PublicationsScientifiques

Découvrez nos travaux de recherche et nos publications. Nombre de nos études reposent sur le développement et l'utilisation de protocoles d'analyse d'ADN environnemental (ADNe) pour le suivi de la biodiversité.

79publications
1996 – 2026années
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Dernières publications

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2023Conservation Letters, 23 (2): e12949

Mismatch between conservation needs and actual representation of lions from West and Central Africa in in situ and ex situ conservation

Visser F., Drouilly M., Moodley Y, Michaux J.R., Somers M.

2023PREPRINT (Version 1) available at Research Square

Development of a microfluidic SNP assay for lineage discrimination in the endangered hazel dormouse

Beez T., JLeyhausen J., Muelle S., Michaux J.R., Verbeylen G., Nowak K. Cocchiararo B.

2023Forest Ecology and Management, 529: 120650

Seed dispersal by duikers in selectively logged rainforests: Overlooked dispersal of an important animal community

Houngbégnon F., Gillet J.F., Michaux J.R., Brostaux Y., Zébazé D., Lhoest S., Vermeulen C., Sonké B., Doucet J.L.

2023Communications Biology

Population genomic analysis of African buffalo (Syncerus caffer) reveals infectious disease as a significant selective influence

Wilkinson T., Talenti A., Cook E. A., Hemmink J D., Paxton E., Mutinda M., Ngulu S D., Jayaraman S, Bishop R P, Obara I, Hourlier T, Giron C.G., Labuschagne M., Atimnedi P., Keyyu J. D., Mramba F., Caron A., Cornelis D., Fyumagwa R., Auty H.R., Michaux J., Smitz N., Toye P., Robert C., Prendergast J.G.D, Morrison L.J.

2023Infection Ecology & Epidemiology, 13, 1: 2270258

The prevalence of rodent-borne zoonotic pathogens in the South Gobi desert region of Mongolia

Carol Esson, Gustaf Samelius, Tanja M Strand, Åke Lundkvist, Johan R Michaux, Therese Råsbäck, Tara Wahab, Tserennadmid Nadia Mijiddorj, Lee Berger, Lee F Skerratt, Matthew Low

2023MalaCo

Découverte de populations permanentes de Xerotricha conspurcata (Draparnaud, 1801) en Belgique et commentaires sur l'utilisation des banques de données de séquences génétiques pour l'identification de gastéropodes

Bronne L., Pigneur L.-M. & Michaux J.

2023Ecology and Evolution, 2023;13:e10788

Using eDNA for mammal inventories still needs naturalist expertise, a meta-analysis

Van Leeuwen P. & Michaux J.R.

2023Plos One

All-you-can-eat buffet: a spider-specialized bat species (Myotis emarginatus) turns into a pest flies' eater in cowsheds

Vescera C., van Vyve C., Smits Q., Michaux J.R.

2023Biol Invasions 25: 1693–1709

A microbial tale of farming, invasion and conservation: on the gut bacteria of European and American mink in Western Europe

Pauline M. L. van Leeuwen, Albrecht I. Schulte-Hostedde, Christine Fournier-Chambrillon, Pascal Fournier, Lise-Marie Pigneur, Carmen M. Aranda, Fermín Urra-Maya & Johan R. Michaux

2022Conservation Genetics Resources 14: 195–201

Genotyping-by-sequencing based SNP discovery in a non-model rodent, the endangered hazel dormouse

Leyhausen J., Cocchiararo B., Nowak C., Ansorge H., Bertolino S., Buchner S., Fietz J., Foppen R., Juskaitis R., La Haye M., Lang J., Michaux J.R., Verbeylen G., Von Thaden A. & Muller S.

2022Arctic Journal, 74 (1)

New insights on polar bear (Ursus maritimus) diet from faeces based on next Generation Sequencing technologies

Michaux J.R., Dyck M., Boag P., Loughed S. & Van coeverden de Groot

2021Mammalian Biology, 101:63-70

Identifying prey of the Javan mongoose (Urva javanica) in Java from fecal samples using next-generation sequencing

Subrata S., Siregar S., André A. & Michaux J.R.

2021Aquaculture, 535 (2021) 736432

Genetic structure of wild and farmed Nile tilapia (Oreochromis niloticus) populations in Benin based on genome wide SNP technology

Fagbemi M., Pigneur L.M, Andre A., Smitz N., Gennotte V, Michaux J.R., Melard C., Laleye P., Rougeot C.

