10 results on '"Herten, Koen"'
Search Results
2. Preeclampsia is Associated with Sex-Specific Transcriptional and Proteomic Changes in Fetal Erythroid Cells
- Author
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Masoumi, Zahra, primary, Maes, Gregory E., additional, Herten, Koen, additional, Cortés-Calabuig, Álvaro, additional, Alattar, Abdul Ghani, additional, Hanson, Eva, additional, Erlandsson, Lena, additional, Mezey, Eva, additional, Magnusson, Mattias, additional, Vermeesch, Joris R, additional, Familari, Mary, additional, and Hansson, Stefan R, additional
- Published
- 2019
- Full Text
- View/download PDF
3. Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next-generation sequencing
- Author
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European Commission, Ministerio de Ciencia e Innovación (España), Puncher, Gregory Neils, Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodríguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S., Quattro, Joseph M., Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolas, Kimoto, Ai, Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, Isik K., Karakulak, Firdes Saadet, Abid, Noureddine, Santos, Miguel N., Addis, Piero, Arrizabalaga, Haritz, Tinti, Fausto, European Commission, Ministerio de Ciencia e Innovación (España), Puncher, Gregory Neils, Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodríguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S., Quattro, Joseph M., Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolas, Kimoto, Ai, Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, Isik K., Karakulak, Firdes Saadet, Abid, Noureddine, Santos, Miguel N., Addis, Piero, Arrizabalaga, Haritz, and Tinti, Fausto
- Abstract
The Atlantic bluefin tuna is a highly migratory species emblematic of the challenges associated with shared fisheries management. In an effort to resolve the species' stock dynamics, a genomewide search for spatially informative single nucleotide polymorphisms (SNPs) was undertaken, by way of sequencing reduced representation libraries. An allele frequency approach to SNP discovery was used, combining the data of 555 larvae and young-of-the-year (LYOY) into pools representing major geographical areas and mapping against a newly assembled genomic reference. From a set of 184,895 candidate loci, 384 were selected for validation using 167 LYOY. A highly discriminatory genotyping panel of 95 SNPs was ultimately developed by selecting loci with the most pronounced differences between western Atlantic and Mediterranean Sea LYOY. The panel was evaluated by genotyping a different set of LYOY (n = 326), and from these, 77.8% and 82.1% were correctly assigned to western Atlantic and Mediterranean Sea origins, respectively. The panel revealed temporally persistent differentiation among LYOY from the western Atlantic and Mediterranean Sea (FST = 0.008, p = .034). The composition of six mixed feeding aggregations in the Atlantic Ocean and Mediterranean Sea was characterized using genotypes from medium (n = 184) and large (n = 48) adults, applying population assignment and mixture analyses. The results provide evidence of persistent population structuring across broad geographic areas and extensive mixing in the Atlantic Ocean, particularly in the mid-Atlantic Bight and Gulf of St. Lawrence. The genomic reference and genotyping tools presented here constitute novel resources useful for future research and conservation efforts.
- Published
- 2018
4. Data from: Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next generation sequencing
- Author
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Puncher, Gregory Neils, Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodríguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S., Quattro, Joseph M., Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolas, Kimoto, Ai, Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, Isik K., Karakulak, Firdes Saadet, Abid, Noureddine, Santos, Miguel N., Addis, Piero, Arrizabalaga, Haritz, Tinti, Fausto, Puncher, Gregory Neils, Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodríguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S., Quattro, Joseph M., Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolas, Kimoto, Ai, Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, Isik K., Karakulak, Firdes Saadet, Abid, Noureddine, Santos, Miguel N., Addis, Piero, Arrizabalaga, Haritz, and Tinti, Fausto
- Abstract
The Atlantic bluefin tuna is a highly migratory species emblematic of the challenges associated with shared fisheries management. In an effort to resolve the species’ stock dynamics, a genome-wide search for spatially informative single nucleotide polymorphisms (SNPs) was undertaken, by way of sequencing reduced representation libraries. An allele frequency approach to SNP discovery was used, combining the data of 555 larvae and young-of-the-year (LYOY) into pools representing major geographical areas and mapping against a newly assembled genomic reference. From a set of 184,895 candidate loci, 384 were selected for validation using 167 LYOY. A highly discriminatory genotyping panel of 95 SNPs was ultimately developed by selecting loci with the most pronounced differences between western Atlantic and Mediterranean Sea LYOY. The panel was evaluated by genotyping a different set of LYOY (n= 326) and from these 77.8% and 82.1% were correctly assigned to western Atlantic and Mediterranean Sea origins, respectively. The panel revealed temporally persistent differentiation among LYOY from the western Atlantic and Mediterranean Sea (FST = 0.008, p=0.034). The composition of six mixed feeding aggregations in the Atlantic Ocean and Mediterranean Sea was characterized using genotypes from medium (n = 184) and large (n = 48) adults, applying population assignment and mixture analyses. The results provide evidence of persistent population structuring across broad geographic areas and extensive mixing in the Atlantic Ocean, particularly in the mid-Atlantic Bight and Gulf of St. Lawrence. The genomic reference and genotyping tools presented here constitute novel resources useful for future research and conservation efforts.
