86 results on '"Larrieu, L."'
Search Results
2. Autosomal dominant SPG9: intrafamilial variability and onset during pregnancy
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Marelli, C., Badiou, S., Genestet, S., Larrieu, L., Damier, P., Camu, W., Planes, M., Koenig, M., and Guissart, C.
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- 2020
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3. Post-harvesting dynamics of the deadwood profile: the case of lowland beech-oak coppice-with-standards set-aside stands in France
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Larrieu, L., Cabanettes, A., Gouix, N., Burnel, L., Bouget, C., and Deconchat, M.
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- 2019
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4. Trait-Based Response of Deadwood and Tree-Related Microhabitats to Decline in Temperate Lowland and Montane Forests
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Bouget, C., primary, Cours, J., additional, Larrieu, L., additional, Parmain, G., additional, Müller, J., additional, Speckens, V., additional, and Sallé, A., additional
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- 2023
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5. Impact of socio-economic status on the prevalence of severe hypertriglyceridemia in Argentina
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Corral, P., primary, Sáenz, B., additional, Blautzik, F., additional, Taie, L. Fares, additional, Larrieu, L. Rosa, additional, Bilbao, M., additional, Sayanes, M., additional, and Matta, M., additional
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- 2023
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6. Key features for saproxylic beetle diversity derived from rapid habitat assessment in temperate forests
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Bouget, C., Larrieu, L., and Brin, A.
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- 2014
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7. Combined effects of area, connectivity, history and structural heterogeneity of woodlands on the species richness of hoverflies (Diptera: Syrphidae)
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Herrault, P.-A., Larrieu, L., Cordier, S., Gimmi, U., Lachat, T., Ouin, A., Sarthou, J.-P., and Sheeren, D.
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- 2016
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8. Old-growth criteria and indicators for beech forests (Fageta)
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Vandekerkhove, K., Meyer, P., Kirchmeir, H., Piovesan, G., Hirschmugl, Manuela, Larrieu, L., Kozák, D., Mikoláš, M., Nagel, T., Schmitt, C., and Blumröder, J.
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Version of record
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- 2022
9. Author Correction: European primary forest database v2.0 (Scientific Data, (2021), 8, 1, (220), 10.1038/s41597-021-00988-7)
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Sabatini F. M., Bluhm H., Kun Z., Aksenov D., Atauri J. A., Buchwald E., Burrascano S., Cateau E., Diku A., Duarte I. M., Fernandez Lopez A. B., Garbarino M., Grigoriadis N., Horvath F., Keren S., Kitenberga M., Kis A., Kraut A., Ibisch P. L., Larrieu L., Lombardi F., Matovic B., Melu R. N., Meyer P., Midteng R., Mikac S., Mikolas M., Mozgeris G., Panayotov M., Pisek R., Nunes L., Ruete A., Schickhofer M., Simovski B., Stillhard J., Stojanovic D., Szwagrzyk J., Tikkanen O. -P., Toromani E., Volosyanchuk R., Vrska T., Waldherr M., Yermokhin M., Zlatanov T., Zagidullina A., Kuemmerle T., Sabatini F.M., Bluhm H., Kun Z., Aksenov D., Atauri J.A., Buchwald E., Burrascano S., Cateau E., Diku A., Duarte I.M., Fernandez Lopez A.B., Garbarino M., Grigoriadis N., Horvath F., Keren S., Kitenberga M., Kis A., Kraut A., Ibisch P.L., Larrieu L., Lombardi F., Matovic B., Melu R.N., Meyer P., Midteng R., Mikac S., Mikolas M., Mozgeris G., Panayotov M., Pisek R., Nunes L., Ruete A., Schickhofer M., Simovski B., Stillhard J., Stojanovic D., Szwagrzyk J., Tikkanen O.-P., Toromani E., Volosyanchuk R., Vrska T., Waldherr M., Yermokhin M., Zlatanov T., Zagidullina A., and Kuemmerle T.
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ComputingMethodologies_PATTERNRECOGNITION ,n.a ,ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION ,GeneralLiterature_REFERENCE(e.g.,dictionaries,encyclopedias,glossaries) - Abstract
The original version of this Data Descriptor omitted the following information from the Acknowledgements.
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- 2021
10. In search of the best local habitat drivers for saproxylic beetle diversity in temperate deciduous forests
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Bouget, C., Larrieu, L., Nusillard, B., and Parmain, G.
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- 2013
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11. Audiological findings in 100 USH2 patients
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Abadie, C, Blanchet, C, Baux, D, Larrieu, L, Besnard, T, Ravel, P, Biboulet, R, Hamel, C, Malcolm, S, Mondain, M, Claustres, M, and Roux, A-F
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- 2012
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12. Disponibilidad y relación de calcio y magnesio
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Ferro, D.A., primary, Lozano, L.A., additional, Bartoli, C.G., additional, Fanello, D.D., additional, Larrieu, L., additional, Millan, G.J., additional, and Soracco, C.G., additional
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- 2020
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13. Disponibilidad y relación de calcio y magnesio: Efecto sobre exportación y concentración en raigrás y soja
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Ferro, D.A., Lozano, L.A., Bartoli, C.G., Fanello, D.D., Larrieu, L., Millan, G.J., Soracco, C. G., Ferro, D.A., Lozano, L.A., Bartoli, C.G., Fanello, D.D., Larrieu, L., Millan, G.J., and Soracco, C. G.
- Abstract
Ca and Mg are involved in plant growth according to their availability, and possibly their relationship. The soils of the Pampean Region have been considered well endowed with these elements, although they diagnosed areas with low contents. The objective of this work was to evaluate different concentrations of Ca in nutrient solution on the production of dry matter (DM), Ca and Mg content in DM, and its annual export in annual ryegrass (Lolium multiflorum L.) and forage soybean (Glycine max [L.] Merr). Additionally, the effect of doubling the concentration at the same Ca/Mg ratio was evaluated. A test was carried out with nutrient solutions of 1, 5, 9 and 12 mM Ca and 2 mM Mg. A treatment with 10 mM Ca and 4 mM Mg was added. Three cuts were made in ryegrass and one in soybeans. In ryegrass, it was determined that the levels of calcium nutrition influence the concentrations and export of Ca and Mg in MS, without effects on the production of DM. The Ca/Mg ratio was occasionally related to the concentration of Ca and Mg in MS and in the export of Ca and Mg. In soybean, calcium nutrition levels influence the production of DM, concentrations of Ca in DM and the export of Ca and Mg, while they do not intervene in the concentration of Mg in DM. The Ca/Mg ratio in solution occasionally had an effect on the concentration of Ca in MS and on the export of Ca and Mg, El Ca y el Mg intervienen en el crecimiento vegetal según su disponibilidad, y posiblemente su relación. Los suelos de la Región Pampeana se han considerado bien dotados de estos elementos, aunque diagnosticaron áreas con bajos contenidos. El objetivo del trabajo fue evaluar diferentes concentraciones de Ca en solución nutritiva sobre la producción de materia seca (MS), contenido de Ca y Mg en MS, y su exportación aérea en raigrás anual (Lolium multiflorum L.) y soja forrajera (Glycine max [L.] Merr). Adicionalmente, se evaluó el efecto de duplicar la concentración a igual relación Ca/Mg. Se realizó un ensayo con soluciones nutritivas de 1, 5, 9 y 12 mM Ca y 2 mM Mg. Se adicionó un tratamiento con 10 mM Ca y 4 mM Mg. Se realizaron tres cortes en raigrás y uno en soja. Se determinó que en raigrás los niveles de nutrición cálcica influyen sobre las concentraciones y exportación de Ca y Mg en MS, sin efectos sobre la producción de MS. La relación Ca/Mg ocasionalmente se relacionó con la concentración de Ca y Mg en MS y en la exportación de Ca y Mg. En soja, los niveles de nutrición cálcica influyen sobre la producción de MS, concentraciones de Ca en MS y en la exportación de Ca y Mg, mientras que nointervienen en la concentración de Mg en MS. En este cultivo, la relación Ca/Mg en solución ocasionalmente produjo efecto en la concentración de Ca en MS y en la exportación de Ca y Mg
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- 2020
14. Quantifying the impact of tree-diebacksand salvage logging on mountain forest biodiversity using metabarcoding
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Sire, L., Rougerie, R., Bouget, C., Larrieu, L., Courtial, B., Bezier, A., Yu, D., Herniou, E., Lopez Vaamonde, C., Institut de recherche sur la biologie de l'insecte UMR7261 (IRBI), Université de Tours (UT)-Centre National de la Recherche Scientifique (CNRS), Muséum national d'Histoire naturelle (MNHN), Dynamiques Forestières dans l'Espace Rural (DYNAFOR), Institut National de la Recherche Agronomique (INRA)-École nationale supérieure agronomique de Toulouse [ENSAT]-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Centre National de la Propriété Forestière, Ecosystèmes forestiers (UR EFNO), Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Unité de recherche Zoologie Forestière (URZF), Institut National de la Recherche Agronomique (INRA), Institute of Zoology, Université de Tours (UT), KUNMING INSTITUTE OF ZOOLOGY CHN, Partenaires IRSTEA, Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Centre National de la Recherche Scientifique - CNRS (FRANCE), Chinese Academy of Sciences (CHINA), Institut National Polytechnique de Toulouse - Toulouse INP (FRANCE), Institut National de la Recherche Agronomique - INRA (FRANCE), Institut national de Recherche en Sciences et Technologies pour l'Environnement et l'Agriculture - IRSTEA (FRANCE), Sorbonne Université (FRANCE), Ecole Pratique des Hautes Etudes - EPHE (FRANCE), Museum National d'Histoire Naturelle - MNHN (FRANCE), Université de Tours (FRANCE), Dynamiques et Ecologie des Paysages Agriforestiers - DYNAFOR (Castanet-Tolosan, France), Université de Tours-Centre National de la Recherche Scientifique (CNRS), Institut National Polytechnique de Toulouse - INPT (FRANCE), Université de Tours, UNIVERSITE DE TOURS IRBI FRA, MNHN PARIS FRA, IRSTEA NOGENT SUR VERNISSON UR EFNO FRA, INRA UMR 1201 DYNAFOR CASTANET TOLOSAN FRA, and INRA ORLEANS FRA
