Publications

76 entries « 1 of 2 »

2023

Merenciano, Miriam; Aguilera, Laura; González, Josefa

Two-step CRISPR-Cas9 protocol for transposable element deletion in D. melanogaster natural populations Journal Article Forthcoming

In: Star Protocols (accepted), Forthcoming.

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Coronado-Zamora, Marta; Gonzalez, Josefa

Transposons contribute to the functional diversification of the head, gut, and ovary transcriptomes across Drosophila natural strains Online

2023, visited: 02.12.2022.

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Coronado-Zamora, Marta; Salces-Ortiz, Judit; Gonzalez, Josefa

DrosOmics: the comparative genomics browser to explore omics data in natural strains of D. melanogaster Journal Article

In: Molecular Biology and Evolution, 2023.

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Merenciano, Miriam; Gonzalez, Josefa

The interplay between developmental stage and environment determines the adaptive effect of a natural transposable element insertion Journal Article

In: Molecular Biology and Evolution, 2023.

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Horvath, Vivien; Guirao-Rico, Sara; Salces-Ortiz, Judit; Rech, Gabriel E; Green, Llewellyn; Aprea, Eugenio; Rodeghiero, Mirco; Anfora, Gianfranco; Gonzalez, Josefa

Basal and stress-induced expression changes consistent with water loss reduction explain desiccation tolerance of natural Drosophila melanogaster populations Journal Article

In: BMC Biology, vol. 31, pp. 35, 2023.

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Merenciano, Miriam; Coronado-Zamora, Marta; González, Josefa

Experimental Validation of Transposable Element Insertions Using the Polymerase Chain Reaction (PCR) Book Chapter

In: Branco, Miguel R; de Mendoza Soler, Alexandre (Ed.): Transposable Elements: Methods and Protocols, pp. 95–114, Springer US, New York, NY, 2023, ISBN: 978-1-0716-2883-6.

Abstract | Links | BibTeX

2022

Green, Llewellyn; Coronado-Zamora, Marta; Radío, Santiago; Rech, Gabriel E; Salces-Ortiz, Judit; González, Josefa

The genomic basis of copper tolerance in Drosophila is shaped by a complex interplay of regulatory and environmental factors Journal Article

In: BMC Biology, vol. 20, no. 1, 2022.

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Brandt, Miriam; Groom, Quentin; Magro, Alexandra; Misevic, Dusan; Narraway, Claire L; Bruckermann, Till; Beniermann, Anna; Børsen, Tom; González, Josefa; Meeus, Sofie; Roy, Helen E; Sá-Pinto, Xana; Torres, Jorge Roberto; Jenkins, Tania

Promoting scientific literacy in evolution through citizen science Journal Article

In: Proceedings of the Royal Society B: Biological Sciences, vol. 289, no. 1980, 2022.

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Rech, Gabriel E; Radío, Santiago; Guirao-Rico, Sara; Aguilera, Laura; Horvath, Vivien; Green, Llewellyn; Lindstadt, Hannah; Jamilloux, Véronique; Quesneville, Hadi; González, Josefa

Population-scale long-read sequencing uncovers transposable elements associated with gene expression variation and adaptive signatures in Drosophila Journal Article

In: Nature Communications, vol. 13, no. 1, 2022.

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Coronado-Zamora, Marta; González, Josefa

Transposable elements and adaptation Book Chapter Forthcoming

In: Capy, Pierre (Ed.): ISTE, Forthcoming.

BibTeX

Vargas-Chavez, Carlos; Pendy, Neil Michel Longo; Nsango, Sandrine E; Aguilera, Laura; Ayala, Diego; González, Josefa

Transposable element variants and their potential adaptive impact in urban populations of the malaria vector Anopheles coluzzii Journal Article

In: Genome Research, 2022.

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2021

Ullastres, Anna; Merenciano, Miriam; González, Josefa

Regulatory regions in natural transposable element insertions drive interindividual differences in response to immune challenges in Drosophila Journal Article

In: Genome Biology, vol. 22, no. 1, 2021.

