non-monophyletic species tend to show either low genetic distances to their nearest neighbors or exceptionally high levels of intraspecific variability. Cases of polyphyly in COI trees arising as a result of deep intraspecific divergence are negligible, as the detected cases reflected misidentifications or methodological errors. Taking into consideration variation in sampling effort, we estimate that the true incidence of non-monophyly is ∼23%, but with operational factors still being included. Within the operational factors, we separately assessed the frequency of taxonomic limitations (presence of overlooked cryptic and oversplit species) and identification uncertainties. We observed that operational factors are potentially present in more than half (58.6%) of the detected cases of non-monophyly. Furthermore, we observed that in about 20% of non-monophyletic species and entangled species, the lineages involved are either allopatric or parapatric—conditions where species delimitation is inherently subjective and particularly dependent on the species concept that has been adopted. These observations suggest that species-level non-monophyly in COI gene trees is less common than previously supposed, with many cases reflecting misidentifications, the subjectivity of species delimitation or other operational factors.
ano.nymous@ccsd.cnrs.fr.invalid (Marko Mutanen) 28 May 2020
https://hal.inrae.fr/hal-02640423v1
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[hal-02637914] Systematics and biology of some species of Micrurapteryx Spuler (Lepidoptera, Gracillariidae) from the Holarctic Region, with re-description of M. caraganella (Hering) from Siberia
During a DNA barcoding campaign of leaf-mining insects from Siberia, a genetically divergent lineage of a gracillariid belonging to the genus Micrurapteryx was discovered, whose larvae developed on Caragana Fabr. and Medicago L. (Fabaceae). Specimens from Siberia showed similar external morphology to the Palearctic Micrurapteryx gradatella and the Nearctic Parectopa occulta but differed in male genitalia, DNA barcodes, and nuclear genes histone H3 and 28S. Members of this lineage are re-described here as Micrurapteryx caraganella (Hering, 1957), comb. n., an available name published with only a brief description of its larva and leaf mine. Micrurapteryx caraganella is widely distributed throughout Siberia, from Tyumen oblast in the West to Transbaikalia in the East. Occasionally it may severely affect its main host, Caragana arborescens Lam. This species has been confused in the past with Micrurapteryx gradatella in Siberia, but field observations confirm that M. gradatella exists in Siberia and is sympatric with M. caraganella, at least in the Krasnoyarsk region, where it feeds on different host plants (Vicia amoena Fisch. and Vicia sp.). In addition, based on both morphological and molecular evidence as well as examination of type specimens, the North American Parectopa occulta Braun, 1922 and Parectopa albicostella Braun, 1925 are transferred to Micrurapteryx as M. occulta (Braun, 1922), comb. n. with albicostella as its junior synonym (syn. n.). Characters used to distinguish Micrurapteryx from Parectopa are presented and illustrated. These findings provide another example of the potential of DNA barcoding to reveal overlooked species and illuminate nomenclatural problems.
ano.nymous@ccsd.cnrs.fr.invalid (Natalia Kirichenko) 28 May 2020
https://hal.inrae.fr/hal-02637914v1
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[hal-02791464] Pests and diseases in the native and European range of Douglas-fir. 3.5
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ano.nymous@ccsd.cnrs.fr.invalid (Alain Roques) 05 Jun 2020
https://hal.inrae.fr/hal-02791464v1
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[hal-02648473] Reply to Keller and Springborn: No doubt about invasion debt
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ano.nymous@ccsd.cnrs.fr.invalid (Franz Essl) 29 May 2020
https://hal.inrae.fr/hal-02648473v1
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[hal-02627982] Developing a list of invasive alien species likely to threaten biodiversity and ecosystems in the European Union
The European Union (EU) has recently published its first list of invasive alien species (IAS) of EU concern to which current legislation must apply. The list comprises species known to pose great threats to biodiversity and needs to be maintained and updated. Horizon scanning is seen as critical to identify the most threatening potential IAS that do not yet occur in Europe to be subsequently risk assessed for future listing. Accordingly, we present a systematic consensus horizon scanning procedure to derive a ranked list of potential IAS likely to arrive, establish, spread and have an impact on biodiversity in the region over the next decade. The approach is unique in the continental scale examined, the breadth of taxonomic groups and environments considered, and the methods and data sources used. International experts were brought together to address five broad thematic groups of potential IAS. For each thematic group the experts first independently assembled lists of potential IAS not yet established in the EU but potentially threatening biodiversity if introduced. Experts were asked to score the species within their thematic group for their separate likelihoods of i) arrival, ii) establishment, iii) spread, and iv) magnitude of the potential negative impact on biodiversity within the EU. Experts then convened for a 2-day workshop applying consensus methods to compile a ranked list of potential IAS. From an initial working list of 329 species, a list of 66 species not yet established in the EU that were considered to be very high (8 species), high (40 species) or medium (18 species) risk species was derived. Here, we present these species highlighting the potential negative impacts and the most likely biogeographic regions to be affected by these potential IAS.