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BOIS MORT ,ECLAIRCIE SANITAIRE ,Biodiversité et Ecologie ,[SDV]Life Sciences [q-bio] ,ADN ,DEPERISSEMENT ,blight ,species assignment ,mountain forest ,dna ,FORET DE MONTAGNE ,[SHS]Humanities and Social Sciences ,ecological indicators ,MARQUEUR GENETIQUE ,Climate change ,DNA barcoding ,ComputingMilieux_MISCELLANEOUS ,DETERMINATION D'ESPECE ,biodiversity ,deadwood ,COLEOPTERE ,BIODIVERSITE ,Saproxylic beetles ,INVENTAIRE ,saproxylic organisms ,inventory ,ORGANISME SAPROXYLIQUE ,[SDE]Environmental Sciences ,genetic markers ,INDICATEUR ECOLOGIQUE - Abstract
Le colloque de Génomique Environnementale (GE) est une manifestation nationale permettant aux chercheurs français et internationaux travaillant sur l’écologie, l’évolution de la biodiversité ou le fonctionnement des écosystèmes d’échanger sur l’utilisation des nouvelles technologies de séquençages (NTS) et des développements récents en bioinformatique. Il s’agit de la quatrième édition du colloque de Génomique Environnementale après Lyon (2011), Rennes (2013) et de Montpellier (2015) organisé sous l'égide du GDR "Génomique Environnementale" (http://gdr3692.wix.com/gdrge) dont les actions sont soutenues par le CNRS, l’INRA et le MNHN. Ce colloque représente une opportunité exceptionnelle pour échanger entre chercheurs/doctorants/post-doctorants et répondre aux défis posés en matière d’environnement, de réchauffement climatique et plus généralement de maîtrise des impacts globaux sur les écosystèmes. Le colloque GE est un lieu d’échanges privilégié permettant un dialogue efficace entre, d’une part, la communauté scientifique et, d’autre part, les acteurs gérant les systèmes d’observation et d’analyse des écosystèmes (zones ateliers, ORE, parcs naturels etc...) ou les demandes sociétales dont les entreprises sont souvent porteuses.
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- 2017
15. Index of Biodiversity Potential (IBP): How to extend it to Mediterranean forests?
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Gonin, P., Larrieu, L., Deconchat, M., and Service irevues, irevues
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[SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry ,écologie forestière ,bassin méditerranéen ,biodiversité - Published
- 2017
16. Experience of targeted Usher exome sequencing as a clinical test
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Besnard T, García-García G, Baux D, Vaché C, Faugère V, Larrieu L, Léonard S, Millan JM, Malcolm S, Claustres M, and Roux AF
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Bioinformatics ,NSHL ,next-generation sequencing ,Usher syndrome ,eye diseases ,variant prioritization - Abstract
We show that massively parallel targeted sequencing of 19 genes provides a new and reliable strategy for molecular diagnosis of Usher syndrome (USH) and nonsyndromic deafness, particularly appropriate for these disorders characterized by a high clinical and genetic heterogeneity and a complex structure of several of the genes involved. A series of 71 patients including Usher patients previously screened by Sanger sequencing plus newly referred patients was studied. Ninety-eight percent of the variants previously identified by Sanger sequencing were found by next-generation sequencing (NGS). NGS proved to be efficient as it offers analysis of all relevant genes which is laborious to reach with Sanger sequencing. Among the 13 newly referred Usher patients, both mutations in the same gene were identified in 77% of cases (10 patients) and one candidate pathogenic variant in two additional patients. This work can be considered as pilot for implementing NGS for genetically heterogeneous diseases in clinical service.
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- 2014
17. Usher syndrome type 2 caused by activation of an USH2A pseudoexon: implications for diagnosis and therapy
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Vaché C, Besnard T, le Berre P, García-García G, Baux D, Larrieu L, Abadie C, Blanchet C, Bolz HJ, Millan J, Hamel C, Malcolm S, Claustres M, and Roux AF
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USH2A sequencing in three affected members of a large family, referred for the recessive USH2 syndrome, identified a single pathogenic alteration in one of them and a different mutation in the two affected nieces. As the patients carried a common USH2A haplotype, they likely shared a mutation not found by standard sequencing techniques. Analysis of RNA from nasal cells in one affected individual identified an additional pseudoexon (PE) resulting from a deep intronic mutation. This was confirmed by minigene assay. This is the first example in Usher syndrome (USH) with a mutation causing activation of a PE. The finding of this alteration in eight other individuals of mixed European origin emphasizes the importance of including RNA analysis in a comprehensive diagnostic service. Finally, this mutation, which would not have been found by whole-exome sequencing, could offer, for the first time in USH, the possibility of therapeutic correction by antisense oligonucleotides (AONs).
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- 2012
18. L’Indice de biodiversité potentielle (IBP) en région méditerranéenne
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Gonin, P., Larrieu, L., Martel, S., and Service irevues, irevues
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BIODIVERSITE ,[SDV.SA.SF] Life Sciences [q-bio]/Agricultural sciences/Silviculture, forestry ,TAXONOMIE ,FRANCE MEDITERRANEENNE - Published
- 2012
19. Combined effects of area, connectivity, history and structural heterogeneity of woodlands on the species richness of hoverflies (Diptera: Syrphidae)
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Herrault, P.-A., primary, Larrieu, L., additional, Cordier, S., additional, Gimmi, U., additional, Lachat, T., additional, Ouin, A., additional, Sarthou, J.-P., additional, and Sheeren, D., additional
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- 2015
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20. Comparison of tree microhabitat abundance and diversity in the edges and interior of small temperate woodlands
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Ouin, A., primary, Cabanettes, A., additional, Andrieu, E., additional, Deconchat, M., additional, Roume, A., additional, Vigan, M., additional, and Larrieu, L., additional
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- 2015
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21. The USH2A c.2299delG mutation: dating its common origin in a Southern European population
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Aller E, Larrieu L, Jaijo T, Baux D, Espinos C, Gonzalez-Candelas F, Najera C, Palau F, Claustres M, Roux A, and Millan J
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haplotype ,USH2A ,c.2299delG ,otorhinolaryngologic diseases ,dating - Abstract
Usher syndrome type II is the most common form of Usher syndrome. USH2A is the main responsible gene of the three known to be disease causing. It encodes two isoforms of the protein usherin. This protein is part of an interactome that has an essential role in the development and function of inner ear hair cells and photoreceptors. The gene contains 72 exons spanning over a region of 800 kb. Although numerous mutations have been described, the c.2299delG mutation is the most prevalent in several populations. Its ancestral origin was previously suggested after the identification of a common core haplotype restricted to 250 kb in the 5' region that encodes the short usherin isoform. By extending the haplotype analysis over the 800 kb region of the USH2A gene with a total of 14 intragenic single nucleotide polymorphisms, we have been able to define 10 different c.2299delG haplotypes, showing high variability but preserving the previously described core haplotype. An exhaustive c.2299delG/control haplotype study suggests that the major source of variability in the USH2A gene is recombination. Furthermore, we have evidenced twice the amount of recombination hotspots located in the 500 kb region that covers the 3' end of the gene, explaining the higher variability observed in this region when compared with the 250 kb of the 5' region. Our data confirm the common ancestral origin of the c.2299delG mutation. European Journal of Human Genetics (2010) 18, 788-793; doi: 10.1038/ejhg.2010.14; published online 10 February 2010
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- 2010
22. Deadwood and tree microhabitat dynamics in unharvested temperate mountain mixed forests: A life-cycle approach to biodiversity monitoring
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Larrieu, L., primary, Cabanettes, A., additional, Gonin, P., additional, Lachat, T., additional, Paillet, Y., additional, Winter, S., additional, Bouget, C., additional, and Deconchat, M., additional
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- 2014
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23. Does a set-aside conservation strategy help the restoration of old-growth forest attributes and recolonization by saproxylic beetles?
