Rute Andreia Rodrigues da Fonseca

Rute Andreia Rodrigues da Fonseca

Associate Professor

  • Center for Macroecology, Evolution and Climate

    Universitetsparken 15, København Ø

    Phone: +4535334487
  • Center for Macroecology, Evolution and Climate

    Universitetsparken 15, København Ø

    Phone: +4535334487

  1. 2021
  2. Published

    Comparative genomics provides insights into the aquatic adaptations of mammals

    Yuan, Y., Zhang, Y., Zhang, P., Liu, C., Wang, J., Gao, H., Rus Hoelzel, A., Seim, I., Lv, M., Lin, M., Dong, L., Gao, H., Yang, Z., Caruso, F., Lin, W., Rodrigues da Fonseca, Rute Andreia, Wang, D., Wang, X., Rasmussen, M. H., Liu, M., Zheng, J., Zhao, L., Campos, P. F., Kang, H., Iversen, M., Song, Y., Guo, X., Guo, J., Qin, Y., Pan, S., Xu, Q., Meng, L., A, Y., Liu, S., Ming-Yuen Lee, S., Liu, X., Xu, X., Yang, H., Fan, G., Wang, K. & Li, S., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 37, 9 p., e2106080118.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Published
  4. Published

    The Crown Pearl: a draft genome assembly of the European freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758)

    Gomes-dos-Santos, A., Lopes-Lima, M., Machado, A. M., Ramos, A. M., Usié, A., Bolotov, I. N., Vikhrev, I. V., Breton, S., Castro, L. F. C., Rodrigues da Fonseca, Rute Andreia, Geist, J., Österling, M. E., Prié, V., Teixeira, A., Gan, H. M., Simakov, O. & Froufe, E., 2021, In: DNA research : an international journal for rapid publication of reports on genes and genomes. 28, 2, 10 p., dsab002.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. Published

    Using UCEs to track the influence of sea‐level change on leafy seadragon populations

    Stiller, Josefin, Rodrigues da Fonseca, Rute Andreia, Alfaro, M. E., Faircloth, B. C., Wilson, N. G. & Rouse, G. W., 2021, In: Molecular Ecology. p. 1364-1380

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. 2020
  7. Published

    Declining genetic diversity of European honeybees along the twentieth century

    Themudo, G. E., Rey de la Iglesia, Alba, Tascón, L. R., Jensen, Annette Bruun, Rodrigues da Fonseca, Rute Andreia & Campos, P. F., 29 Jun 2020, In: Scientific Reports. 10, 12 p., 10520.

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. Published

    A draft genome sequence of the elusive giant squid, Architeuthis dux

    Rodrigues da Fonseca, Rute Andreia, Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, Bent, Peñaloza, F., Musacchia, F., Alexander, G. C., Osório, H., Winkelmann, I., Simakov, O., Rasmussen, Simon, Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., Zhang, Guojie, Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Pontén, Thomas, Nielsen, Rasmus & Gilbert, M Thomas P, 2020, In: GigaScience. 9, 1, 12 p., giz152.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Published

    Adaptive venom evolution and toxicity in octopods is driven by extensive novel gene formation, expansion, and loss

    Whitelaw, B. L., Cooke, I. R., Finn, J., Rodrigues da Fonseca, Rute Andreia, Ritschard, E. A., Gilbert, M Thomas P, Simakov, O. & Strugnell, J. M., 2020, In: GigaScience. 9, 11, 15 p., giaa120.

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Published

    Cartilaginous fishes offer unique insights into the evolution of the nuclear receptor gene repertoire in gnathostomes

    Fonseca, E., Machado, A. M., Vilas-Arrondo, N., Gomes-dos-Santos, A., Verissimo, A., Esteves, P., Almeida, T., Themudo, G., Ruivo, R., Perez, M., Rodrigues da Fonseca, Rute Andreia, Santos, M. M., Froufe, E., Roman-Marcote, E., Venkatesh, B. & Castro, L. F. C., 2020, In: General and Comparative Endocrinology. 295, 10 p., 113527.

