Stéphane Joost, Ph.D.


 
Expertise

GIScience applied to Population Genetics and Genomics

Spatial Analysis, Environmental Modelling, Landscape Genetics, Landscape Genomics

 

Projects
Econogene
Globaldiv
Nextgen
Genomic-Resources
eAtlas Valais
 
 
Software
MatSAM
Geographic patterns of molecular diversity
 
Award

2007 William L. Garrison Award for Best Dissertation in Computational Geography - Marble Fund for Geographic Science of the Association of American Geographers (AAG)

[Flash EPFL, 30.05.2007, Régis Caloz] [Reflex Magazine, 06.2007 ] [Magazine Online dell'Università Cattolica di Piacenza, 05.2007]

 

Main publications

Full papers
Monod, O., Joost, S. (in prep) Geocomputation of the concentration of economic activities based on the cumulative function M
Monod, O., Gaspoz, A., Joost, S. (in prep) Geographic concentration of economic activities: on the validation of a distance-based mathematical index to identify optimal locations
Joost, S., Matasci, G., Flury, C., Joerin, F. (in prep) A GIS-based multicriteria approach for the monitoring of animal genetic diversity and breeding conditions sustainability
Joost, S., Leempoel, K., Parisod, C. (in prep) Geographic science applied to population genomics: investigating the adaptation of a plant species to the Alpine environment
Pariset L., Mariotti M., Gargani M., Joost S., Negrini R., Perez T., Bruford M.W., Ajmone Marsan P., Valentini A. and Econogene Consortium (2011) Genetic diversity of sheep breeds from Albania, Greece, and Italy assessed by Mitochondrial DNA and Nuclear Polymorphisms (SNPs), TheScientificWorld Journal, 11:1641-1659, doi:10.1100/2011/186342
Kalbermatten, M., Van De Ville, D., Turberg, P., Tuia, D., Joost, S. (in press) Multiscale analysis of geomorphological and geological features in high resolution digital elevation models using the wavelet transform, Geomorphology, doi: 10.1016/j.geomorph.2011.09.023
Joost, S., Colli, L., Bonin, A., Biebach, I., Allendorf, F., Hoffmann, I., Hanotte, O., Taberlet, P., Bruford, M. and the GLOBALDIV Consortium (2011) Promoting collaboration between livestock and wildlife conservation genetics communities, Conservation Genetics Resources, 3:785–788, doi 10.1007/s12686-011-9457-9
Manel, S., Joost, S., Epperson, B.K., Holderegger, R., Storfer, A., Rosenberg, M.S., Scribner, K., Bonin, A., Fortin, M.-J. (2010) Perspectives on the use of landscape genetics to detect genetic adaptive variation in the field, Molecular Ecology, 19:3760–3772, doi: 10.1111/j.1365-294X.2010.04717.x
Joost, S., Colli, L., Baret, P.V., Garcia, J.F., Boettcher, P.J., Tixier-Boichard, M. , Ajmone-Marsan, P. & the GLOBALDIV Consortium (2010) Integrating geo-referenced multiscale and multidisciplinary data for the management of biodiversity in livestock genetic resources, Animal Genetics, Volume 41, Issue s1, DOI: 10.1111/j.1365-2052.2010.02037.x
Boettcher, P.J., Tixier-Boichard, M., Toro, M., Simianer, H., Eding, H., Gandini, G., Joost, S., Garcia, J.F., Colli, L., Ajmone-Marsan, P. & the GLOBALDIV Consortium (2010) Objectives, criteria and methods for priority setting in conservation of animal genetic resources, Animal Genetics, Volume 41, Issue s1, DOI: 10.1111/j.1365-2052.2010.02050.x
Parisod, C., Joost, S. (2010) Divergent selection in trailing versus leading edge populations of Biscutella laevigata, Annals of Botany, 4:655-660, doi: 10.1093/aob/mcq014
Pariset, L., Joost, S., Ajmone Marsan, P., Valentini, A. (2009) Landscape genomics and biased FST approaches reveal Single Nucleotide Polymorphisms under selection in goat breeds of North-East Mediterranean, BMC Genetics, 10:7.
Joost, S. (2008) La dimension spatiale en écologie moléculaire: science de l'information géographique et conservation des ressources génétiques végétales et animales, Le Monde des Cartes, 198:51-58.
Joost, S., Kalbermatten, M., Bonin, A. (2008) Spatial Analysis Method (SAM): a software tool combining molecular and environmental data to identify candidate loci for selection, Molecular Ecology Resources, 8:957–960.
Joost, S., Bonin, A., Taberlet, P., Caloz, R. (2008) Un rôle pour la science de l'information géographique en écologie moléculaire: la détection de régions du génome soumises à la sélection naturelle, Revue Internationale de Géomatique, 2:215-237.