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Drosophila Evolution over Space and Time (DEST) - A New Population Genomics Resource

Kapun, Martin; Nunez, Joaquin C B; Bogaerts-Márquez, María; Murga-Moreno, Jesús; Paris, Margot; Outten, Joseph; Coronado-Zamora, Marta; Tern, Courtney; Rota-Stabelli, Omar; Garcia-Guerreiro, Maria P; Casillas, Sònia; Orengo, Dorcas J; Puerma, Eva; Kankare, Maaria; Ometto, Lino; Loeschcke, Volker; Onder, Banu S; Abbott, Jessica K; Schaeffer, Stephen W; Rajpurohit, Subhash; Behrman, Emily L; Schou, Mads F; Merritt, Thomas J S; Lazzaro, Brian P; Glaser-Schmitt, Amanda; Argyridou, Eliza; Staubach, Fabian; Wang, Yun; Tauber, Eran; Serga, Svitlana V; Fabian, Daniel K; Dyer, Kelly A; Wheat, Christopher W; Parsch, John; Grath, Sonja; Veselinovic, Marija Savic; Stamenkovic-Radak, Marina; Jelic, Mihailo; Buendía-Ruíz, Antonio J; Gómez-Julián, María Josefa; Espinosa-Jimenez, Luisa M; Gallardo-Jiménez, Francisco D.; Patenkovic, Aleksandra; Eric, Katarina; Tanaskovic, Marija; Ullastres, Anna; Guio, Lain; Merenciano, Miriam; Guirao-Rico, Sara; Horváth, Vivien; Obbard, Darren J; Pasyukova, Elena; Alatortsev, Vladimir E; Vieira, Cristina P; Vieira, Jorge; Torres, J Roberto; Kozeretska, Iryna; Maistrenko, Oleksandr M; Montchamp-Moreau, Catherine; Mukha, Dmitry V; Machado, Heather E; Lamb, Keric; Paulo, Tania; Yusuf, Leeban; Barbadilla, Antonio; Petrov, Dmitri; Schmidt, Paul; Gonzalez, Josefa; Flatt, Thomas; Bergland, Alan O

Drosophila Evolution over Space and Time (DEST) - A New Population Genomics Resource Journal Article

In: Molecular Biology and Evolution, vol. 38, pp. 5782-5805, 2021.

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Machado, Heather; Bergland, Alan O; Taylor, Ryan; Tilk, Susanne; Behrman, Emily; Dyer, Kelly; Fabian, Daniel; Flatt, Thomas; Gonzalez, Josefa; Karasov, Talia; Kozeretska, Iryna; Lazzaro, Brian P; Merritt, Thomas; Pool, John; textquotesingle, Katherine O; Rajpurohit, Subhash; Roy, Paula; Schaeffer, Stephen; Serga, Svitlana; Schmidt, Paul; Petrov, Dmitri

Broad geographic sampling reveals predictable and pervasive seasonal adaptation in Drosophila Journal Article

In: eLife, 2021.

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Hub, Consortium; Elliott, Tyler; Heitkam, Tony; Hubley, Robert; Quesneville, Hadi; Suh, Alexander; Wheeler, Travis

TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation Journal Article

In: Mobile DNA, vol. 12, no. 1, 2021.

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Wallace, Megan A; Coffman, Kelsey A; Gilbert, Clément; Ravindran, Sanjana; Albery, Gregory F; Abbott, Jessica; Argyridou, Eliza; Bellosta, Paola; Betancourt, Andrea J; Colinet, Hervé; Eric, Katarina; Glaser-Schmitt, Amanda; Grath, Sonja; Jelic, Mihailo; Kankare, Maaria; Kozeretska, Iryna; Loeschcke, Volker; Montchamp-Moreau, Catherine; Ometto, Lino; Onder, Banu Sebnem; Orengo, Dorcas J; Parsch, John; Pascual, Marta; Patenkovic, Aleksandra; Puerma, Eva; Ritchie, Michael G; Rota-Stabelli, Omar; Schou, Mads Fristrup; Serga, Svitlana V; Stamenkovic-Radak, Marina; Tanaskovic, Marija; Veselinovic, Marija Savic; Vieira, Jorge; Vieira, Cristina P; Kapun, Martin; Flatt, Thomas; González, Josefa; Staubach, Fabian; Obbard, Darren J

The discovery, distribution and diversity of DNA viruses associated with Drosophila melanogaster in Europe Journal Article

In: Virus Evolution, 2021.