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Bouget, C., primary, Parmain, G., additional, Gilg, O., additional, Noblecourt, T., additional, Nusillard, B., additional, Paillet, Y., additional, Pernot, C., additional, Larrieu, L., additional, and Gosselin, F., additional
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- 2014
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24. Retentissement et prise en charge de la surdité en cas de syndrome de Usher de type 2
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Blanchet, C., primary, Roux, A., additional, Bigi, A., additional, Baux, D., additional, Biboulet, R., additional, Larrieu, L., additional, Besnard, T., additional, Hamel, C., additional, Claustres, M., additional, and Mondain, M., additional
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- 2012
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25. Audiological findings in 100 USH2 patients
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Abadie, C, primary, Blanchet, C, additional, Baux, D, additional, Larrieu, L, additional, Besnard, T, additional, Ravel, P, additional, Biboulet, R, additional, Hamel, C, additional, Malcolm, S, additional, Mondain, M, additional, Claustres, M, additional, and Roux, A‐F, additional
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- 2011
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26. Novel deletions involving the USH2A gene in patients with Usher syndrome and retinitis pigmentosa
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García-García G, Aller E, Jaijo T, Maria Jose Aparisi, Larrieu L, Faugère V, Blanco-Kelly F, Ayuso C, Af, Roux, and Jm, Millán
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otorhinolaryngologic diseases - Abstract
Purpose: The aim of the present work was to identify and characterize large rearrangements involving the USH2A gene in patients with Usher syndrome and nonsyndromic retinitis pigmentosa. Methods: The multiplex ligation-dependent probe amplification (MLPA) technique combined with a customized array-based comparative genomic hybridization (aCGH) analysis was applied to 40 unrelated patients previously screened for point mutations in the USH2A gene in which none or only one pathologic mutation was identified. Results: We detected six large deletions involving USH2A in six out of the 40 cases studied. Three of the patients were homozygous for the deletion, and the remaining three were compound heterozygous with a previously identified USH2A point mutation. In five of these cases, the patients displayed Usher type 2, and the remaining case displayed nonsyndromic retinitis pigmentosa. The exact breakpoint junctions of the deletions found in USH2A in four of these cases were characterized. Conclusions: Our study highlights the need to develop improved efficient strategies of mutation screening based upon next generation sequencing (NGS) that reduce cost, time, and complexity and allow simultaneous identification of all types of disease-causing mutations in diagnostic procedures.
27. European primary forest database v2.0
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Ferenc Horváth, Olli-Pekka Tikkanen, Gintautas Mozgeris, Srđan Keren, Nikolaos Grigoriadis, Matthias Schickhofer, Tobias Kuemmerle, Sabina Burrascano, Dmitry Aksenov, Stjepan Mikac, Jerzy Szwagrzyk, Jonas Stillhard, Erik Buchwald, Tomáš Vrška, Asiya Zagidullina, Rein Midteng, Roman Volosyanchuk, Ángel B. Fernández López, Alen Kiš, Tzvetan Zlatanov, Matteo Garbarino, Elvin Toromani, Leónia Nunes, Momchil Panayotov, Fabio Lombardi, Laurent Larrieu, Radu Nicolae Melu, Martin Mikoláš, Inês Duarte, Mara Kitenberga, Bojan Simovski, Marcus Waldherr, Alejandro Ruete, Peter Meyer, Ann Kraut, José A. Atauri, Eugénie Cateau, Maxim Yermokhin, Rok Pisek, Pierre L. Ibisch, Hendrik Bluhm, Dejan Stojanović, Bratislav Matović, Zoltan Kun, Abdulla Diku, Francesco Maria Sabatini, German Centre for Integrative Biodiversity Research (iDiv), Martin-Luther-Universität Halle Wittenberg (MLU), Lawrence Berkeley National Laboratory [Berkeley] (LBNL), Frankfurt Zoological Society, NGO 'Transparent World', Instituto Complutense de Estudios Internacionales (ICEI), Universidad Complutense de Madrid = Complutense University of Madrid [Madrid] (UCM), MINISTRY OF THE DANISH ENVIRONMENT NATURE AGENCY GRAESTED DNK, Partenaires IRSTEA, Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Università degli Studi di Roma 'La Sapienza' = Sapienza University [Rome], Réserves Naturelles de France, PSEDA ILIRIA ORGANIZATION TIRANA ALB, Centre for Applied Ecology 'Prof. Baeta Neves' (CEABN – InBIO), School of Agriculture, University of Lisbon, Parque Nacional de Garajonay, Università degli studi di Torino, Dipartimento di Scienze Agarie, Forestali e Alimentari (DISAFA), Forest Research Institute of Thessaloniki, Vassilika, Centre for Ecological Research, Institute of Ecology and Botany, Va´cra´to´t, Hungary, University of Agriculture in Krakow, Latvian State Forest Research Institute 'Silava', Institute for Nature Conservation of Vojvodina Province, University of Tartu, Dynamiques et écologie des paysages agriforestiers (DYNAFOR), École nationale supérieure agronomique de Toulouse [ENSAT]-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), CNPF-CRPF Occitanie, Institute of Computer Science [University of Tartu, Estonie], University of Novi Sad, World Wide Fund for Nature, Northwest German Forest Research Institute, Frankfurt Zoological Society (FZS) ETN-WIE-FZS-001, European Commission Joint Research Centre 658876, Department for Nature Protection of the Italian Ministry of the Environment, Land and Sea Protection, Region Pays de la LoireRegion OccitanieRegion Ile-de-France, Czech Science Foundation (Grant GACR) 21-27454S, institutional project EVA CZ.02.1.01/0.0/0.0/16_019/0000803, Ministry of Education, Science & Technological Development, Serbia 451-03-9/2021-14/200197, German Research Foundation (DFG), Sabatini F.M., Bluhm H., Kun Z., Aksenov D., Atauri J.A., Buchwald E., Burrascano S., Cateau E., Diku A., Duarte I.M., Fernandez Lopez A.B., Garbarino M., Grigoriadis N., Horvath F., Keren S., Kitenberga M., Kis A., Kraut A., Ibisch P.L., Larrieu L., Lombardi F., Matovic B., Melu R.N., Meyer P., Midteng R., Mikac S., Mikolas M., Mozgeris G., Panayotov M., Pisek R., Nunes L., Ruete A., Schickhofer M., Simovski B., Stillhard J., Stojanovic D., Szwagrzyk J., Tikkanen O.-P., Toromani E., Volosyanchuk R., Vrska T., Waldherr M., Yermokhin M., Zlatanov T., Zagidullina A., and Kuemmerle T.
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0106 biological sciences ,Statistics and Probability ,Data Descriptor ,Conservation of Natural Resources ,Databases, Factual ,010504 meteorology & atmospheric sciences ,Science ,Forest management ,Biodiversity ,Potential natural vegetation ,Library and Information Sciences ,Forests ,010603 evolutionary biology ,01 natural sciences ,Education ,Databases ,Forest ecology ,ddc:550 ,Conservation of Natural Resource ,Factual ,database ,0105 earth and related environmental sciences ,European primary forest ,[SDV.EE]Life Sciences [q-bio]/Ecology, environment ,geography.geographical_feature_category ,Agroforestry ,Conservation biology ,15. Life on land ,Old-growth forest ,Field (geography) ,550 Geowissenschaften ,Computer Science Applications ,Europe ,Geography ,Disturbance (ecology) ,Statistics, Probability and Uncertainty ,Information Systems - Abstract
Primary forests, defined here as forests where the signs of human impacts, if any, are strongly blurred due to decades without forest management, are scarce in Europe and continue to disappear. Despite these losses, we know little about where these forests occur. Here, we present a comprehensive geodatabase and map of Europe’s known primary forests. Our geodatabase harmonizes 48 different, mostly field-based datasets of primary forests, and contains 18,411 individual patches (41.1 Mha) spread across 33 countries. When available, we provide information on each patch (name, location, naturalness, extent and dominant tree species) and the surrounding landscape (biogeographical regions, protection status, potential natural vegetation, current forest extent). Using Landsat satellite-image time series (1985–2018) we checked each patch for possible disturbance events since primary forests were identified, resulting in 94% of patches free of significant disturbances in the last 30 years. Although knowledge gaps remain, ours is the most comprehensive dataset on primary forests in Europe, and will be useful for ecological studies, and conservation planning to safeguard these unique forests., Measurement(s)Geographic DistributionTechnology Type(s)digital curationFactor Type(s)countrySample Characteristic - Environmentprimary forestSample Characteristic - LocationEurope Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.14540625
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- 2021
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28. AP4B1 hypomorphic variants cause autosomal recessive adult-onset ataxia.