Joost, S., Bonin, A., Bruford, M.W., Després, L., Conord, C., Erhardt, G., Taberlet, P., (2007) A Spatial Analysis Method (SAM) to detect candidate loci for selection: towards a landscape genomics approach to adaptation, Molecular Ecology, 18:3955–3969.
[Le Temps du 17.08.2007] [SAM Software]

Bertaglia, M., Joost, S., Roosen, J., and the Econogene Consortium (2007) Identifying European Marginal Areas in the Context of Local Sheep and Goat Breeds Conservation: A Geographic Information System Approach, Agricultural Systems, 94:657-670.
Pariset, L., Cappuccio, I., Ajmone-Marsan, P., Bruford, M., Dunner, S., Cortes, O., Erhardt, G., Prinzenberg, E.-M., Gutscher, K., Joost, S., Pinto-Juma, G., Nijman, I.J., Lenstra, J.A., Perez, T., Valentini, A., and the Econogene Consortium (2006) Characterization of 37 Breed-Specific Single-Nucleotide Polymorphisms in Sheep, Journal of Heredity, 97:531-534.
Lassueur, T., Joost, S., Randin, C. (2006) Very high resolution digital elevation models: do they improve models of plant species distribution ? Ecological Modelling, 198:139-153.

Pariset, L., Cappuccio, I., Ajmone Marsan, P., Dunner, S., Cortes, O., Erhardt, G., Lühken, G., Gutscher, K., Joost, S., Nijman, I.J., Lenstra, J.A., England, P.R., Zundel, S., Obexer-Ruff, G., Beja-Pereira, A., Valentini, A. and the Econogene Consortium (2006) Allele frequencies and diversity parameters of 27 single nucleotide polymorphisms within and across goat breeds, Molecular Ecology Notes, 6:992-997.

Pariset, L., Cappuccio, I., Joost, S., D’Andrea, M.S., Marletta, D., Ajmone Marsan, P., Valentini, A. and the Econogene Consortium (2006) Characterization of single nucleotide polymorphisms (SNPs) in sheep and their variation as an evidence of selection, Animal Genetics, 37:290-292.
Scott, E.C., Matzke, N.J., Branch, G., Steve et al. (2004) The Morphology of Steve, Annals of Improbable Research, July-August 2004
Hussy C., Crivelli R., Joost S., Métral G. (2002) Foreigners in Switzerland, issues and territorial realities, Journal of Alpine Research, 3:81-98.
Joost, S., Dessemontet, P. (2000) Geographische Grenzen der Postleitzahlen und Integration statistischer Daten, Swiss Geomatics, 9:557-559.
 
Books and book chapters
Joost, S., Kalbermatten, M., Bezault, E., Seehausen, O. (In Press) Use of qualitative environmental and phenotypic variables in the context of allele distribution models: detecting signatures of selection in the genome of Lake Victoria cichlids, in Bonin, A., Pompanon, F. Population genomics methods and protocols to identify genome regions under selection, Humana Press, Springer.
Walser, O., Thévoz, L., Joerin, F., Schuler, M., Joost, S., Debarbieux, B., Dao, Hy (2011) Les SIG au service du développement territorial, Presses Polytechniques et Universitaires Romandes (PPUR), Lausanne
Joost, S., Pointet, A. (2011) Systèmes complexes et implantation commerciale, in Les SIG au service du développement territorial (Eds. Walser, O., Thévoz, L., Joerin, F., et al.), Presses Polytechniques et Universitaires Romandes (PPUR), Lausanne
Joost, S., Negrini, R. (2010) Early stirrings of landscape genomics: Awaiting next-next generation sequencing platforms before take-off, in Sustainable Improvement of Animal Production and Health (Eds. N.E. Odongo, M. Garcia & G.J. Viljoen), Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, Rome, Italy.
Joost, S., Pointet, A., Caloz, R. et Golay, F. (2009) De la physique expérimentale aux sciences et systèmes de l'information géographique, Ed. Lulu.com, London.
Joost, S. (2009) De la physique à la génomique environnementale, en passant par la science de l'information géographique, in: Joost, S., Pointet, A., Caloz, R. et Golay, F. (Eds), De la physique expérimentale aux sciences et systèmes de l'information géographique, Ed. Lulu.com, London.
Joost, S., Pointet, A. (2008) Animal farming and GIS service, in: A.Rosati, A.Tewolde, C.Mosconi (Eds), Animal production and animal science worldwide (WAAP book of the year 2007), Wageningen Academic Publishers, pp.175-185.
Joost, S. (2008) Outlook to possibilities and challenges in viewing and analysing different data sets for animal genetic resources management, in : D.Pilling, B.Rischkowsky, B.Scherf (Eds) Report of the FAO/WAAP Workshop on Production Environment Descriptors for Animal Genetic Resources held Caprarola, Italy, 6–8 May 2008, pp. 47-49.
 