2021Mammalia

Long-term stress level in a small mammal species undergoing range expansion

André A., Michaux J.R., Gaitan J. & Millien V.

20213;6(2):e00258-21

Free-living, psychrotrophic bacteria of the genus Psychrobacter are descendents of pathobionts

Welter D., Ruaud A., Henseler Z., De Jong H., Van Coeverden de Groot P., Michaux J.R., Gormezano L., Waters J., Youngblut N. & Ley R.

2021Infection, Genetics and Evolution, 93

Revisiting the Pneumocystis host specificity paradigm and transmission ecology in wild Southeast Asian rodents

Latinne A., Chen H.W, Kuo C.C., Singleton G., Stuart A., Malbas F., Demanche C., Chabe M., Michaux J.R. & Morand S.

2021Molecular Ecology 30(18):4584-4600

Food for everyone: differential feeding habits of cryptic bat species inferred from DNA metabarcoding

Andriollo T., Michaux J.R. & Ruedi M.

2021Wildlife Biology, (2):wlb.00809

Genetic support for the current discrete conservation unit of the Central European wolf population

Maciej Szewczyk, Carsten Nowak, Pavel Hulva, Joachim Mergeay, Astrid V. Stronen, Barbora Černá Bolfíková, Sylwia D. Czarnomska, Tom A. Diserens, Viktar Fenchuk, Michał Figura, Arjen de Groot, Andżelika Haidt, Michael M. Hansen, Hugh Jansman, Gesa Kluth, Iga Kwiatkowska, Karolina Lubińska, Johan R. Michaux, Natalia Niedźwiecka, Sabina Nowak, Kent Olsen, Ilka Reinhardt, Maciej Romański, Laurent Schley, Steve Smith, Renata Špinkytė-Bačkaitienė, Przemysław Stachyra, Kinga M. Stępniak, Peter Sunde, Philip F. Thomsen, Tomasz Zwijacz-Kozica, Robert W. Mysłajek

2021Genes 12(10):1555

A meta-analytical investigation of the gap between measured and predicted inter-population genetic diversity in species of high conservation concern - the case of the critically endangered European mink Mustela lutreola L., 1761

Skorupski J., Michaux J.R. & Śmietana P.

2021Naturae, (17): 233-242

Étude comparative de la densité et du déplacement des Desmans des Pyrénées Galemys pyrenaicus par une méthode non invasive

LIM M., BLANC F., MICHAUX J., PIGNEUR L.-M., GILLET F., MARC D., PONCET É. & NÉMOZ M.

2020Mammalian Biology, 100 (1): 19-31

Phylogeography of the Striped Field Mouse, Apodemus agrarius (Rodentia: Muridae), throughout its distribution range in the Palearctic region

Latinne A., Navascués M., Pavlenko M., Kartavtseva I., Ulrich R.G., Tiouchichine M.L., Catteau G., Sakka H., Quéré J.P., Chelomina G., Bogdanov A., Stanko M., Hang L, Neumann K., Henttonen H. & Michaux J.R.

2020Journal of Zoological Systematics and Evolutionary Research

Genetic structure, ecological versatility, and skull shape differentiation in Arvicola water voles

Chevret P., Renaud S., Helvaci Z., Ulrich R., Quéré, J.P. & Michaux J.R.

2019Viruses 2019, 11, 1102

Next-Generation Sequencing on Insectivorous Bat Guano: An Accurate Tool to Identify Arthropod Viruses of Potential Agricultural Concern

Bourgarel, M.; Noël, V.; Pfukenyi, D.; Michaux, J.R, André, A.; Becquart, P.; Cerqueira, F.; Barrachina, C.; Boué, V.; Talignani, L.; Matope, G.; Missé, D.; Morand, S.; Liégeois, F.

2019Infection ecology & epidemiology, 9(1), 1604063

Health and zoonotic Infections of snow leopards Panthera unica in the South Gobi desert of Mongolia

Esson, C., Skerratt, L. F., Berger, L., Malmsten, J., Strand, T., Lundkvist, Å., Järhult, J. D., Michaux, J.R, Mijiddorj, T. N., Bayrakçısmith, R., Mishra, C., & Johansson, Ö.