ano.nymous@ccsd.cnrs.fr.invalid (Helen E. Roy) 26 May 2020
https://hal.inrae.fr/hal-02627982v1
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[hal-01607810] Seven recommendations to make your invasive alien species data more useful
Science-based strategies to tackle biological invasions depend on recent, accurate, well-documented, standardized and openly accessible information on alien species. Currently and historically, biodiversity data are scattered in numerous disconnected data silos that lack interoperability. The situation is no different for alien species data, and this obstructs efficient retrieval, combination, and use of these kinds of information for research and policy-making. Standardization and interoperability are particularly important as many alien species related research and policy activities require pooling data. We describe seven ways that data on alien species can be made more accessible and useful, based on the results of a European Cooperation in Science and Technology (COST) workshop: (1) Create data management plans; (2) Increase interoperability of information sources; (3) Document data through metadata; (4) Format data using existing standards; (5) Adopt controlled vocabularies; (6) Increase data availability; and (7) Ensure long-term data preservation. We identify four properties specific and integral to alien species data (species status, introduction pathway, degree of establishment, and impact mechanism) that are either missing from existing data standards or lack a recommended controlled vocabulary. Improved access to accurate, real-time and historical data will repay the long-term investment in data management infrastructure, by providing more accurate, timely and realistic assessments and analyses. If we improve core biodiversity data standards by developing their relevance to alien species, it will allow the automation of common activities regarding data processing in support of environmental policy. Furthermore, we call for considerable effort to maintain, update, standardize, archive, and aggregate datasets, to ensure proper valorization of alien species data and information before they become obsolete or lost.
ano.nymous@ccsd.cnrs.fr.invalid (Quentin J. Groom) 03 Oct 2017
https://hal.science/hal-01607810v1
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[hal-02626987] Alien Pathogens on the Horizon: Opportunities for Predicting their Threat to Wildlife
According to the Convention on Biological Diversity, by 2020 invasive alien species (IAS) should be identified and their impacts assessed, so that species can be prioritised for implementation of appropriate control strategies and measures put in place to manage invasion pathways. For one quarter of the IAS listed as the “100 of the world's worst”, environmental impacts are linked to diseases of wildlife, undomesticated plants and animals. Moreover, IAS are a significant source of ‘pathogen pollution’ defined as the human-mediated introduction, often unintentional, of a pathogen to a new host or region. Despite this, little is known about the biology of alien pathogens and their biodiversity impacts after introduction into new regions. We argue that the threats posed by alien pathogens to endangered species, ecosystems, and ecosystem services should receive greater attention through legislation, policy and management. We identify ten key areas for research and action, including those relevant to the processes of introduction and establishment of an alien pathogen and to prediction of the spread and associated impact of an alien pathogen on native biota and ecosystems. The development of interdisciplinary capacity, expertise and coordination to identify and manage threats was seen as critical to address knowledge gaps.
ano.nymous@ccsd.cnrs.fr.invalid (Helen E. Roy) 26 May 2020
https://hal.inrae.fr/hal-02626987v1
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[hal-02637388] The EASIN Editorial Board: quality assurance, exchange and sharing of alien species information in Europe
The European Alien Species Information Network (EASIN) aims to facilitate the exploration of alien species information in Europe, and is recognized as the information system supporting European Union Member States in the implementation of the recently published Invasive Alien Species Regulation. In this paper, we present the role and activities of the EASIN Editorial Board (EB), which is responsible for the quality assurance, safeguarding and constant improvement of EASIN. The EB is supported by a web platform that facilitates online discussions about alien species. This platform creates a virtual community by providing a forum-like interface that is moderated by the EB Members but is freely accessible to the scientific community and the general public. It allows all registered users to make comments, raise questions and share experience and expertise on alien species in Europe. Moreover, it provides a means for exchanging opinions and solving disputes in a transparent way. The overall EB activity is commonly agreed upon procedures and standards.