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Sabbagh Q, Poblete NH, Angelini C, Hersent C, Benkirane M, Pointaux M, Larrieu L, Castrioto A, Deberge L, Fluchère F, Ramond F, Lesca G, Koenig M, and Goizet C
- Abstract
Competing Interests: Declarations. Conflict of interest: The authors declare no conflict of interest. Ethical approval and consent to participate: We attest that the research included in this report was conducted in a manner consistent with the principles of research ethics, such as those described in the Declaration of Helsinki and/or the Belmont Report. In particular, this research was conducted with the voluntary, informed consent of any research participant, free of coercion or coercive circumstances, and received local Research Ethics Committee approval (CER-BDX 2023-164) consistent with the principles of research ethics and the legal requirements of the lead authors’ jurisdiction(s). Consent for publication: Not applicable.
- Published
- 2025
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29. De novo and inherited monoallelic variants in TUBA4A cause ataxia and spasticity.
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Benkirane M, Bonhomme M, Morsy H, Safgren SL, Marelli C, Chaussenot A, Smedley D, Cipriani V, de Sainte-Agathe JM, Ding C, Larrieu L, Vestito L, Margot H, Lesca G, Ramond F, Castrioto A, Baux D, Verheijen J, Sansa E, Giunti P, Haetty A, Bergougnoux A, Pointaux M, Ardouin O, Van Goethem C, Vincent MC, Hadjivassiliou M, Cossée M, Rouaud T, Bartsch O, Freeman WD, Wierenga KJ, Klee EW, Vandrovcova J, Houlden H, Debant A, and Koenig M
- Subjects
- Humans, Male, Female, Middle Aged, Adult, Aged, Cerebellar Ataxia genetics, Spinocerebellar Ataxias genetics, Pedigree, Cohort Studies, France, Intellectual Disability, Optic Atrophy, Tubulin genetics, Muscle Spasticity genetics, Mutation, Missense genetics
- Abstract
Alpha-tubulin 4A encoding gene (TUBA4A) has been associated with familial amyotrophic lateral sclerosis and frontotemporal dementia, based on identification of likely pathogenic variants in patients from distinct amyotrophic lateral sclerosis and frontotemporal dementia cohorts. By screening a multicentric French cohort of 448 unrelated probands presenting with cerebellar ataxia, we identified ultra-rare TUBA4A missense variants, all being absent from public databases and predicted pathogenic by multiple in silico tools. In addition, gene burden analyses in the 100 000 Genomes project (100KGP) showed enrichment of TUBA4A rare variants in the inherited ataxia group compared to controls [odds ratio: 57.0847 (10.2-576.7); P = 4.02 ×10-7]. Taken together, we report 12 patients presenting with spasticity and/or cerebellar ataxia and harbouring a predicted pathogenic TUBA4A missense mutation, including five confirmed de novo cases and a mutation previously reported in a large family presenting with spastic ataxia. Cultured fibroblasts from three patients harbouring distinct TUBA4A missense showed significant alterations in microtubule organization and dynamics, providing insight of TUBA4A variants pathogenicity. Our data confirm the identification of a hereditary spastic ataxia disease gene with variable age of onset, expanding the clinical spectrum of TUBA4A associated phenotypes., (© The Author(s) 2024. Published by Oxford University Press on behalf of the Guarantors of Brain. All rights reserved. For commercial re-use, please contact reprints@oup.com for reprints and translation rights for reprints. All other permissions can be obtained through our RightsLink service via the Permissions link on the article page on our site—for further information please contact journals.permissions@oup.com.)
- Published
- 2024
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30. Drivers of wood-inhabiting fungal diversity in European and Oriental beech forests.
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Mamadashvili G, Brin A, Chumak M, Diedus V, Drössler L, Förster B, Georgiev KB, Ghrejyan T, Hleb R, Kalashian M, Kamburov I, Karagyan G, Kevlishvili J, Khutsishvili Z, Larrieu L, Mazmanyan M, Petrov PI, Tabunidze L, Bässler C, and Müller J
- Abstract
The hyperdiverse wood-inhabiting fungi play a crucial role in the global carbon cycle, but often are threatened by deadwood removal, particularly in temperate forests dominated by European beech ( Fagus sylvatica ) and Oriental beech ( Fagus orientalis ). To study the impact of abiotic drivers, deadwood factors, forest management and biogeographical patterns in forests of both beech species on fungal composition and diversity, we collected 215 deadwood-drilling samples in 18 forests from France to Armenia and identified fungi by meta-barcoding. In our analyses, we distinguished the patterns driven by rare, common, and dominant species using Hill numbers. Despite a broad overlap in species, the fungal composition with focus on rare species was determined by Fagus species, deadwood type, deadwood diameter, precipitation, temperature, and management status in decreasing order. Shifting the focus on common and dominant species, only Fagus species, both climate variables and deadwood type remained. The richness of species within the deadwood objects increased significantly only with decay stage. Gamma diversity in European beech forests was higher than in Oriental beech forests. We revealed the highest gamma diversity for old-growth forests of European beech when focusing on dominant species. Our results implicate that deadwood retention efforts, focusing on dominant fungi species, critical for the decay process, should be distributed across precipitation and temperature gradients and both Fagus species. Strategies focusing on rare species should additionally focus on different diameters and on the conservation of old-growth forests., Competing Interests: The authors have no conflicts of interest., (© 2024 The Author(s). Ecology and Evolution published by John Wiley & Sons Ltd.)
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- 2024
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31. Persisting roadblocks in arthropod monitoring using non-destructive metabarcoding from collection media of passive traps.
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Sire L, Schmidt Yáñez P, Bézier A, Courtial B, Mbedi S, Sparmann S, Larrieu L, Rougerie R, Bouget C, Monaghan MT, Herniou EA, and Lopez-Vaamonde C
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- Animals, DNA Barcoding, Taxonomic methods, DNA genetics, Ethanol, Glycols, Biodiversity, Diptera genetics
- Abstract
Background: Broad-scale monitoring of arthropods is often carried out with passive traps ( e.g., Malaise traps) that can collect thousands of specimens per sample. The identification of individual specimens requires time and taxonomic expertise, limiting the geographical and temporal scale of research and monitoring studies. DNA metabarcoding of bulk-sample homogenates has been found to be faster, efficient and reliable, but the destruction of samples prevents a posteriori validation of species occurrences and relative abundances. Non-destructive metabarcoding of DNA extracted from collection medium has been applied in a limited number of studies, but further tests of efficiency are required with different trap types and collection media to assess the consistency of the method., Methods: We quantified the detection rate of arthropod species when applying non-destructive DNA metabarcoding with a short (127-bp) fragment of mitochondrial COI on two combinations of passive traps and collection media: (1) water with monopropylene glycol (H
2 O-MPG) used in window-flight traps (WFT, 53 in total); (2) ethanol with monopropylene glycol (EtOH-MPG) used in Malaise traps (MT, 27 in total). We then compared our results with those obtained for the same samples using morphological identification (for WFTs) or destructive metabarcoding of bulk homogenate (for MTs). This comparison was applied as part of a larger study of arthropod species richness in silver fir ( Abies alba Mill., 1759) stands across a range of climate-induced tree dieback levels and forest management strategies., Results: Of the 53 H2 O-MPG samples from WFTs, 16 produced no metabarcoding results, while the remaining 37 samples yielded 77 arthropod MOTUs in total, of which none matched any of the 343 beetle species morphologically identified from the same traps. Metabarcoding of 26 EtOH-MPG samples from MTs detected more arthropod MOTUs (233) than destructive metabarcoding of homogenate (146 MOTUs, 8 orders), of which 71 were shared MOTUs, though MOTU richness per trap was similar between treatments. While we acknowledge the failure of metabarcoding from WFT-derived collection medium (H2 O-MPG), the treatment of EtOH-based Malaise trapping medium remains promising. We conclude however that DNA metabarcoding from collection medium still requires further methodological developments and cannot replace homogenate metabarcoding as an approach for arthropod monitoring. It can be used nonetheless as a complementary treatment when enhancing the detection of soft-bodied arthropods like spiders and Diptera., Competing Interests: The authors declare there are no competing interests., (©2023 Sire et al.)- Published
- 2023
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32. Increasing landscape heterogeneity as a win-win solution to manage trade-offs in biological control of crop and woodland pests.