2019Biological Journal of the Linnean Society. 126 (4):836-851

Consequence of past anthropogenic forest fragmentation on the genetic structure of European mammals: the example of the edible dormouse (Glis glis)

Michaux J.R, Hurner H., Krystufek B., Sara M., Ribas A., Ruch T., Vekhnik V. & Renaud S.

2019PLoS ONE 14(7): e0219135

The menu varies with metabarcoding practices: A case study with the bat Plecotus auritus

Andriollo T, Gillet F, Michaux JR & Ruedi M.

2019Conservation genetics

Current genetic admixture between relictual populations might enhance the recovery of an elusive carnivore, the European otter (Lutra lutra)

Pigneur L-M, Caublot G, Fournier-Chambrillon C, Fournier P, Girralda-Carrera G, Grémillet X, Le Roux B., Marc D, Simonnet F, Smitz N., Sourp E., Steinmetz J., Urra-Maya F. & Michaux JR

2018Naturae

Apport de la génétique pour l'étude de la dynamique des populations de Loutre d'Europe Lutra lutra (L., 1758) en France

Pigneur L-M, Michaux J, Jacob G

2018Archives of Virology, ISSN 1432-8798

Serological survey of feline viral pathogens in free-living European wildcats (Felis s. silvestris) from Luxembourg

Mike Heddergott, Sandra Steeb, Natalia Osten-Sacken, Peter Steinbach, Simone Schneider, Jacques P. Pir, Franz Müller, Lise-Marie Pigneur, Alain C. Frantz

2018Parasitology Research, ISSN 1432-1955

Severe parasitism by Versteria mustelae (Gmelin, 1790) in the critically endangered European mink Mustela lutreola (Linnaeus, 1761) in Spain

Christine Fournier-Chambrillon, Jordi Torres, Jordi Miquel, Adrien André, Johan Michaux, Karin Lemberger, Gloria Giralda Carrera, Pascal Fournier

2017Mammalian Biology, 87: 176–184

Comparison of diet and prey selectivity of the Pyrenean desman and the Eurasian water shrew using next-generation sequencing methods

Biffi M., Lafaille P., Jabiol J., André A., Gillet F., Lamothe S., Michaux J.R., Buisson L.

2017Mammalian Biology, 86: 84-91

Genetic Structure of the Turkish hamster (Mesocricetus brandti)

Neumann K., Yiğit N., Fritzsche P., Çolak E., Feoktistova N., Surov N. & Michaux J.R.

2017Journal of Mammalogy, 87: 176–184

Novel insights into the diet of the Pyrenean desman Galemys pyrenaicus using next-generation sequencing molecular analyses

Biffi M., Gillet F., Laffaille P., Aulagnier S., Blanc F., Colas F., Galan M., Némoz M., Tiouchichine M.-L, Buisson L. & Michaux J.R.

2017Evolutionary Ecology

Effects of parasite and historic driven selection on the diversity and structure of a MHC-II gene in a small mammal species (Peromyscus leucopus) undergoing range expansion

André A., Millien V., Galan M., Ribas A. & Michaux J. R.

2017Infection, Genetics and Evolution 52: 10–18

Liver microbiome of Peromyscus leucopus, a key reservoir host species for emerging infectious diseases in North America

André A., Mouton A., Millien V. & Michaux J.R.

2017Conservation Genetics, 18: 181-197

Evolutionary history and species delimitations: a case study of the hazel dormouse, Muscardinus avellanarius

Mouton A., Grill A., Mortelliti A., Sara M., Krystufek B., Buchner S., Lang J., Adamik P., Randi E., Amori G., Elmeros M., Verbeylen G., Dorenbosch M., Schulz B., Aloise G., Matur F, Michaux J.R.

2017Journal of Mammalogy, 98 (2):523–532

Evidence of a fine-scale genetic structure for the endangered Pyrenean desman (Galemys pyrenaicus) in the French Pyrenees

Gillet F., Cabria Garrido M.T., Blanc F., Fournier-Chambrillon C., Némoz M., Sourp E., Vial-Novella C, Zardoya R., Aulagnier S. & Michaux J.R.

2016Scientific Reports

High gene flow between alternative morphs and the persistence of facultative paedomorphosis

Oromi N., Michaux J.R. & Denoël M.