ano.nymous@ccsd.cnrs.fr.invalid (Konstantinos Tsiamis) 28 May 2020
https://hal.inrae.fr/hal-02637388v1
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[hal-02641337] European Alien Species Information Network (EASIN): supporting European policies and scientific research
The European Alien Species Information Network (EASIN) was launched in 2012 by the European Commission to facilitate the exploration of existing alien species information and to assist the implementation of European policies on biological invasions. At the core of EASIN, there is an inventory of all known alien and cryptogenic species in Europe (the EASIN Catalogue, herein published), which includes relevant information, such as taxonomic classification, pathways of introduction, year and country of first introduction. Spatial records of species occurrence in Europe are stored in the EASIN geo-databases, integrating data from many data providers and the literature. All this information is publicly available through a widget framework, providing easy to use and flexible tools for searching and mapping. The EASIN datasets have been used for pan-European or regional assessments of pathways and gateways of alien invasions, towards the fulfilment of the related targets of the Convention on Biological Diversity and of European policies. Moreover, in support of the new EU Regulation on the prevention and management of the introduction and spread of invasive alien species in Europe, an Early Warning and Rapid Response System is being developed by EASIN.
ano.nymous@ccsd.cnrs.fr.invalid (Stelios Katsanevakis) 28 May 2020
https://hal.inrae.fr/hal-02641337v1
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[hal-02627472] Consistency of impact assessment protocols for non-native species
Standardized tools are needed to identify and prioritize the most harmful non-native species (NNS). A plethora of assessment protocols have been developed to evaluate the current and potential impacts of non-native species, but consistency among them has received limited attention. To estimate the consistency across impact assessment protocols, 89 specialists in biological invasions used 11 protocols to screen 57 NNS (2614 assessments). We tested if the consistency in the impact scoring across assessors, quantified as the coefficient of variation (CV), was dependent on the characteristics of the protocol, the taxonomic group and the expertise of the assessor. Mean CV across assessors was 40%, with a maximum of 223%. CV was lower for protocols with a low number of score levels, which demanded high levels of expertise, and when the assessors had greater expertise on the assessed species. The similarity among protocols with respect to the final scores was higher when the protocols considered the same impact types. We conclude that all protocols led to considerable inconsistency among assessors. In order to improve consistency, we highlight the importance of selecting assessors with high expertise, providing clear guidelines and adequate training but also deriving final decisions collaboratively by consensus.
ano.nymous@ccsd.cnrs.fr.invalid (Pablo Gonzalez-Moreno) 26 May 2020
https://hal.inrae.fr/hal-02627472v1
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[hal-03426805] Applying the Convention on Biological Diversity Pathway Classification to alien species in Europe
The number of alien species arriving within new regions has increased at unprecedented rates. Managing the pathways through which alien species arrive and spread is important to reduce the threat of biological invasions. Harmonising information on pathways across individual sectors and user groups is therefore critical to underpin policy and action. The European Alien Species Information Network (EASIN) has been developed to easily facilitate open access to data of alien species in Europe. The Convention on Biological Diversity (CBD) Pathway Classification framework has become a global standard for the classification of pathways. We followed a structured approach to assign pathway information within EASIN for a subset of alien species in Europe, which covered 4169 species, spanning taxonomic groups and environments. We document constraints and challenges associated with implementing the CBD Pathway Classification framework and propose potential amendments to increase clarity. This study is unique in the scope of taxonomic coverage and also in the inclusion of primary (independent introductions to Europe) and secondary (means of dispersal for species expansion within Europe, after their initial introduction) modes of introduction. In addition, we summarise the patterns of introduction pathways within this subset of alien species within the context of Europe. Based on the analyses, we confirm that the CBD Pathway Classification framework offers a robust, hierarchical system suitable for the classification of alien species introduction and spread across a wide range of taxonomic groups and environments. However, simple modifications could improve interpretation of the pathway categories ensuring consistent application across databases and information systems at local, national, regional, continental and global scales. Improving consistency would also help in the development of pathway action plans, as required by EU legislation.