- Published
- 2018
5. Neurogenomic Profiling Reveals Distinct Gene Expression Profiles Between Brain Parts That Are Consistent in Ophthalmotilapia Cichlids
- Author
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Derycke, Sofie, primary, Kéver, Loic, additional, Herten, Koen, additional, Van den Berge, Koen, additional, Van Steenberge, Maarten, additional, Van Houdt, Jeroen, additional, Clement, Lieven, additional, Poncin, Pascal, additional, Parmentier, Eric, additional, and Verheyen, Erik, additional
- Published
- 2018
- Full Text
- View/download PDF
6. Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next-generation sequencing
- Author
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Puncher, Gregory N., primary, Cariani, Alessia, additional, Maes, Gregory E., additional, Van Houdt, Jeroen, additional, Herten, Koen, additional, Cannas, Rita, additional, Rodriguez-Ezpeleta, Naiara, additional, Albaina, Aitor, additional, Estonba, Andone, additional, Lutcavage, Molly, additional, Hanke, Alex, additional, Rooker, Jay, additional, Franks, James S., additional, Quattro, Joseph M., additional, Basilone, Gualtiero, additional, Fraile, Igaratza, additional, Laconcha, Urtzi, additional, Goñi, Nicolas, additional, Kimoto, Ai, additional, Macías, David, additional, Alemany, Francisco, additional, Deguara, Simeon, additional, Zgozi, Salem W., additional, Garibaldi, Fulvio, additional, Oray, Isik K., additional, Karakulak, Firdes Saadet, additional, Abid, Noureddine, additional, Santos, Miguel N., additional, Addis, Piero, additional, Arrizabalaga, Haritz, additional, and Tinti, Fausto, additional
- Published
- 2018
- Full Text
- View/download PDF
7. GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments
- Author
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Herten, Koen, primary, Hestand, Matthew S, additional, Vermeesch, Joris R, additional, and Van Houdt, Jeroen KJ, additional
- Published
- 2015
- Full Text
- View/download PDF
8. iRegulon: From a Gene List to a Gene Regulatory Network Using Large Motif and Track Collections
- Author
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Janky, Rekin's, primary, Verfaillie, Annelien, additional, Imrichová, Hana, additional, Van de Sande, Bram, additional, Standaert, Laura, additional, Christiaens, Valerie, additional, Hulselmans, Gert, additional, Herten, Koen, additional, Naval Sanchez, Marina, additional, Potier, Delphine, additional, Svetlichnyy, Dmitry, additional, Kalender Atak, Zeynep, additional, Fiers, Mark, additional, Marine, Jean-Christophe, additional, and Aerts, Stein, additional
- Published
- 2014
- Full Text
- View/download PDF
9. Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next generation sequencing
- Author
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Puncher, Gregory N., Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodriguez Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, J.R., Franks, James S., Quattro, Joseph, Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolás, Kimoto, A., Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, I.K., Karakulak, F.S., Abid, N., Santos, Miguel Neves, Addis, Piero, Arrizabalaga, Haritz, Tinti, Fausto, Puncher, Gregory N., Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodriguez Ezpeleta, Naiara, Albaina, Aitor, Estonba, M. Andone, Lutcavage, Molly, Hanke, Alex, Rooker, J.R., Franks, James S., Quattro, Joseph, Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicolás, Kimoto, A., Macías-López, Ángel David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, I.K., Karakulak, F.S., Abid, N., Santos, Miguel Neves, Addis, Piero, Arrizabalaga, Haritz, and Tinti, Fausto
- Abstract
The Atlantic bluefin tuna is a highly migratory species emblematic of the challenges associated with shared fisheries management. In an effort to resolve the species’ stock dynamics, a genomewide search for spatially informative single nucleotide polymorphisms (SNPs) was undertaken, by way of sequencing reduced representation libraries. An allele frequency approach to SNP discovery was used, combining the data of 555 larvae and young-of-the-year (LYOY) into pools representing major geographical areas and mapping against a newly assembled genomic reference. From a set of 184,895 candidate loci, 384 were selected for validation using 167 LYOY. A highly discriminatory genotyping panel of 95 SNPs was ultimately developed by selecting loci with the most pronounced differences between western Atlantic and Mediterranean Sea LYOY. The panel was evaluated by genotyping a different set of LYOY (n = 326), and from these, 77.8% and 82.1% were correctly assigned to western Atlantic and Mediterranean Sea origins, respectively. The panel revealed temporally persistent differentiation among LYOY from the western Atlantic and Mediterranean Sea (FST = 0.008, p = .034). The composition of six mixed feeding aggregations in the Atlantic Ocean and Mediterranean Sea was characterized using genotypes from medium (n = 184) and large (n = 48) adults, applying population assignment and mixture analyses. The results provide evidence of persistent population structuring across broad geographic areas and extensive mixing in the Atlantic Ocean, particularly in the mid-Atlantic Bight and Gulf of St. Lawrence. The genomic reference and genotyping tools presented here constitute novel resources useful for future research and conservation efforts.
10. Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next generation sequencing
- Author
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Piero Addis, Gregory E. Maes, Andone Estonba, Gregory Neils Puncher, Haritz Arrizabalaga, Işık Oray, Molly Lutcavage, S. Zgozi, Francisco Alemany, Noureddine Abid, Igaratza Fraile, Naiara Rodríguez-Ezpeleta, Firdes Karakulak, Gualtiero Basilone, Fulvio Garibaldi, Fausto Tinti, Nicolas Goñi, Joseph M. Quattro, Koen Herten, Ai Kimoto, James S. Franks, David Macías, Urtzi Laconcha, Simeon Deguara, Jeroen Van Houdt, Rita Cannas, Alessia Cariani, Miguel N. Santos, Alex Hanke, Jay R. Rooker, Aitor Albaina, European Commission, Ministerio de Ciencia e Innovación (España), Puncher, Gregory N, Cariani, Alessia, Maes, Gregory E, Van Houdt, Jeroen, Herten, Koen, Cannas, Rita, Rodriguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, M Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S, Quattro, Joseph M, Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goñi, Nicola, Kimoto, Ai, Macías, A David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W, Garibaldi, Fulvio, Oray, Isik K, Karakulak, F Saadet, Abid, Noureddine, Santos, Miguel N, Addis, Piero, Arrizabalaga, Haritz, and Tinti, Fausto
- Subjects
0301 basic medicine ,Reduced Representation Sequencing ,Genotyping Techniques ,origin assignment ,Single Nucleotide Polymorphisms ,Population Dynamics ,Population ,Sede Central IEO ,Biology ,Polymorphism, Single Nucleotide ,DNA sequencing ,03 medical and health sciences ,Mediterranean sea ,Gene Frequency ,Effective population size ,Mediterranean Sea ,Genetics ,Animals ,Pesquerías ,mixed stock analysi ,education ,Atlantic Ocean ,Allele frequency ,Genotyping ,Ecology, Evolution, Behavior and Systematics ,education.field_of_study ,Tuna ,Mixed-stock analysis ,Chromosome Mapping ,population structure ,mixed stock analysis ,Thunnus thynnu ,Sequence Analysis, DNA ,030104 developmental biology ,Evolutionary biology ,Single Nucleotide Polymorphism ,Animal Migration ,Thunnus thynnus ,Fisheries management ,Biotechnology - Abstract
The Atlantic bluefin tuna is a highly migratory species emblematic of the challenges associated with shared fisheries management. In an effort to resolve the species' stock dynamics, a genomewide search for spatially informative single nucleotide polymorphisms (SNPs) was undertaken, by way of sequencing reduced representation libraries. An allele frequency approach to SNP discovery was used, combining the data of 555 larvae and young-of-the-year (LYOY) into pools representing major geographical areas and mapping against a newly assembled genomic reference. From a set of 184,895 candidate loci, 384 were selected for validation using 167 LYOY. A highly discriminatory genotyping panel of 95 SNPs was ultimately developed by selecting loci with the most pronounced differences between western Atlantic and Mediterranean Sea LYOY. The panel was evaluated by genotyping a different set of LYOY (n = 326), and from these, 77.8% and 82.1% were correctly assigned to western Atlantic and Mediterranean Sea origins, respectively. The panel revealed temporally persistent differentiation among LYOY from the western Atlantic and Mediterranean Sea (FST = 0.008, p = .034). The composition of six mixed feeding aggregations in the Atlantic Ocean and Mediterranean Sea was characterized using genotypes from medium (n = 184) and large (n = 48) adults, applying population assignment and mixture analyses. The results provide evidence of persistent population structuring across broad geographic areas and extensive mixing in the Atlantic Ocean, particularly in the mid-Atlantic Bight and Gulf of St. Lawrence. The genomic reference and genotyping tools presented here constitute novel resources useful for future research and conservation efforts., This work was carried out under the provision of the ICCAT Atlantic-wide Research Programme for Bluefin Tuna (GBYP), funded by the European Union, by several ICCAT CPCs, the ICCAT Secretariat and other entities (see: http://www.iccat.int/GBYP/en/Budget.htm). Additional funds were provided by the MARES Joint Doctorate Programme Selected Under Erasmus Mundus and coordinated by Ghent University (FPA 2011-0016). Larvae from the Balearic Sea were provided by the ATAME project “Bluefin tuna abundance indices: towards recruitment estimators based on larval ecology” (CTM 2011-29525-C04-02) and the BLUEFIN project “Modelling bluefin spawning areas variability and population dynamics in the Western Mediterranean” (IEO-SOCIB agreement).
- Published
- 2021
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