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Tortosa A, Giffard B, Sirami C, Larrieu L, Ladet S, and Vialatte A
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- Environmental Biomarkers, Agriculture, Edible Grain, Ecosystem, Forests
- Abstract
Agriculture and forestry cover more than 75% of Europe, and invertebrate pests are a costly challenge for these two economic sectors. Landscape management is increasingly promoted as a solution to enhance biological pest control, but little is known on its effects on adjacent crop fields and woodlands. This study aims to explore the effect of the proportion of woodlands and permanent grasslands as well as crop diversity on biological pest control simultaneously in cereals fields and woodland patches, in south-western France. We used different types of sentinel prey as well as bird and carabid community metrics to assess biological pest control potential in these two ecosystems. We first show that land cover variables influence biological pest control both in cereal fields and woodland patches, but have antagonistic effects in the two ecosystems. Although results vary according to the biological control indicator considered, we show that increasing landscape heterogeneity represents a valuable solution to manage trade-offs and promote higher average predation rates across forests and cereal fields. Our study therefore calls for more integrative studies to identify landscape management strategies that enable nature-based solutions across ecosystems., (© 2023. Springer Nature Limited.)
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- 2023
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33. Ambient and substrate energy influence decomposer diversity differentially across trophic levels.
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Kriegel P, Vogel S, Angeleri R, Baldrian P, Borken W, Bouget C, Brin A, Bussler H, Cocciufa C, Feldmann B, Gossner MM, Haeler E, Hagge J, Hardersen S, Hartmann H, Hjältén J, Kotowska MM, Lachat T, Larrieu L, Leverkus AB, Macagno ALM, Mitesser O, Müller J, Obermaier E, Parisi F, Pelz S, Schuldt B, Seibold S, Stengel E, Sverdrup-Thygeson A, Weisser W, and Thorn S
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- Animals, Trees, Wood, Biodiversity, Europe, Ecosystem, Coleoptera
- Abstract
The species-energy hypothesis predicts increasing biodiversity with increasing energy in ecosystems. Proxies for energy availability are often grouped into ambient energy (i.e., solar radiation) and substrate energy (i.e., non-structural carbohydrates or nutritional content). The relative importance of substrate energy is thought to decrease with increasing trophic level from primary consumers to predators, with reciprocal effects of ambient energy. Yet, empirical tests are lacking. We compiled data on 332,557 deadwood-inhabiting beetles of 901 species reared from wood of 49 tree species across Europe. Using host-phylogeny-controlled models, we show that the relative importance of substrate energy versus ambient energy decreases with increasing trophic levels: the diversity of zoophagous and mycetophagous beetles was determined by ambient energy, while non-structural carbohydrate content in woody tissues determined that of xylophagous beetles. Our study thus overall supports the species-energy hypothesis and specifies that the relative importance of ambient temperature increases with increasing trophic level with opposite effects for substrate energy., (© 2023 The Authors. Ecology Letters published by John Wiley & Sons Ltd.)
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- 2023
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34. Importance of conserving large and old trees to continuity of tree-related microhabitats.
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Kozák D, Svitok M, Zemlerová V, Mikoláš M, Lachat T, Larrieu L, Paillet Y, Buechling A, Bače R, Keeton WS, Vítková L, Begovič K, Čada V, Dušátko M, Ferenčík M, Frankovič M, Gloor R, Hofmeister J, Janda P, Kameniar O, Kníř T, Majdanová L, Mejstřík M, Pavlin J, Ralhan D, Rodrigo R, Roibu CC, Synek M, Vostarek O, and Svoboda M
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- Animals, Forests, Biodiversity, Insecta, Trees, Conservation of Natural Resources
- Abstract
Protecting structural features, such as tree-related microhabitats (TreMs), is a cost-effective tool crucial for biodiversity conservation applicable to large forested landscapes. Although the development of TreMs is influenced by tree diameter, species, and vitality, the relationships between tree age and TreM profile remain poorly understood. Using a tree-ring-based approach and a large data set of 8038 trees, we modeled the effects of tree age, diameter, and site characteristics on TreM richness and occurrence across some of the most intact primary temperate forests in Europe, including mixed beech and spruce forests. We observed an overall increase in TreM richness on old and large trees in both forest types. The occurrence of specific TreM groups was variably related to tree age and diameter, but some TreM groups (e.g., epiphytes) had a stronger positive relationship with tree species and elevation. Although many TreM groups were positively associated with tree age and diameter, only two TreM groups in spruce stands reacted exclusively to tree age (insect galleries and exposed sapwood) without responding to diameter. Thus, the retention of trees for conservation purposes based on tree diameter appears to be a generally feasible approach with a rather low risk of underrepresentation of TreMs. Because greater tree age and diameter positively affected TreM development, placing a greater emphasis on conserving large trees and allowing them to reach older ages, for example, through the establishment of conservation reserves, would better maintain the continuity of TreM resource and associated biodiversity. However, this approach may be difficult due to the widespread intensification of forest management and global climate change., (© 2023 Society for Conservation Biology.)
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- 2023
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35. RFC1 nonsense and frameshift variants cause CANVAS: clues for an unsolved pathophysiology.
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Benkirane M, Da Cunha D, Marelli C, Larrieu L, Renaud M, Varilh J, Pointaux M, Baux D, Ardouin O, Vangoethem C, Taulan M, Daumas Duport B, Bergougnoux A, Corbillé AG, Cossée M, Juntas Morales R, Tuffery-Giraud S, Koenig M, Isidor B, and Vincent MC
- Subjects
- Humans, Reflex, Abnormal, RNA, Messenger genetics, Syndrome, Bilateral Vestibulopathy complications, Cerebellar Ataxia genetics, Peripheral Nervous System Diseases complications, Peripheral Nervous System Diseases genetics, Replication Protein C genetics
- Abstract
Cerebellar ataxia, neuropathy and vestibular areflexia syndrome (CANVAS) is an inherited late-onset neurological disease caused by bi-allelic AAGGG pentanucleotide expansions within intron 2 of RFC1. Despite extensive studies, the pathophysiological mechanism of these intronic expansions remains elusive. We screened by clinical exome sequencing two unrelated patients presenting with late-onset ataxia. A repeat-primer polymerase chain reaction was used for RFC1 AAGGG intronic expansion identification. RFC1 mRNA expression was assessed by quantitative reverse transcription-polymerase chain reaction. We identified the first two CANVAS affected patients who are compound heterozygous for RFC1 truncating variants (p.Arg388* and c.575delA, respectively) and a pathological AAGGG expansion. RFC1 expression studies in whole blood showed a significant reduction of RFC1 mRNA for both patients compared to three patients with bi-allelic RFC1 expansions. In conclusion, this observation provides clues that suggest bi-allelic RFC1 conditional loss-of-function as the cause of the disease., (© The Author(s) 2022. Published by Oxford University Press on behalf of the Guarantors of Brain. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.)
- Published
- 2022
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36. A spatially-explicit database of tree-related microhabitats in Europe and beyond.
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Zudin S, Heintz W, Kraus D, Krumm F, Larrieu L, and Schuck A
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Background: Tree to tree interactions are important structuring mechanisms for forest community dynamics. Forest management takes advantage of competition effects on tree growth by removing or retaining trees to achieve management goals. Both competition and silviculture have, thus, a strong effect on density and distribution of tree related microhabitats which are key features for forest taxa at the stand scale. In particular, spatially-explicit data to understand patterns and mechanisms of tree-related microhabitats formation in forest stands are rare. To train and eventually improve decision-making capacities related to the integration of biodiversity aspects into forest management plot of one hectare, so called marteloscopes were established in the frame of the 'European Integrate Network'. In each plot, a set of data is collected at the individual tree level and stored in a database, the 'I+ repository'. The 'I+ repository' is a centralised online database which serves for maintaining the data of all marteloscope plots. A subset of this repository was made publicly available via the Global Biodiversity Information Facility, based on a data-sharing policy. Data included are tree location in plot, tree species, forest mensuration data (diameter at breast height [cm], tree height [m]), tree status (living or standing dead) and tree-related microhabitats. Further, a visual assessment of timber quality classes is performed in order to provide an estimate of the economic value (market price) for each tree. This information is not part of the GBIF dataset., New Information: Currently 42,078 individual tree observations from 111 plots are made available via the Global Biodiversity Information Facility (GBIF). As the network of plots continues to expand, so does the database of tree-related microhabitats. Therefore, the database will undergo a regular update. The current version has a temporal coverage from March 2014 to December 2020. The innovation of this unique dataset is that it is based on a commonly agreed catalogue of tree microhabitats as a field reference list when assessing assessment protocol. The reference list is available in 17 languages and, thus, helps to guarantee compatibility of tree-related microhabitat assessments across countries and plots., (Sergey Zudin, Wilfried Heintz, Daniel Kraus, Frank Krumm, Laurent Larrieu, Andreas Schuck.)
- Published
- 2022
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37. Natural disturbance regimes as a guide for sustainable forest management in Europe.