Conference & Workshop papers & proceedings
Leempoel, K., Stucki, S., Parisod, C., Joost, S. (2011) Very High Resolution Digital Elevation Models (VHR DEMs) and multiscale landscape genomics analysis applied to an alpine plant species, 19th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems (ACM SIGSPATIAL GIS 2011), November 1-4, Chicago, USA
Joost, S. (2011) GIS-based breeding sustainability assessment, Swiss Association for Animal Production, Frühjahrstagung 2011 "Aktuelle Forschung in der Schweiz im Bereich Tierproduktion", March 29, Zollikofen, Switzerland
Joost, S., Flury, C. (2011) GIS data integration and multicriteria analysis for the assessment of breeding activities sustainability, GLOBALDIV Final International Workshop, February 8 and 9, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
Joost, S. and Kalbermatten, M., Ray, N. (2010) GEOME: Towards an integrated web-based landscape genomics platform, IUFRO 2010, Landscape Ecology International Conference, Book of Proceedings, Sept. 21-27, Bragança, Portugal
Joost, S. and Kalbermatten, M. (2010) GEOME : A web-based landscape genomics geocomputation platform, Proceedings of the 1st ISPRS International Workshop on Pervasive Web Mapping, Geoprocessing and Services - WebMGS 2010 - August 27-27, Como, Italy, ISSN Number: 1682-1777
Joost, S. (2010) Environmental monitoring for landscape genomics, Workshop on geomatics technology for the monitoring of natural hazards, August 23-27, Lausanne, Switzerland
Joost, S. (2010) Spatial analysis and complex systems for the optimization of retail trade localization, Meeting of the IGU Applied Geography Commission CO8.01, 18-22 July, Ericeira, Portugal
Joost, S., Negrini, R., Colli, L., Pellecchia, Mazza, R., Ajmone-Marsan, P., Milanesi, E., ECONOGENE Consortium (2010) Confronto tra distanze genetiche e distanze ecologiche tra razze di capre delle alpi svizzere e italiane, Convegno IREALP BIOD coltivare la biodiversità, June 10-11, Milano, Italy
Ajmone-Marsan, P., Colli, L., Pellecchia, M., Lucente, G., Mazza, R., Negrini, R., Joost, S., ECONOGENE Consortium e GLOBALDIV Consortium (2010) Conservazione sostenibile delle risorse genetiche animali, Convegno IREALP BIOD coltivare la biodiversità, June 10-11, Milano, Italy
Joost, S., Kalbermatten, M., Bezault, E. (2010) Nominal and ordinal predictors in logistic regression for the identification of adaptive loci in animal and plant populations, S4 Conference and Workshops on Geosimulations and Risks, June 9 to 11, University of Lausanne, Switzerland
Joost, S. (2010) Analyse spatiale et systèmes complexes pour l’optimisation de la localisation des activités commerciales, Séminaire de 3e cycle CUSO Les SIG au service du développement territorial, June 3-4, EPFL, Lausanne Switzerland
Joost, S., Matasci, G. (2010) An integrated sustainability index for the geo-monitoring of the Swiss Brown Original (cattle) local socio-economic, socio-demographic and environmental context, Second GLOBALDIV Workshop, May 5-6, FAO, Rome, Italy
Produit, T., Lachance-Bernard, N., Strano, E., Porta, S., Joost, S. (2010) A network based kernel density estimator applied to Barcelona economic activities, in: Taniar, D., Gervasi, O., Murgante, B., Pardede, E., Apduhan, B.O. (Eds) ICCSA 2010 Workshop on Geographical Analysis, Urban Modeling, Spatial statistics (GEO-AN-MOD 2010), The 2010 International Conference on Computational Science and its Application, March 23–26, Fukuoka, Japan, Springer-Verlag, Berlin Heidelberg
Kalbermatten, M.,  Van De Ville, D., Joost, S., Unser, M. , Golay, F. (2009) Laplace-gradient wavelet pyramid and multiscale tensor structures applied on high resolution DEMs, Geomorphometry 2009, August 31 - September 2, Zurich, Switzerland
Joost, S., Colli, L., Ajmone Marsan, P., Baret et al. (2009) Integrating geo-referenced multiscale and multidisciplinary data for the management of biodiversity in livestock genetic resources, First GLOBALDIV Workshop, University of Technology and Life Sciences, Bydgoszcz, Poland