ano.nymous@ccsd.cnrs.fr.invalid (Jan Pergl) 12 Nov 2021
https://hal.inrae.fr/hal-03426805v1
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[hal-02650956] Socioeconomic legacy yields an invasion debt
Globalization and economic growth are widely recognized as important drivers of biological invasions. Consequently, there is an increasing need for governments to address the role of international trade in their strategies to prevent species introductions. However, many of the most problematic alien species are not recent arrivals but were introduced several decades ago. Hence, current patterns of alien-species richness may better reflect historical rather than contemporary human activities, a phenomenon which might be called “invasion debt.” Here, we show that across 10 taxonomic groups (vascular plants, bryophytes, fungi, birds, mammals, reptiles, amphibians, fish, terrestrial insects, and aquatic invertebrates) in 28 European countries, current numbers of alien species established in the wild are indeed more closely related to indicators of socioeconomic activity from the year 1900 than to those from 2000, although the majority of species introductions occurred during the second half of the 20th century. The strength of the historical signal varies among taxonomic groups, with those possessing good capabilities for dispersal (birds, insects) more strongly associated with recent socioeconomic drivers. Nevertheless, our results suggest a considerable historical legacy for the majority of the taxa analyzed. The consequences of the current high levels of socioeconomic activity on the extent of biological invasions will thus probably not be completely realized until several decades into the future.
ano.nymous@ccsd.cnrs.fr.invalid (Franz Essl) 29 May 2020
https://hal.inrae.fr/hal-02650956v1
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[hal-04236256] Population genomics and niche modeling of the Alpine populations of Graellsia isabellae
Graellsia isabellae (Lepidoptera, Saturniidae) is an emblematic threatened Lepidoptera species, found in mountain ranges of Spain and Alps. This moth is potentially impacted by climate change and dieback of its main host plant Scots pine (Pinus sylvestris). Our study was focused on the French Alpine population, because of its isolation and low genetic diversity as shown in a previous analysis based on mitochondrial DNA and microsatellite data. In order to better characterize the French population for conservation, a RADseq approach was used for 62 individuals, making it possible to obtain a large number of nuclear loci. The genetic variations analyzed (3,644 SNPs) confirm the strong isolation between the Pyrenean (n=8) and the Alpine (n=53) populations, but also reveal a sub-structure in the Alps. Basic genetic statistics also confirmed the low genetic diversity of the French population. To assess the environmental constraints affecting its distribution, a niche modeling approach was used, by incorporating climatic variables as well as the distribution of its host plant. This revealed that the potential distribution area is currently relatively limited. Projections of the evolution of its niche in the future, up to 2050, show a change in niche suitability that could have negative consequences for the survival of the French population and implications for the conservation strategy.
ano.nymous@ccsd.cnrs.fr.invalid (Flora Lambert-Auger) 10 Oct 2023
https://hal.inrae.fr/hal-04236256v1
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[hal-04236278] Conservation genetics of the protected moth, Gortyna borelii (Noctuidae) in France
Accurate species delimitations are essential for establishing efficient conservation programs. Gortyna borelii (Noctuidae) is a threatened and protected moth, with a widespread, but localised in a range of meadows, forest clearings and edges in Europe. Larvae are internal feeders on a limited number of Peucedanum species, that are heavily impacted by intensive mowing regimes. Preliminary DNA barcode data from a few individuals showed a deep mitochondrial split in France suggesting a possible cryptic species complex. We DNA barcoded an additional 43 individuals sampled across France that confirmed the existence of two BINs, with a genetic divergence of 2.79%, one in Southeastern France (Maritime Alps) and Corsica and another in Western, central France and Eastern Pyrenees. RADseq data (9961 SNPs) from 34 individuals confirmed the existence of two clades but also revealed a substructure in five populations in France. The estimation of population genetic indices such as genetic diversity and inbreeding coefficient enabled us to assess the genetic status of these populations. This new insight into the genetic composition of G. borelii must be integrated into the conservation strategies to save this flagship species from extinction.