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Aszalós R, Thom D, Aakala T, Angelstam P, Brūmelis G, Gálhidy L, Gratzer G, Hlásny T, Katzensteiner K, Kovács B, Knoke T, Larrieu L, Motta R, Müller J, Ódor P, Roženbergar D, Paillet Y, Pitar D, Standovár T, Svoboda M, Szwagrzyk J, Toscani P, and Keeton WS
- Subjects
- Biodiversity, Conservation of Natural Resources methods, Europe, Forestry methods, Trees, Ecosystem, Forests
- Abstract
In Europe, forest management has controlled forest dynamics to sustain commodity production over multiple centuries. Yet over-regulation for growth and yield diminishes resilience to environmental stress as well as threatens biodiversity, leading to increasing forest susceptibility to an array of disturbances. These trends have stimulated interest in alternative management systems, including natural dynamics silviculture (NDS). NDS aims to emulate natural disturbance dynamics at stand and landscape scales through silvicultural manipulations of forest structure and landscape patterns. We adapted a "Comparability Index" (CI) to assess convergence/divergence between natural disturbances and forest management effects. We extended the original CI concept based on disturbance size and frequency by adding the residual structure of canopy trees after a disturbance as a third dimension. We populated the model by compiling data on natural disturbance dynamics and management from 13 countries in Europe, covering four major forest types (i.e., spruce, beech, oak, and pine-dominated forests). We found that natural disturbances are highly variable in size, frequency, and residual structure, but European forest management fails to encompass this complexity. Silviculture in Europe is skewed toward even-aged systems, used predominately (72.9% of management) across the countries assessed. The residual structure proved crucial in the comparison of natural disturbances and silvicultural systems. CI indicated the highest congruence between uneven-aged silvicultural systems and key natural disturbance attributes. Even so, uneven-aged practices emulated only a portion of the complexity associated with natural disturbance effects. The remaining silvicultural systems perform poorly in terms of retention compared to tree survivorship after natural disturbances. We suggest that NDS can enrich Europe's portfolio of management systems, for example where wood production is not the primary objective. NDS is especially relevant to forests managed for habitat quality, risk reduction, and a variety of ecosystem services. We suggest a holistic approach integrating NDS with more conventional practices., (© 2022 The Ecological Society of America.)
- Published
- 2022
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38. Climate-induced forest dieback drives compositional changes in insect communities that are more pronounced for rare species.
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Sire L, Yáñez PS, Wang C, Bézier A, Courtial B, Cours J, Fontaneto D, Larrieu L, Bouget C, Thorn S, Müller J, Yu DW, Monaghan MT, Herniou EA, and Lopez-Vaamonde C
- Subjects
- Animals, Endangered Species, France, Biodiversity, Biomass, Forests, Insecta
- Abstract
Species richness, abundance and biomass of insects have recently undergone marked declines in Europe. We metabarcoded 211 Malaise-trap samples to investigate whether drought-induced forest dieback and subsequent salvage logging had an impact on ca. 3000 species of flying insects in silver fir Pyrenean forests. While forest dieback had no measurable impact on species richness, there were significant changes in community composition that were consistent with those observed during natural forest succession. Importantly, most observed changes were driven by rare species. Variation was explained primarily by canopy openness at the local scale, and the tree-related microhabitat diversity and deadwood amount at landscape scales. The levels of salvage logging in our study did not explain compositional changes. We conclude that forest dieback drives changes in species assemblages that mimic natural forest succession, and markedly increases the risk of catastrophic loss of rare species through homogenization of environmental conditions., (© 2022. The Author(s).)
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- 2022
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39. High rate of hypomorphic variants as the cause of inherited ataxia and related diseases: study of a cohort of 366 families.
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Benkirane M, Marelli C, Guissart C, Roubertie A, Ollagnon E, Choumert A, Fluchère F, Magne FO, Halleb Y, Renaud M, Larrieu L, Baux D, Patat O, Bousquet I, Ravel JM, Cuntz-Shadfar D, Sarret C, Ayrignac X, Rolland A, Morales R, Pointaux M, Lieutard-Haag C, Laurens B, Tillikete C, Bernard E, Mallaret M, Carra-Dallière C, Tranchant C, Meyer P, Damaj L, Pasquier L, Acquaviva C, Chaussenot A, Isidor B, Nguyen K, Camu W, Eusebio A, Carrière N, Riquet A, Thouvenot E, Gonzales V, Carme E, Attarian S, Odent S, Castrioto A, Ewenczyk C, Charles P, Kremer L, Sissaoui S, Bahi-Buisson N, Kaphan E, Degardin A, Doray B, Julia S, Remerand G, Fraix V, Haidar LA, Lazaro L, Laugel V, Villega F, Charlin C, Frismand S, Moreira MC, Witjas T, Francannet C, Walther-Louvier U, Fradin M, Chabrol B, Fluss J, Bieth E, Castelnovo G, Vergnet S, Meunier I, Verloes A, Brischoux-Boucher E, Coubes C, Geneviève D, Lebouc N, Azulay JP, Anheim M, Goizet C, Rivier F, Labauge P, Calvas P, and Koenig M
- Subjects
- Cohort Studies, DNA Copy Number Variations genetics, Humans, Peroxins, Receptors, Cytoplasmic and Nuclear, United States, Exome Sequencing, Cerebellar Ataxia, Genomics
- Abstract
Purpose: Diagnosis of inherited ataxia and related diseases represents a real challenge given the tremendous heterogeneity and clinical overlap of the various causes. We evaluated the efficacy of molecular diagnosis of these diseases by sequencing a large cohort of undiagnosed families., Methods: We analyzed 366 unrelated consecutive patients with undiagnosed ataxia or related disorders by clinical exome-capture sequencing. In silico analysis was performed with an in-house pipeline that combines variant ranking and copy-number variant (CNV) searches. Variants were interpreted according to American College of Medical Genetics and Genomics/Association for Molecular Pathology (ACMG/AMP) guidelines., Results: We established the molecular diagnosis in 46% of the cases. We identified 35 mildly affected patients with causative variants in genes that are classically associated with severe presentations. These cases were explained by the occurrence of hypomorphic variants, but also rarely suspected mechanisms such as C-terminal truncations and translation reinitiation., Conclusion: A significant fraction of the clinical heterogeneity and phenotypic overlap is explained by hypomorphic variants that are difficult to identify and not readily predicted. The hypomorphic C-terminal truncation and translation reinitiation mechanisms that we identified may only apply to few genes, as it relies on specific domain organization and alterations. We identified PEX10 and FASTKD2 as candidates for translation reinitiation accounting for mild disease presentation., (© 2021. The Author(s), under exclusive licence to the American College of Medical Genetics and Genomics.)
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- 2021
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40. Author Correction: European primary forest database v2.0.
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Sabatini FM, Bluhm H, Kun Z, Aksenov D, Atauri JA, Buchwald E, Burrascano S, Cateau E, Diku A, Duarte IM, Fernández López ÁB, Garbarino M, Grigoriadis N, Horváth F, Keren S, Kitenberga M, Kiš A, Kraut A, Ibisch PL, Larrieu L, Lombardi F, Matovic B, Melu RN, Meyer P, Midteng R, Mikac S, Mikoláš M, Mozgeris G, Panayotov M, Pisek R, Nunes L, Ruete A, Schickhofer M, Simovski B, Stillhard J, Stojanovic D, Szwagrzyk J, Tikkanen OP, Toromani E, Volosyanchuk R, Vrška T, Waldherr M, Yermokhin M, Zlatanov T, Zagidullina A, and Kuemmerle T
- Published
- 2021
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41. Biallelic RFC1-expansion in a French multicentric sporadic ataxia cohort.
- Author
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Montaut S, Diedhiou N, Fahrer P, Marelli C, Lhermitte B, Robelin L, Vincent MC, Corti L, Taieb G, Gebus O, Rudolf G, Tarabeux J, Dondaine N, Canuet M, Almeras M, Benkirane M, Larrieu L, Chanson JB, Nadaj-Pakleza A, Echaniz-Laguna A, Cauquil C, Lannes B, Chelly J, Anheim M, Puccio H, and Tranchant C
- Subjects
- Ataxia, Cohort Studies, Humans, Cerebellar Ataxia genetics, Replication Protein C genetics, Spinocerebellar Degenerations genetics
- Abstract
Objective: Cerebellar ataxia with neuropathy and vestibular areflexia syndrome (CANVAS) is a recessively inherited multisystem ataxia compromising cerebellar, vestibular, and sensory nerves, which has been associated to a pathogenic AAGGG(n) biallelic expansion repeat in the RFC1 gene. Our objective was to assess its prevalence in a French cohort of patients with idiopathic sporadic late-onset ataxia (ILOA), idiopathic early-onset ataxia (IEOA), or Multiple System Atrophy of Cerebellar type (MSA-C)., Methods: 163 patients were recruited in 3 French tertiary centers: 100 ILOA, 21 IEOA, and 42 patients with possible or probable MSA-C., Results: A pathogenic biallelic RFC1 AAGGG(n) repeat expansion was found in 15 patients: 15/100 in the ILOA group, but none in the IEOA and MSA-C subgroups. 14/15 patients had a CANVAS phenotype. Only 1/15 had isolated cerebellar ataxia, but also shorter biallelic expansions. Two RFC1 AAGGG(n) alleles were found in 78% of patients with a CANVAS phenotype. In one post-mortem case, the pathophysiological involvement of cerebellum and medullar posterior columns was found., Conclusion: Our study confirms the genetic heterogeneity of the CANVAS and that RFC1 repeat expansions should be searched for preferentially in case of unexplained ILOA associated with a sensory neuronopathy, but not particularly in patients classified as MSA-C., (© 2021. Springer-Verlag GmbH, DE part of Springer Nature.)