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Casares, Fernando; Maeso, Ignacio; González, Josefa; Gómez-Mestre, Ivan; Nieto, Angela; Poyatos, Juan F.

The Genesis of the Phenotype Book Chapter

In: Bovolenta, Paola; Manzanares, Miguel; Buceta, Javier (Ed.): Editorial CSIC, 2021.

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Guirao-Rico, Sara; González, Josefa

Benchmarking the performance of Pool-seq SNP callers using simulated and real sequencing data Journal Article

In: Molecular Ecology Resources, vol. 21, pp. 1216–1229, 2021.

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Bogaerts-Márquez, María; Guirao-Rico, Sara; Gautier, Mathieu; González, Josefa

Temperature, rainfall and wind variables underlie environmental adaptation in natural populations of Drosophila melanogaster Journal Article

In: Molecular Ecology, vol. 30, no. 4, pp. 938–954, 2021.

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2020

C. Ruiz-Arenas,; A. Cáceres,; M. López,; D. Pelegrí-Sisó,; J. González,; González, J. R

Identifying chromosomal subpopulations based on their recombination histories advances the study of the genetic basis of phenotypic traits Journal Article

In: Genome Research, 2020.

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González, Juan; Ruiz-Arenas, Carlos; Cáceres, Alejandro; Morán, Ignasi; López-Sánchez, Marcos; Alonso, Lorena; Tolosana, Ignacio; Guindo-Martínez, Marta; Mercader, Josep M; Esko, Tonu; Torrents, David; González, Josefa; Pérez-Jurado, Luis A

Polymorphic Inversions Underlie the Shared Genetic Susceptibility of Obesity-Related Diseases Journal Article

In: The American Journal of Human Genetics, 2020.

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Almudi, Isabel; Vizueta, Joel; Wyatt, Christopher D R; de Mendoza, Alex; Marlétaz, Ferdinand; Firbas, Panos N; Feuda, Roberto; Masiero, Giulio; Medina, Patricia; Alcaina-Caro, Ana; Cruz, Fernando; Gómez-Garrido, Jessica; Gut, Marta; Alioto, Tyler S; Vargas-Chavez, Carlos; Davie, Kristofer; Misof, Bernhard; González, Josefa; Aerts, Stein; Lister, Ryan; Paps, Jordi; Rozas, Julio; Sánchez-Gracia, Alejandro; Irimia, Manuel; Maeso, Ignacio; Casares, Fernando

Genomic adaptations to aquatic and aerial life in mayflies and the origin of insect wings Journal Article

In: Nature Communications, vol. 11, no. 1, 2020.

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Kapun, Martin; Barron, Maite; Staubach, Fabian; Vieira, Jorge; Obbard, Darren; Wiberg, Axel R W; Goubert, Clement; Stabelli, Omar Rota; Kankare, Maaria; Haudry, Annabelle; Bogaerts-Marquez, Maria; Waidele, Lena; Kozeretska, Iryna; Pasyukova, Elena; Loeschcke, Volker; Pascual, Marta; Vieira, Cristina P; Serga, Svitlana; Montchamp-Moreau, Catherine; Abbott, Jessica; Gibert, Patricia; Porcelli, Damiano; Posnien, Nico; Sanchez-Gracia, Alejandro; Grath, Sonja; Sucena, Elio; Bergland, Alan; Guerreiro, Maria Pilar Garcia; Onder, Banu Sebnem; Argyridou, Eliza; Guio, Lain; Schou, Mads Fristrup; Deplancke, Bart; Vieira, Cristina; Ritchie, Michael G; Zwaan, Bas; Tauber, Eran; Orengo, Dorcas; Puerma, Eva; Aguade, Montserrat; Schmidt, Paul; Parsch, John; Betancourt, Andrea; Flatt, Thomas; Gonzalez, Josefa

Genomic analysis of European Drosophila populations reveals major longitudinal structure, continent-wide selection, and unknown DNA viruses Journal Article

In: Molecular Biology and Evolution, vol. 37, no. 9, pp. 2661-2678, 2020.