ano.nymous@ccsd.cnrs.fr.invalid (Flora Lambert-Auger) 10 Oct 2023
https://hal.inrae.fr/hal-04236278v1
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[tel-02824961] Modélisation mathématique des phénomènes d'invasion en écologie: exemple de la chenille processionnaire du pin
Les équations aux dérivées partielles, et plus généralement la modélisation mathématique, se sont récemment ouvertes à de nombreuses applications en biologie. La progression d’espèces invasives et la réponse des espèces animales et végétales face au changement climatique amènent à développer actuellement des modèles mathématiques dans ce domaine de l’écologie. De telles études sont caractérisées par l’interdisciplinarité des recherches. Dans ce mémoire, nous présentons la modélisation de la dynamique spatio-temporelle d’une population sous influence du changement climatique. Nous prenons comme exemple la chenille processionnaire du pin, un insecte défoliateur progressant vers le nord et en altitude dans la plupart des pays méditerranéens où il est présent. Cette progression est le résultat conjoint d’une capacité de dispersion et d’une modification significative du potentiel d’établissement des populations migrantes consécutivement au changement climatique. Grâce au modèle de Ricker avec retard, nous montrons que la période du cycle de pullulation est de 6 ans et que les conditions climatiques peuvent être responsables de la perturbation de ce cycle dans les zones nouvellement colonisées. Mais le volet principal de cette thèse concerne l’aspect spatial de la dynamique et l’impact du climat sur la progression de l’insecte vers le nord. Nous avons mis en place un dispositif expérimental de terrain pour comprendre le rôle des conditions climatiques sur les capacités d’alimentation des chenilles et sur leur survie. La modélisation de ce mécanisme dans la zone d’expansion vers le Bassin-Parisien nous permet de mettre en évidence l’existence d’une zone défavorable à l’alimentation des chenilles qui aurait pu limiter la progression de l’insecte dans le passé. Les conditions se sont ensuite nettement améliorées dans toute la zone d’étude, laissant place à une progression rapide de la population. Le modèle finalement développé dans cette thèse couple à la fois le modèle de croissance, cette contrainte climatique et un modèle de diffusion afin de décrire précisément la dynamique d’expansion. Il tient également compte de la répartition des pins, facteur clé dans la progression de l’insecte. Après avoir construit ce modèle sur une zone d’expansion relativement restreinte entre Orléans et Paris, nous le validons à une plus large échelle et nous testons les hypothèses émises jusqu’à présent. Nous montrons que le réchauffement climatique est véritablement à l’origine de cette expansion, même si l’hétérogénéité du milieu joue un rôle fondamental dans la vitesse de progression. Les zones de forte densité en pins sont nettement moins attaquées que les autres suggérant un contournement des massifs forestiers alors que les zones de faible densité ne sembleraient pas faire obstacle à la progression. Le coefficient de diffusion est estimé a posteriori grâce au modèle et nous montrons ainsi que le papillon femelle pourrait avoir une capacité de vol de l’ordre de 3km. Nous donnons ensuite un scénario possible de l’évolution de la progression de l’insecte pour les prochaines années : la processionnaire du pin devrait atteindre Paris dans les années 2020 si aucun moyen de lutte n’est déployé. Cette approche revêt un caractère multidisciplinaire qui en fait son originalité. Ce modèle pourrait s’étendre à toute espèce invasive en expansion sous influence du changement climatique.
ano.nymous@ccsd.cnrs.fr.invalid (Christelle Robinet) 07 Jun 2020
https://hal.inrae.fr/tel-02824961v1
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[pasteur-01133499] Assessment of genetic and pheromonal diversity of the Cydia strobilella species complex (Lepidoptera: Tortricidae)
Combining pheromone trapping and genetic analyses can be useful when trying to resolve complexes of closely related insect taxa that are difficult to distinguish based on morphological characters. Nearctic and Palearctic populations of the spruce seed moth, Cydia strobilella L., have been considered taxonomically synonymous since 1983, but more recent work revealing distinct sex pheromones for Canadian and Swedish moths suggest that populations in the two regions belong to different species. In order to test this hypothesis, we performed field trapping using different pheromone lures at ten sites in North America, Europe and Asia, and reconstructed phylogenetic relationships among trapped moths using mitochondrial (cytochrome oxidase subunit I) and nuclear (elongation factor 1 alpha) DNA sequence data. Trapping data and tree topologies for both genes revealed distinct pherotypes in North America and Eurasia. A genetically distinct population from China was investigated further with respect to its sex pheromone. Electrophysiological data indicated that Chinese females produce a deviant ratio of the sex pheromone components (dienic acetates) compared to Swedish females. However, trapping experiments in both areas revealed a similar broad response profile in males to a wide range of acetate ratios, and these populations should be considered taxonomically synonymous. A previous suggestion of an agonistic effect on the attraction of C. strobilella males in Sweden when adding the corresponding alcohols to the binary acetate blend was also tested in Sweden as well as in China, with no observed effect on attraction of males. In conclusion, our study demonstrates the great potential of using pheromone trapping as a tool for identification and delimitation of taxa within cryptic species complexes. Based on our data, Nearctic and Palearctic populations of C. strobilella should be considered different species, and C. youngana Kearfott stat. rev. is resurrected here as valid name for North American populations, which was the case before the revision in 1983.
ano.nymous@ccsd.cnrs.fr.invalid (Glenn P. Svensson) 19 Mar 2015
https://riip.hal.science/pasteur-01133499v1