2016Journal of Virology, 26;90(18):8169-80

An endogenous gibbon ape leukemia virus (GALV) identified in a rodent (Melomys sp.) from Indonesia

Alfano N., Michaux J.R., Fabre P.H., Morand S., Alpin K., Tsangaras K, Löber U, Fitriana Y, Semiadi G., Ishida Y, Helgen K., Roca A.L., EidenM.V., Greenwood A.D.

2016Parasitology research, 115(6), 2499-2503

First report of Filaria martis Gmelin, 1790 in the European mink, Mustela lutreola (Linnaeus, 1761)

Torres, J., Miquel, J., Fournier-Chambrillon, C., André, A., Maya, F. U., Carrera, G. G., & Fournier, P.

2016Cybium, 40(1): 43-49

Is adult translocation a credible way to accelerate the recolonization process of Chondrostoma nasus in a rehabilitated river?

Ovidio, M., Hanzen, C., Gennotte, V., Michaux, J.R., Benitez, J.-P., & Dierckx, A.

2016Mammalian Biology, 81: 595–60

Genome-wide single nucleotide polymorphism (SNPs) identification and characterization on a non-model organism, the African buffalo (Syncerus caffer), using next generation sequencing

Smitz N., Van Hooft W.F., Heller R., Cornélis D., Chardonnet P., Kraus R. & Michaux J.R.

2016Zoologica Scripta, 45: 349-364

Molecular phylogeny of Southeast Asian arboreal murine rodents

Pages M., Fabre P.-H., Chaval Y., Mortelliti A., Nicolas V., Wells K., Michaux J.R. & Lazzari V.

2015Viruses 2015, 7, 6279–6290

Alphacoronaviruses Detected in French Bats are phylogeographically Linked to Coronaviruses of European Bats

Goffard A., Demanche C., Arthur L., Pinçon C., Michaux J.R. & Dubuisson J.

2015Cambridge Studies in Morphology and Molecules: 300-322

Biogeographic variations in woodmice: testing for the rôle of morphological variation as a line of least résistance to evolution

Renaud S., Quéré J.P. & Michaux J.R.

2015Mammalian Biology 80: 505–509

A new method to identify the endangered Pyrenean desman and to study its diet, using next generation sequencing from faeces

Gillet F, Tiouchichine ML, Galan M, Blanc F, Némoz M, Aulagnier S, &Michaux JR

2015Mitochondrial DNA

Genetic variations of Turkish bank vole, Myodes glareolus (Mammalia:Rodentia), in northern Anatolia, inferred from mtDNA

Colak R., Karacan GO, Kandemir I, Colak E., Kankilic T., Yigit N, & Michaux JR

2015BMC Evol. Biol

Patterns of genetic variation of the endangered European mink (Mustela lutreola L., 1761)

Cabria M.T., Gonzalez E.G., Gomez-Moliner B. J., Michaux J.R. & Zardoya R.

2015Integrative zoology

Global parasite and Rattus rodent invasions: The consequences for rodent-borne diseases

Morand S., Bordes F., Hsuan‐Wien C, Claude J., Cosson J.F., Galan M., Czirják G., Greenwood A.D., Latinne A., Michaux J.R., Ribas A.

2015Journal of Zoological Systematics and Evolutionary Research

Geographic and demographic history of the wood mouse (Apodemus sylvaticus) in North Africa: a comparison of fossil and genetic data

Lalis A, Leblois R., Liefried S., Ouarour A., Beeravolu C., Michaux J.R., Hamani A., Denys C. Nicolas V.

2015Plos One, 10 (4)

What do Pneumocystis organisms tell us about the phylogeography of their hosts? The case of the woodmouse Apodemus sylvaticus in continental Europe and western mediterranean islands

Demanche C.&Deville M., Barriel V., Pottier M., Viscogliosi E., Dei Cas E., Morand S., Michaux J.R, Guillot J.

2015Wildlife Research, 42 (2): 98-107

Progress on research on rodents and rodent-borne zoonoses in Southeast Asia

Blasdell, K., Bordes, F., Chaisiri, K., Chaval, Y., Claude, J., Cosson, J.-F., Latinne, A., Michaux, J.R., Morand, S., Pagès, M., & Tran, A.