Joost, S. (2008) A landscape genomics approach to understanding and predicting species distribution, European Science Foundation (ESF) funded Workshop on Landscape Genetics within the Con Gen programme, St-Hugues de Biviers/Grenoble, France
Joost, S. (2008) MFSA : a research center to promote the role of Geographic Science in interdisciplinary research : towards scientific discovery, IGU Commission on Applied Geography, 31st International Geographical Congress, 12-15 August, Tunis, Tunisia
Joost, S. (2008) Exploring the Geographic Dimension of Genetic Data, Annual Conference of the Association of American Geographers (AAG), 15-18 April, Boston, USA
Joost, S., Bonin, A. (2007) Quantitative Geography and Genomics : Spatial analysis to detect signatures of selection along a gradient of altitude in the common frog (Rana temporaria), Proceedings of the 15th European Colloquium on Theoretical and Quantitative Geography, 7-11 September 2007, Montreux, Switzerland
Joost, S., Pointet, A. (2007) A dedicated Geographic Exploration Interface for the monitoring of worldwide Farm Animal Genetic Resources, Proceedings of Geocomputation 2007, 3-5 September 2007, NUI Maynooth, Ireland
Joost, S., Negrini, R., Milanesi, E., Pellecchia, M., Ajmone Marsan, P., The Econogene Consortium (2007) Detecting footprints of selection in Ovies aries by a spatial analysis approach, Italian Journal of Animal Science, 6:171-173, supplement 1, Proceedings of the ASPA 17th Congress, May 29-June 1, Alghero, Italy
Joost, S. (2007) GIScience joining with molecular biology: a novel approach of detecting signatures of natural selection within the genome, 2007 Annual Conference of the Association of American Geographers (AAG), San Francisco, USA
Després, L., Joost, S., Taberlet, P. (2007) Détection de locus adaptatifs et des facteurs environnementaux sélectifs par combinaison d’une approche spatiale et d’une approche de génomique des populations : application au grand charançon du pin, Conférences Jacques Monod, Génomique évolutive, CNRS, 2-6 mai 2007, Roscoff, France
Joost, S. and the Econogene Consortium (2005) Combining biotechnologies and GIScience for livestock genetic resources conservation, 8th AGILE Conference on Geographic Information Science, May 26-28, Estoril, Portugal
Joost, S. and the Econogene Consortium (2005) Combining biotechnologies and GIScience to contribute to sheep and goat genetic resources conservation, in: Proceedings of the International Workshop on the Role of Biotechnology for the Characterisation and Conservation of Crop, Forestry, Animal and Fishery Genetic Resources, The FAO Working Group on Biotechnology, pp.109-116, Torino, Italy
Negrini, R., Milanesi, E., Pellecchia, M., Patrini, M., Crepaldi, P., Joost, S., Ajmone Marsan, P., the Econogene Consortium (2005) Pattern of ancient goat migration revealed by AFLP molecular markers, Italian Journal of Animal Science, 4:55-57, Proceedings of the ASPA 16th Congress, June 28-30, Torino, Italy
Joost S., Negrini R., Milanesi E., Caloz R., Ajmone-Marsan P. and the Econogene Consortium (2004) Relationships between ecological distance and genetic distance among goat breeds of Italy and Switzerland, Proceedings of the 55th EAAP Conference, Bled, Slovenia
Negrini R., Joost S., Milanesi E., Bernardi J., Pellecchia M., Patrini M., Caloz R., Ajmone-Marsan P. and the Econogene Consortium (2004) Genetic diversity of european goats as measured by AFLP markers, Proceedings of the 55th EAAP Conference, Bled, Slovenia
Ajmone-Marsan P., Negrini R., Joost S., Silveri L., Milanesi E., Caloz R., and the Econogene Consortium (2004) A map of diversity of european and mediterranean sheep as revealed by AFLP markers, Proceedings of the 29th ISAG meeting, Tokyo, Japan
Ertz,O., Joost,S., Rappo,D. (2002) Towards Geoservices Portals, WGIS trends for Business Applications, in: Post-proceedings of the Second International Conference on Web Information Systems Engineering (WISE 2001), IEEE Computer Society Press, vol. 2, pp.102-106, Los Alamitos, USA
Joost, S. (2001) Essai de clarification au sein de la hiérarchie des méthodes d'analyse spatiale appliquées aux activités commerciales, Carto 2001, The Canadian Cartographic Association (CCA), Montreal, Canada
 