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- 2021
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42. European primary forest database v2.0.
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Sabatini FM, Bluhm H, Kun Z, Aksenov D, Atauri JA, Buchwald E, Burrascano S, Cateau E, Diku A, Duarte IM, Fernández López ÁB, Garbarino M, Grigoriadis N, Horváth F, Keren S, Kitenberga M, Kiš A, Kraut A, Ibisch PL, Larrieu L, Lombardi F, Matovic B, Melu RN, Meyer P, Midteng R, Mikac S, Mikoláš M, Mozgeris G, Panayotov M, Pisek R, Nunes L, Ruete A, Schickhofer M, Simovski B, Stillhard J, Stojanovic D, Szwagrzyk J, Tikkanen OP, Toromani E, Volosyanchuk R, Vrška T, Waldherr M, Yermokhin M, Zlatanov T, Zagidullina A, and Kuemmerle T
- Subjects
- Databases, Factual, Europe, Conservation of Natural Resources, Forests
- Abstract
Primary forests, defined here as forests where the signs of human impacts, if any, are strongly blurred due to decades without forest management, are scarce in Europe and continue to disappear. Despite these losses, we know little about where these forests occur. Here, we present a comprehensive geodatabase and map of Europe's known primary forests. Our geodatabase harmonizes 48 different, mostly field-based datasets of primary forests, and contains 18,411 individual patches (41.1 Mha) spread across 33 countries. When available, we provide information on each patch (name, location, naturalness, extent and dominant tree species) and the surrounding landscape (biogeographical regions, protection status, potential natural vegetation, current forest extent). Using Landsat satellite-image time series (1985-2018) we checked each patch for possible disturbance events since primary forests were identified, resulting in 94% of patches free of significant disturbances in the last 30 years. Although knowledge gaps remain, ours is the most comprehensive dataset on primary forests in Europe, and will be useful for ecological studies, and conservation planning to safeguard these unique forests., (© 2021. The Author(s).)
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- 2021
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43. Developmental Consequences of Defective ATG7-Mediated Autophagy in Humans.
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Collier JJ, Guissart C, Oláhová M, Sasorith S, Piron-Prunier F, Suomi F, Zhang D, Martinez-Lopez N, Leboucq N, Bahr A, Azzarello-Burri S, Reich S, Schöls L, Polvikoski TM, Meyer P, Larrieu L, Schaefer AM, Alsaif HS, Alyamani S, Zuchner S, Barbosa IA, Deshpande C, Pyle A, Rauch A, Synofzik M, Alkuraya FS, Rivier F, Ryten M, McFarland R, Delahodde A, McWilliams TG, Koenig M, and Taylor RW
- Subjects
- Adolescent, Adult, Autophagy physiology, Autophagy-Related Protein 7 physiology, Cells, Cultured, Cerebellum abnormalities, Computer Simulation, Face abnormalities, Female, Fibroblasts, Genes, Recessive, Humans, Infant, Male, Muscle, Skeletal metabolism, Muscle, Skeletal pathology, Nervous System Malformations genetics, Pedigree, Phenotype, Abnormalities, Multiple genetics, Ataxia genetics, Autophagy genetics, Autophagy-Related Protein 7 genetics, Developmental Disabilities genetics, Mutation, Missense
- Abstract
Background: Autophagy is the major intracellular degradation route in mammalian cells. Systemic ablation of core autophagy-related ( ATG ) genes in mice leads to embryonic or perinatal lethality, and conditional models show neurodegeneration. Impaired autophagy has been associated with a range of complex human diseases, yet congenital autophagy disorders are rare., Methods: We performed a genetic, clinical, and neuroimaging analysis involving five families. Mechanistic investigations were conducted with the use of patient-derived fibroblasts, skeletal muscle-biopsy specimens, mouse embryonic fibroblasts, and yeast., Results: We found deleterious, recessive variants in human ATG7 , a core autophagy-related gene encoding a protein that is indispensable to classical degradative autophagy. Twelve patients from five families with distinct ATG7 variants had complex neurodevelopmental disorders with brain, muscle, and endocrine involvement. Patients had abnormalities of the cerebellum and corpus callosum and various degrees of facial dysmorphism. These patients have survived with impaired autophagic flux arising from a diminishment or absence of ATG7 protein. Although autophagic sequestration was markedly reduced, evidence of basal autophagy was readily identified in fibroblasts and skeletal muscle with loss of ATG7. Complementation of different model systems by deleterious ATG7 variants resulted in poor or absent autophagic function as compared with the reintroduction of wild-type ATG7 ., Conclusions: We identified several patients with a neurodevelopmental disorder who have survived with a severe loss or complete absence of ATG7, an essential effector enzyme for autophagy without a known functional paralogue. (Funded by the Wellcome Centre for Mitochondrial Research and others.)., (Copyright © 2021 Massachusetts Medical Society.)
- Published
- 2021
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44. Bat responses to changes in forest composition and prey abundance depend on landscape matrix and stand structure.
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Froidevaux JSP, Barbaro L, Vinet O, Larrieu L, Bas Y, Molina J, Calatayud F, and Brin A
- Subjects
- Animals, France, Moths, Population Density, Chiroptera, Food Chain, Forests
- Abstract
Despite the key importance of the landscape matrix for bats, we still not fully understand how the effect of forest composition interacts at combined stand and landscape scales to shape bat communities. In addition, we lack detailed knowledge on the effects of local habitat structure on bat-prey relationships in forested landscapes. We tested the assumptions that (i) forest composition has interacting effects on bats between stand and landscape scales; and (ii) stand structure mediates prey abundance effects on bat activity. Our results indicated that in conifer-dominated landscapes (> 80% of coniferous forests) bat activity was higher in stands with a higher proportion of deciduous trees while bats were less active in stands with a higher proportion of deciduous trees in mixed forest landscapes (~ 50% of deciduous forests). Moth abundance was selected in the best models for six among nine bat species. The positive effect of moth abundance on Barbastella barbastellus was mediated by vegetation clutter, with dense understory cover likely reducing prey accessibility. Altogether, our findings deepen our understanding of the ecological processes affecting bats in forest landscapes and strengthen the need to consider both landscape context and trophic linkage when assessing the effects of stand-scale compositional and structural attributes on bats.
- Published
- 2021
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45. Expanding the clinical spectrum of STIP1 homology and U-box containing protein 1-associated ataxia.
- Author
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Ravel JM, Benkirane M, Calmels N, Marelli C, Ory-Magne F, Ewenczyk C, Halleb Y, Tison F, Lecocq C, Pische G, Casenave P, Chaussenot A, Frismand S, Tyvaert L, Larrieu L, Pointaux M, Drouot N, Bossenmeyer-Pourié C, Oussalah A, Guéant JL, Leheup B, Bonnet C, Anheim M, Tranchant C, Lambert L, Chelly J, Koenig M, and Renaud M
- Subjects
- Ataxia, Heat-Shock Proteins, Humans, Mutation genetics, Retrospective Studies, Ubiquitin-Protein Ligases genetics, Cerebellar Ataxia
- Abstract
Background: STUB1 has been first associated with autosomal recessive (SCAR16, MIM# 615768) and later with dominant forms of ataxia (SCA48, MIM# 618093). Pathogenic variations in STUB1 are now considered a frequent cause of cerebellar ataxia., Objective: We aimed to improve the clinical, radiological, and molecular delineation of SCAR16 and SCA48., Methods: Retrospective collection of patients with SCAR16 or SCA48 diagnosed in three French genetic centers (Montpellier, Strasbourg and Nancy)., Results: Here, we report four SCAR16 and nine SCA48 patients from two SCAR16 and five SCA48 unrelated French families. All presented with slowly progressive cerebellar ataxia. Additional findings included cognitive decline, dystonia, parkinsonism and swallowing difficulties. The age at onset was highly variable, ranging from 14 to 76 years. Brain MRI showed marked cerebellar atrophy in all patients. Phenotypic findings associated with STUB1 pathogenic variations cover a broad spectrum, ranging from isolated slowly progressive ataxia to severe encephalopathy, and include extrapyramidal features. We described five new pathogenic variations, two previously reported pathogenic variations, and two rare variants of unknown significance in association with STUB1-related disorders. We also report the first pathogenic variation associated with both dominant and recessive forms of inheritance (SCAR16 and SCA48)., Conclusion: Even though differences are observed between the recessive and dominant forms, it appears that a continuum exists between these two entities. While adding new symptoms associated with STUB1 pathogenic variations, we insist on the difficulty of genetic counselling in STUB1-related pathologies. Finally, we underscore the usefulness of DAT-scan as an additional clue for diagnosis.