2015Biological Conservation, 184: 182-192

Integrating hydrological features and genetically validated occurrence data in occupancy modeling of an endemic and endangered semi-aquatic mammal species, Galemys pyrenaicus

Charbonnel A., Buisson L. Biffi M., D'Amico F., Besnard A., Aulagnier S., Blanc F., Gillet F., Lacaze V., Michaux J.R., Némoz M., Pagé C., Sanchez‐Perez J-M, Sauvage S., Laffaille P.

2015Journal of Biogeography, 42 (9)

Influence of past and future climate changes on the distribution of three Southeast Asian murine rodents

Latinne A., Meynard C., Herbreteau V., Waengsothorn S., Morand S. & Michaux J.R.

2015Journal of Biogeography, 42 (5): 856-870

Out-of-Himalaya: The impact of past Asian environmental changes on the evolutionary and biogeographical history of Dipodoidea (Rodentia)

Pisano J., Condamine F.L., Lebedev V., Bannikova A., Quéré J.P., Shenbrot G., Pagès M. & Michaux J.R.

2015BMC Evol. Biol, 14 (1): 203

Impact of ancient and recent habitat fragmentation on the genetic structure of southern African populations of buffalo (Syncerus caffer)

Smitz N., Cornélis D., Chardonnet P., Caron A., Melletti M., Marescaux J. & Michaux J.R.

2015BMC Genomics 16:613

Endogenous murine leukemia rétroviral variation across wild European and inbred strains of house mouse

Hartmann S., Hasenkamp N., Mayer J., Michaux J.R., Morand S., Mazzoni C.J., Roca A.L. & Alex D. Greenwood.

2014Mammalia, (Online)

PCR-RFLP identification of the endangered Pyrenean desman, Galemys pyrenaicus (Soricomorpha, Talpidae), based on faecal DNA

Gillet F., Cabria M.T., Némoz M., Blanc F., Fournier-Chambrillon C., Sourp E., Vial-Novella C., Aulagnier S. & Michaux J.R.

2014Acta Parasitologica 60 (1): 85-98

Co-phylogeography between the Bank Vole (Myodes glareolus) and one of its nematode specific parasites Heligmosomum mixtum

Sakka H., Henttonen H., Olsson G. & Michaux J.R.

2014Plos One, 9 (10)

COCHAP: COnCatenation Hybridization cAPture enriches small genomes using short PCR products

Tsangaras K., Wales N., Sicheritz-Pontén T., Ishida Y., Rasmussen S., Raghavan M., Michaux J.R., Morand S., Roca A., M. Gilbert T.P., Greenwood A.D.

2014Molecular Biology & Evolution, 79: 12-20

Negative purifying selection drives prion and doppel protein evolution in primates, bovids and rodents

Tsangaras K., Kolokotronis S.O., Ulrich R.G., Morand S., Michaux J.R. & Greenwood A.D.

2014Plos One, 9, 10.1371/journal.pone.0097619

The genetic legacy of multiple beaver reintroductions in Central Europe

Frosch C, Kraus R., Angst C., Allgöwer R., Michaux J.R., Teubner J. & Nowak C.

2014Molecular Ecology, 23: 3306-3321

Postglacial climate changes and rise of three ecotypes of harbour porpoises in western Palearctic waters

Fontaine M., Roland K., Calves I., Austerlitz F., Tolley K.A., Birkun A., Ferreira M., Jauniaux T., Llavona A., Oztürk B., Öztürk A., Ridoux V., Rogan E., Sequeira M., Siebert U., Vikingsson G.A., Borrell A., Michaux J.R. & Aguilar A.

2014PloS one, 9(12): e116145

Bacterial community composition in three freshwater reservoirs of different alkalinity and trophic status

Llirós, M., Inceoğlu, Ö., García-Armisen, T., Anzil, A., Leporcq, B., Pigneur, L. M., ... & Servais, P.

2014BMC evolutionary biology, 14(1): 203

Genetic structure of fragmented southern populations of African Cape buffalo (Syncerus caffer caffer)

Smitz, N., Cornélis, D., Chardonnet, P., Caron, A., de Garine-Wichatitsky, M., Jori, F., Pigneur, L. M,... & Kanapeckas, K. L.