    Research output: Contribution to journalJournal articleResearchpeer-review

  11. Published

    Dense sampling of bird diversity increases power of comparative genomics

    Feng, S., Stiller, Josefin, DENG, Yuan, Armstrong, J., Fang, Qi, Hart Reeve, Andrew, Xie, D., Chen, G., Guo, C., Faircloth, B. C., Petersen, Bent, Wang, Z., Zhou, Q., Diekhans, M., Chen, W., Andreu-Sánchez, S., Margaryan, Ashot, Howard, J. T., Parent, C., Antunes Pacheco, George, Sinding, Mikkel Holger Strander, Puetz, Lara Christine, Cavill, Emily Louisa, Ribeiro, Â. M., Eckhart, L., Fjeldså, Jon, Hosner, Peter Andrew, Brumfield, R. T., Christidis, L., Bertelsen, Mads Frost, Sicheritz-Pontén, Thomas, Tietze, D. T., Robertson, B. C., Song, G., Borgia, G., Claramunt, S., Lovette, I. J., Cowen, S. J., Njoroge, P., Dumbacher, J. P., Ryder, O. A., Fuchs, J., Bunce, M., Burt, D. W., Cracraft, J., Meng, G., Hackett, S. J., Ryan, P. G., Jønsson, Knud Andreas, Jamieson, I. G., Rodrigues da Fonseca, Rute Andreia, Braun, E. L., Houde, P., Mirarab, S., Suh, A., Hansson, B., Ponnikas, S., Sigeman, H., Stervander, M., Frandsen, P. B., van der Zwan, H., van der Sluis, R., Visser, C., Balakrishnan, C. N., Clark, A. G., Fitzpatrick, J. W., Bowman, R., Chen, N., Cloutier, A., Sackton, T. B., Edwards, S. V., Foote, D. J., Shakya, S. B., Sheldon, F. H., Vignal, A., Soares, A. E. R., Shapiro, B., González-Solís, J., Ferrer-Obiol, J., Rozas, J., Riutort, M., Tigano, A., Friesen, V., Dalén, L., Urrutia, A. O., Székely, T., Liu, Y., Campana, M. G., Corvelo, A., Fleischer, R. C., Rutherford, K. M., Gemmell, N. J., Dussex, N., Mouritsen, H., Thiele, N., Delmore, K., Liedvogel, M., Franke, A., Hoeppner, M. P., Krone, O., Fudickar, A. M., Milá, B., Ketterson, E. D., Fidler, A. E., Friis, G., Parody-Merino, Á. M., Battley, P. F., Cox, M. P., Lima, N. C. B., Prosdocimi, F., Parchman, T. L., Schlinger, B. A., Loiselle, B. A., Blake, J. G., Lim, H. C., Day, L. B., Fuxjager, M. J., Baldwin, M. W., Braun, M. J., Wirthlin, M., Dikow, R. B., Ryder, T. B., Camenisch, G., Keller, L. F., Dacosta, J. M., Hauber, M. E., Louder, M. I. M., Witt, C. C., McGuire, J. A., Mudge, J., Megna, L. C., Carling, M. D., Wang, B., Taylor, S. A., Del-Rio, G., Aleixo, A., Vasconcelos, A. T. R., Mello, C. V., Weir, J. T., Haussler, D., Li, Q., Yang, H., Wang, J., Lei, F., Rahbek, Carsten, Gilbert, M Thomas P, Graves, G. R., Jarvis, E. D., Paten, B. & Zhang, Guojie, 2020, In: Nature. 587, 7833, p. 252-257

    Research output: Contribution to journalJournal articleResearchpeer-review

  12. Published

    Evolution of the extracytoplasmic function σ factor protein family

    Pinto, D. & Rodrigues da Fonseca, Rute Andreia, 2020, In: NAR Genomics and Bioinformatics. 2, 1, 13 p., lqz026.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. Published

    Link Your Sites (LYS) Scripts: Automated Search of Protein Structures and Mapping of Sites Under Positive Selection Detected by PAML

    Sanz Moreta, Lys & Rodrigues da Fonseca, Rute Andreia, 2020, In: Evolutionary Biology. 47, 3, p. 240-245 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  14. Published

    Liver transcriptome resources of four commercially exploited teleost species

    Machado, A. M., Muñoz-Merida, A., Fonseca, E., Veríssimo, A., Pinto, R., Felício, M., Rodrigues da Fonseca, Rute Andreia, Froufe, E. & Castro, L. F. C., 2020, In: Scientific Data. 7, 9 p., 214.