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Bogaerts-Marquez, María; Barrón, Maite; Fiston-Lavier, Anna-Sophie; Vendrell-Mir, Pol; Castanera, Raúl; Casacuberta, Josep M; González, Josefa

T-lex3: an accurate tool to genotype and estimate population frequencies of transposable elements using the latest short-read whole genome sequencing data Journal Article

In: Bioinformatics, 2020.

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Salces-Ortiz, Judit; Vargas-Chavez, Carlos; Guio, Lain; Rech, Gabriel E; Gonzalez, Josefa

Transposable elements contribute to the genomic response to insecticides in Drosophila melanogaster Journal Article

In: Philosophical Transactions of the Royal Society B: Biological Sciences, vol. 375, no. 1795, pp. 20190341, 2020.

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Vargas-Chávez, Carlos; González, Josefa

Transposable Elements in Anopheles Species: Refining Annotation Strategies Towards Population Genomics Analyses Book Chapter

In: Population Genomics, Springer International Publishing, 2020.

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Rota-Stabelli, Omar; Ometto, Lino; Tait, Gabriella; Ghirotto, Silvia; Kaur, Rupinder; Drago, Francesco; González, Josefa; Walton, Vaughn M; Anfora, Gianfranco; Rossi-Stacconi, Marco Valerio

Distinct genotypes and phenotypes in European and American strains of Drosophila suzukii: implications for biology and management of an invasive organism Journal Article

In: Journal of Pest Science, vol. 93, no. 1, pp. 77–89, 2020.

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2019

Vendrell-Mir, Pol; Barteri, Fabio; Merenciano, Miriam; González, Josefa; Casacuberta, Josep M; Castanera, Raúl

A benchmark of transposon insertion detection tools using real data Journal Article

In: Mobile DNA, vol. 10, no. 1, 2019.

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Barrón, Maite; Paupy, Christophe; Rahola, Nil; Akone-Ella, Ousman; Ngangue, Marc F; Wilson-Bahun, Theodel A; Pombi, Marco; Kengne, Pierre; Costantini, Carlo; Simard, Frédéric; González, Josefa; Ayala, Diego

A new species in the major malaria vector complex sheds light on reticulated species evolution Journal Article

In: Scientific Reports, vol. 9, no. 1, 2019.

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Guio, Lain; González, Josefa

New Insights on the Evolution of Genome Content: Population Dynamics of Transposable Elements in Flies and Humans Book Chapter

In: Methods in Molecular Biology, pp. 505–530, Springer New York, 2019.

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J.L. Villanueva-Cañas, Horvath; González, J.

Diverse families of transposable elements affect the transcriptional regulation of stress-response genes in Drosophila melanogaster Journal Article

In: Nucleic Acids Research, 2019.

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Merenciano, Miriam; Iacometti, Camillo; González, Josefa

A unique cluster of roo insertions in the promoter region of a stress response gene in Drosophila melanogaster Journal Article

In: Mobile DNA, vol. 10, no. 1, 2019.

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Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila.

Rech, Gabriel E; Bogaerts-Marquez, Maria; Barron, Maite G; Merenciano, Miriam; Villanueva-Canas, Jose L; Horvath, Vivien; Fiston-Lavier, Anna-Sophie; Luyten, Isabelle; Venkataram, Sandeep; Quesneville, Hadi; Petrov, Dmitri A; Gonzalez, Josefa

Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila. Journal Article

In: PLoS Genetics, vol. 15 , no. 2, pp. e1007900, 2019.

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Guirao-Rico, Sara; González, Josefa

Evolutionary insights from large scale resequencing datasets in Drosophila melanogaster Journal Article

In: Current Opinion in Insect Science, vol. 31, pp. 70-76, 2019.

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Clément Goubert Emmanuelle Lerat, Sara Guirao-Rico; González., Josefa

Population specific dynamics and selection patterns of transposable element insertions in European natural populations Journal Article

In: Molecular Ecology, 2019.