Invited talks
Joost, S. (2010) Information géographique et conservation des ressources génétiques végétales et animales, Les conférences de la Murithienne, Société valaisanne des Sciences Naturelles, Sion, 25 février 2011
Joost, S. (2010) And a three, and a four, and a 001, S4 Conference and Workshops on Geosimulations and Risks, June 9 to 11, University of Lausanne, Switzerland
Joost, S. (2009) Early stirrings of landscape genomics: Awaiting next-next generation sequencing before take-off, FAO/IAEA International Symposium on Sustainable Improvement of Animal Production and Health, 8-11 June 2009, Vienna, Austria
Joost, S. (2005) GIScience and Genetics : Exploiting the geographical dimension of molecular data, Proceedings of the Second IPSo Congress on Proteomics and Genomics, Viterbo, Italy
Joost, S., and the Econogene Consortium (2005) Exploratory spatial analysis applied to the investigation of large molecular data sets, Xth spanish conference of biometrics, Oviedo, Spain [Libro de resumenes, Editiones de la Universidad de Oviedo, p.111, ISBN 84-8317-486-3]
 
Ph.D. thesis
The Geographic Dimension of Genetic Diversity : a GIScience Contribution for the Conservation of Animal Genetic Resources, EPFL, 2006
 
Contribution to publications in the context of International Consortia
Full papers
Groeneveld, L. F., Lenstra, J. A., Eding, H., Toro, M. A., Scherf, B., Pilling, D., Negrini, R., Finlay, E. K., Jianlin, H., Groeneveld, E., Weigend, S. & the GLOBALDIV Consortium (2010) Genetic diversity in farm animals – a review, Animal Genetics, Volume 41, Issue s1, DOI: 10.1111/j.1365-2052.2010.02038.x
Ajmone-Marsan, P. & the GLOBALDIV Consortium (2010) A global view of livestock biodiversity and conservation, Animal Genetics, Volume 41, Issue s1, DOI: 10.1111/j.1365-2052.2010.02036.x
Pariset,L., Cuteri, A., Ligda,C., Ajmone-Marsan, P., Valentini, A. and ECONOGENE Consortium (2009) Geographical patterning of sixteen goat breeds from Italy, Albania and Greece assessed by Single Nucleotide Polymorphisms, BMC Ecology, 9:20.
Naderi, S., Hamid-Reza Rezaei, Pierre Taberlet, Stéphanie Zundel, Seyed-Abbas Rafat, Hamid-Reza Naghash, Mohamed A. A. El-Barody, Okan Ertugrul, François Pompanon, and for the Econogene Consortium (2007) Large-Scale Mitochondrial DNA Analysis of the Domestic Goat Reveals Six Haplogroups with High Diversity, PLoS One, 2(10): e1012.
Negrini, R., Nijman, I.J., Milanesi, E., Moazami-Goudarzi, K., Williams, J.L. Erhardt, G., Dunner, S., Rodellar, C., Valentini, A., Bradley, D.G., Olsaker, I., Kantanen, J., Ajmone-Marsan, P., Lenstra, J.A. (2007) European Cattle Genetic Diversity Consortium. Differentiation of European cattle by AFLP fingerprinting. Animal Genetics 38(1):60-6.
Canon, J., Garcia, D., Garcia-Atance, M.A., Obexer-Ruff, G., Lenstra, J.A., Ajmone-Marsan, P., Dunner, S. and ECONOGENE Consortium (2006) Geographical partitioning of goat diversity in Europe and the Middle East, Animal Genetics 37(4):327-34.
Pariset, L., Cappuccio, I., Ajmone Marsan, P., Dunner, S., Luikart, G., England, P.R., Obexer-Ruff, G., Peter, C., Marletta, D., Pilla, F., Valentini, A., and ECONOGENE Consortium (2006) Assessment of population structure by single nucleotide polymorphisms (SNPs) in goat breeds, J Chromatogr B Analyt Technol Biomed Life Sci., 833(1):117-20.
Conference papers
...
Posters
Lenstra, J.A., and European Cattle Genetic Diversity Consortium (2009) Geographic patterns of molecular diversity and paternal lineages of European cattle, Bovine Genome Consortium meeting, Cold Spring Harbor (NY), May 9 - 11, 2009.
Ed. : S.Joost, LASIG, EPFL, Lausanne, Switzerland / Institute of Zootechnics, UCSC, Piacenza Italy
Last update of this page : 11.11.2011 11:25