- Published
- 2021
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46. ATP8A2-related disorders as recessive cerebellar ataxia.
- Author
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Guissart C, Harrison AN, Benkirane M, Oncel I, Arslan EA, Chassevent AK, Baraῆano K, Larrieu L, Iascone M, Tenconi R, Claustres M, Eroglu-Ertugrul N, Calvas P, Topaloglu H, Molday RS, and Koenig M
- Subjects
- Adult, Child, Child, Preschool, Consanguinity, Female, Genes, Recessive, Humans, Infant, Male, Mutation, Missense, Pedigree, Phenotype, Point Mutation, Adenosine Triphosphatases genetics, Cerebellar Ataxia genetics, Cerebellar Ataxia pathology, Cerebellar Ataxia physiopathology, Phospholipid Transfer Proteins genetics
- Abstract
ATP8A2-related disorders are autosomal recessive conditions that associate encephalopathy with or without hypotonia, psychomotor delay, abnormal movements, chorea, tremor, optic atrophy and cerebellar atrophy (CARMQ4). Through a multi-centric collaboration, we identified six point mutations (one splice site and five missense mutations) involving ATP8A2 in six individuals from five families. Two patients from one family with the homozygous p.Gly585Val mutation had a milder presentation without encephalopathy. Expression and functional studies of the missense mutations demonstrated that protein levels of four of the five missense variants were very low and lacked phosphatidylserine-activated ATPase activity. One variant p.Ile215Leu, however, expressed at normal levels and displayed phospholipid-activated ATPase activity similar to the non-mutated protein. We therefore expand for the first time the phenotype related to ATP8A2 mutations to less severe forms characterized by cerebellar ataxia without encephalopathy and suggest that ATP8A2 should be analyzed for all cases of syndromic or non-syndromic recessive or sporadic ataxia.
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- 2020
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47. ACO2 mutations: A novel phenotype associating severe optic atrophy and spastic paraplegia.
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Marelli C, Hamel C, Quiles M, Carlander B, Larrieu L, Delettre C, Sarzi E, Chretien D, Rustin P, Koenig M, and Guissart C
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- 2018
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48. Mini-Exome Coupled to Read-Depth Based Copy Number Variation Analysis in Patients with Inherited Ataxias.
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Marelli C, Guissart C, Hubsch C, Renaud M, Villemin JP, Larrieu L, Charles P, Ayrignac X, Sacconi S, Collignon P, Cuntz-Shadfar D, Perrin L, Benarrosh A, Degardin A, Lagha-Boukbiza O, Mutez E, Carlander B, Morales RJ, Gonzalez V, Carra-Dalliere C, Azakri S, Mignard C, Ollagnon E, Pageot N, Chretien D, Geny C, Azulay JP, Tranchant C, Claustres M, Labauge P, Anheim M, Goizet C, Calvas P, and Koenig M
- Subjects
- Adolescent, Adult, Age of Onset, Ataxia Telangiectasia Mutated Proteins genetics, Carrier Proteins genetics, Cerebellar Ataxia etiology, Child, Child, Preschool, DNA-Binding Proteins genetics, Female, Genetic Predisposition to Disease, Humans, Intracellular Signaling Peptides and Proteins, Male, Membrane Glycoproteins genetics, Niemann-Pick C1 Protein, Peroxisomal Multifunctional Protein-2 genetics, Young Adult, Cerebellar Ataxia genetics, DNA Copy Number Variations, Exome, High-Throughput Nucleotide Sequencing methods, Sequence Analysis, DNA methods
- Abstract
Next-generation sequencing (NGS) has an established diagnostic value for inherited ataxia. However, the need of a rigorous process of analysis and validation remains challenging. Moreover, copy number variations (CNV) or dynamic expansions of repeated sequence are classically considered not adequately detected by exome sequencing technique. We applied a strategy of mini-exome coupled to read-depth based CNV analysis to a series of 33 patients with probable inherited ataxia and onset <50 years. The mini-exome consisted of the capture of 4,813 genes having associated clinical phenotypes. Pathogenic variants were found in 42% and variants of uncertain significance in 24% of the patients. These results are comparable to those from whole exome sequencing and better than previous targeted NGS studies. CNV and dynamic expansions of repeated CAG sequence were identified in three patients. We identified both atypical presentation of known ataxia genes (ATM, NPC1) and mutations in genes very rarely associated with ataxia (ERCC4, HSD17B4). We show that mini-exome bioinformatics data analysis allows the identification of CNV and dynamic expansions of repeated sequence. Our study confirms the diagnostic value of the proposed genetic analysis strategy. We also provide an algorithm for the multidisciplinary process of analysis, interpretation, and validation of NGS data., (© 2016 WILEY PERIODICALS, INC.)
- Published
- 2016
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49. Genes for spinocerebellar ataxia with blindness and deafness (SCABD/SCAR3, MIM# 271250 and SCABD2).
- Author
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Guissart C, Drouot N, Oncel I, Leheup B, Gershoni-Barush R, Muller J, Ferdinandusse S, Larrieu L, Anheim M, Arslan EA, Claustres M, Tranchant C, Topaloglu H, and Koenig M
- Subjects
- ATPases Associated with Diverse Cellular Activities, Adolescent, Adult, Blindness diagnosis, Cells, Cultured, Child, Deafness diagnosis, Exome, Female, Humans, Male, Pedigree, Spinocerebellar Ataxias diagnosis, Syndrome, Adenosine Triphosphatases genetics, Blindness genetics, Deafness genetics, Mutation, Missense, Receptors, G-Protein-Coupled genetics, Spinocerebellar Ataxias genetics, Wiskott-Aldrich Syndrome Protein Family genetics
- Abstract
Ataxia is a symptom that is often associated with syndromic inherited diseases. We previously reported the linkage of a novel syndrome, ataxia with blindness and deafness (SCAR3/SCABD, OMIM# 271250), to chromosome 6p21-p23 by linkage mapping of an Arab Israeli consanguineous family. We have now identified by whole-exome sequencing a homozygous missense mutation in the Arab Israeli family in the SLC52A2 gene located in 8qter, therefore excluding linkage of this family to 6p. We confirmed the involvement of SLC52A2 by the identification of a second mutation in an independent family with an identical syndromic presentation, which we suggest to name SCABD2. SCABD2 is therefore allelic to Brown-Vialleto-Van Laere syndrome type 2 defined by prominent motoneuronopathy and deafness, and also caused by SLC52A2 mutations. In the course of this project, we identified a clinically similar family with a homozygous missense mutation in PEX6, which is located in 6p21. Therefore, despite false linkage in the initial family, SCABD1/SCAR3 is located in 6p21 and is caused by PEX6 mutations. Both SLC52A2 and PEX6 should be included in screening panels for the diagnosis of syndromic inherited ataxias, particularly as patients with mutations in SLC52A2 can be ameliorated by riboflavin supplementation.
- Published
- 2016
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50. A false positive newborn screening result due to a complex allele carrying two frequent CF-causing variants.
- Author
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Bergougnoux A, Boureau-Wirth A, Rouzier C, Altieri JP, Verneau F, Larrieu L, Koenig M, Claustres M, and Raynal C
- Subjects
- Alleles, Diagnosis, Differential, False Positive Reactions, Family, Female, Genetic Variation, Humans, Immunologic Tests methods, Infant, Newborn, Medical History Taking methods, Cystic Fibrosis diagnosis, Cystic Fibrosis genetics, Cystic Fibrosis Transmembrane Conductance Regulator genetics, Genetic Testing methods, Neonatal Screening methods, Sweat metabolism, Trypsinogen analysis
- Abstract
The detection of two frequent CFTR disease-causing variations in the context of a newborn screening program (NBS) usually leads to the diagnosis of cystic fibrosis (CF) and a relevant genetic counseling in the family. In the present study, CF-causing variants p.Phe508del (F508del) and c.3140-26A>G (3272-26A>G) were identified on a neonate with positive ImmunoReactive Trypsinogen test by the Elucigene™ CF30 kit. The CF diagnosis initially suggested, despite three inconclusive Sweat Chloride Tests (SCT), was finally ruled out after the familial segregation study combined with a negative SCT. Haplotype studies, based on the comparison of 80 p.Phe508del haplotypes, suggested a probable de novo occurrence of c.3140-26A>G on the p.Phe508del ancestral allele in this family. This false positive case emphasizes the importance of SCT in the NBS strategy. Moreover, it raises the need for familial segregation studies in CF and in overall molecular diagnosis strategy of autosomal recessive diseases., (Copyright © 2016 European Cystic Fibrosis Society. Published by Elsevier B.V. All rights reserved.)
- Published
- 2016
- Full Text
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