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2018

Mateo, L; Rech, G; Gonzalez, J

Genome-wide patterns of local adaptation in Western European Drosophila melanogaster natural populations Journal Article

In: Scientific Reports, vol. 8, pp. 16143, 2018.

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Guio, Lain; Vieira, Cristina; González, Josefa

Stress affects the epigenetic marks added by natural transposable element insertions in Drosophila melanogaster Journal Article

In: Scientific Reports, vol. 8, pp. 12197, 2018.

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Li, Zi-Wen; Hou, Xing-Hui; Chen, Jia-Fu; Xu, Yong-Chao; Josefa González Qiong Wu,; Guo, Ya-Long

Transposable elements contribute to the adaptation of Arabidopsis thaliana Journal Article

In: Genome Biology and Evolution, 2018.

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2017

Horvath, V; Merenciano, M; Gonzalez, J

Revisiting the Relationship between Transposable Elements and the Eukaryotic Stress Response Journal Article

In: Trends Genet, vol. 33, no. 11, pp. 832-841, 2017.

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Beyond SNPs: how to detect selection on transposable element insertions

Villanueva-Cañas, J L; Rech, G E; de Cara, M A R; González, J

Beyond SNPs: how to detect selection on transposable element insertions Journal Article

In: Methods in Ecology and Evolution, vol. 8, no. 6, pp. 728-737, 2017.

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Manh, H Le; Guio, L; Merenciano, M; Rovira, Q; Barron, M G; Gonzalez, J

Natural and laboratory mutations in kuzbanian are associated with zinc stress phenotypes in Drosophila melanogaster Journal Article

In: Sci Rep, vol. 7, pp. 42663, 2017.

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2016

Bergland, A O; Tobler, R; Gonzalez, J; Schmidt, P; Petrov, D A

Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation in Drosophila melanogaster Journal Article

In: Mol Ecol., vol. 25, no. 5, pp. 34, 2016.

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Multiple Independent Retroelement Insertions in the Promoter of a Stress Response Gene Have Variable Molecular and Functional Effects in Drosophila

Merenciano, M; Ullastres, A; de Cara, M A R; Barron, M G; Gonzalez, J

Multiple Independent Retroelement Insertions in the Promoter of a Stress Response Gene Have Variable Molecular and Functional Effects in Drosophila Journal Article

In: PLoS Genet, vol. 12, no. 8, pp. e1006249, 2016.

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Ullastres, A; Merenciano, M; Guio, L; González, J

Transposable elements: a toolkit for stress and environmental adaptation in bacteria Book Chapter

In: de Bruijn, Frans J (Ed.): Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria, Chapter 20.10, JohnWiley & Sons, Inc., First edition, 2016.

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2015

Gonzalez, J; Martinez, J; Makalowski, W

Lack of population differentiation patterns of previously identified putatively adaptive transposable element insertions at microgeographic scales Journal Article

In: Biol Direct, vol. 10, pp. 50, 2015.

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Fiston-Lavier, A S; Barron, M G; Petrov, D A; Gonzalez, J

T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data Journal Article

In: Nucleic Acids Res, vol. 43, no. 4, pp. e22, 2015.

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Guio, L; Gonzalez, J

The dominance effect of the adaptive transposable element insertion Bari-Jheh depends on the genetic background Journal Article

In: Genome Biol Evol, vol. 7, no. 5, pp. 1260-6, 2015.

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Exploring the phenotypic space and the evolutionary history of a natural mutation in Drosophila melanogaster

Ullastres, A; Petit, N; González, J

Exploring the phenotypic space and the evolutionary history of a natural mutation in Drosophila melanogaster Journal Article

In: Molecular Biology and Evolution, vol. 32, no. 7, 2015.

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2014

Adaptation through chromosomal inversions in Anopheles

Ayala, D; Ullastres, A; Gonzalez, J

Adaptation through chromosomal inversions in Anopheles Journal Article

In: Front Genet, vol. 5, pp. 129, 2014.

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Barron, M G; Fiston-Lavier, A S; Petrov, D A; Gonzalez, J

Population genomics of transposable elements in Drosophila Journal Article

In: Annu Rev Genet, vol. 48, pp. 561-81, 2014.

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76 entries « 1 of 2 »
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