2014Molecular ecology, 23(20): 5102-5116

Genetic uniformity and long-distance clonal dispersal in the invasive androgenetic Corbicula clams

Pigneur L.-M., Etoundi E., Aldridge D. C., Marescaux J., Yasuda N., & Van Doninck K.

2014Echo du PNA Loutre. 7: 5-7

Sur les traces de la Loutre dans le Limousin

Pigneur L.-M., Caublot G., Fournier-Chambrillon C., Fournier P., Michaux J.

2014Actes des 11èmes rencontres Bourgogne-Nature et 37e colonie francophone de Mammalogie (SFEPM): 35-39

Génétique de la conservation de la Loutre d'Europe en France

Pigneur L.-M., Caublot G., Fournier-Chambrillon C., Fournier P., Girralda-Carrera G., Marc D., Simonnet F., Sourp E., Steinmetz J., Urra-Maya F.,Michaux J.

2014Evolutionary Applications Journal, 7: 645-662

Nuclear and mitochondrial genetic structure in the Eurasian beaver (Castor fiber) – implications for future réintroductions

Senn H., Ogden R., Frosch C., Munclinger P., Campbell-Palmer R., Durka W., Kraus R., Saveljev A., Nowak C., Stubbe A., Stubbe M., MichauxJ.R., Samjaa M., Ulevivius A. & Rosell F.

2013Zoological Journal of the Linnean Society, 169: 408-447

A new genus of rodent from Wallacea (Rodentia: Muridae: Murinae: Rattini) and its implication for biogeography and Indo-Pacific Rattini systematics

Fabre PH, Pages M., Musser G., Fitriana Y. Fjeldsaa J., Jennings A., Jonsson K.A., Kennedy J., Michaux J.R., Semiadi G., Supriatna N., Helgen K.

2013Systematics and Biodiversity, 3: 323-344

Murinae rodent diversity in Thai limestone karsts: a phylogenetic approach

Latinne A., Waengsothorn S. & Michaux J.R.

2013Zoologica Scripta, 42: 406-426

Integration of DNA-based delimitation of species and morphology reveals cryptic diversity in Brevipalpus mites (Acari: Tenuipalpidae)

Navia D. N., Mendoça R.S., Ferragut F., Miranda L. C., Trincado R.C., Michaux J.R., Navajas M.

2013Cave and Karst Studies, 76: 139-145

Diet analysis of three Leopoldamys species using next-generation sequencing from faeces

Latinne A., Galan M., Waengsothorn S., Michaux J.R.

2013Zootaxa 3731 (4): 589–598

Is Leopoldamys neilli (Rodentia, Muridae) a synonym of Leopoldamys herberti? A reply to Balakirev et al.

Latinne A., Chaval Y., Waengsothorn S., Rojanadilok P., Eiamampa K., Sribuarod K., Herbreteau V., Morand S. & Michaux J.R.

2013Plos One, 8: 1-17

A Pan-African phylogeographical study of the African buffalo: investigating subspecies divergence

Smitz N., Berthouly C., Cornelis D., Heller R., Van Hooft W.F., Chardonnet P., Prins H.H.T., De Iongh H.H., Caron A. & Michaux J.R.

2013Zoologica Scripta

Molecular phylogeny and systematics of Dipodoidea: a test of morphological hypotheses

Lebedev, V., Bannikova, A., Pagès, M., Pisano, J., Michaux, J.R, and Shenbrot, G.

2013Actes du 36e

Etude génétique préliminaire de quelques populations de Loutres en France et Navarre

Pigneur L.-M., Marc D., Fournier P., Fournier-Chambrillon C., Steinmetz J., Rieu L., Giralda-Carrera G., Urra F., Van Doninck K., Michaux J.R.

2011Global Ecology and Biogeography, 22(7): 784-795

Large-scale geographic patterns of diversity and community structure of pelagic crustacean zooplankton in Canadian lakes

Pinel‐Alloul, B., André, A., Legendre, P., Cardille, J. A., Patalas, K., & Salki, A.

2011BMC Evolutionary Biology, 11(1): 147

Phylogeny and androgenesis in the invasive Corbicula clams (Bivalvia, Corbiculidae) in Western Europe

Pigneur, L. M., Marescaux, J., Roland, K., Etoundi, E., Descy, J. P., & Van Doninck, K.