    Research output: Contribution to journalJournal articleResearchpeer-review

  15. Published

    Losing Genes: The Evolutionary Remodeling of Cetacea Skin

    Espregueira Themudo, G., Alves, L. Q., Machado, A. M., Lopes-Marques, M., Rodrigues da Fonseca, Rute Andreia, Fonseca, M., Ruivo, R. & Castro, L. F. C., 2020, In: Frontiers in Marine Science. 7, 592375.

    Research output: Contribution to journalReviewResearchpeer-review

  16. 2019
  17. Published

    Population genomic footprints of environmental pollution pressure in natural populations of the Mediterranean mussel

    Ribeiro, Â. M., Canchaya, C. A., Penaloza, F., Galindo, J. & Rodrigues da Fonseca, Rute Andreia, Jun 2019, In: Marine Genomics. 45, p. 11-15

    Research output: Contribution to journalJournal articleResearchpeer-review

  18. Published

    31º South: The physiology of adaptation to arid conditions in a passerine bird

    Ribeiro, Â. M., Puetz, Lara Christine, Pattinson, N. B., Dalén, L., Deng, Y., Zhang, Guojie, Rodrigues da Fonseca, Rute Andreia, Smit, B. & Gilbert, M Thomas P, 2019, In: Molecular Ecology. 28, 16, p. 3709-3721 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  19. Published

    Complete Inactivation of Sebum-Producing Genes Parallels the Loss of Sebaceous Glands in Cetacea

    Lopes-Marques, M., Machado, A. M., Alves, L. Q., Fonseca, M. M., Barbosa, S., Sinding, M. S., Rasmussen, M. H., Iversen, M. R., Bertelsen, Mads Frost, Campos, P. F., Rodrigues da Fonseca, Rute Andreia, Ruivo, R. & Castro, L. F. C., 2019, In: MOLECULAR BIOLOGY AND EVOLUTION . 36, 6, p. 1270-1280

    Research output: Contribution to journalJournal articleResearchpeer-review

  20. Published

    Consequences of breed formation on patterns of genomic diversity and differentiation: the case of highly diverse peripheral Iberian cattle

    Rodrigues da Fonseca, Rute Andreia, Urena, I., Afonso, S., Pires, A. E., Jørsboe, Emil, Chikhi, L. & Ginja, C., 2019, In: BMC Genomics. 20, p. 1-13 334.

    Research output: Contribution to journalJournal articleResearchpeer-review

  21. Published

    Identifying loci under positive selection in complex population histories

    Refoyo Martínez, Alba, Rodrigues da Fonseca, Rute Andreia, Halldórsdóttir, K., Árnason, E., Mailund, T. & Racimo, Fernando, 2019, In: Genome Research. 29, 9, p. 1506-1520

    Research output: Contribution to journalJournal articleResearchpeer-review

  22. Published

    Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits

    Chen, L., Qin, Q., Jiang, Y., Wang, K., Lin, Z., Li, Z., Bibi, F., Yang, Y., Wang, J., Nie, W., Su, W., Liu, G., Li, Q., Fu, W., Pan, X., Liu, C., Yang, J., Zhang, C., Yin, Y., Wang, Y., Zhao, Y., Zhang, C., Wang, Z., Qin, Y., Liu, W., Wang, B., Ren, Y., Zhang, R., Zeng, Y., Rodrigues da Fonseca, Rute Andreia, Wei, B., Li, R., Wan, W., Zhao, R., Zhu, W., Wang, Y., Duan, S., Gao, Y., Zhang, Y. E., Chen, C., Hvilsom, C., Epps, C. W., Chemnick, L. G., Doug, Y., Mirarab, S., Siegismund, Hans Redlef, Ryder, O. A., Gilbert, M Thomas P, Lewin, H. A., Zhang, Guojie, Heller, Rasmus & Wang, W., 2019, In: Science. 364, 6446, p. 1152-

    Research output: Contribution to journalJournal articleResearchpeer-review

  23. 2018
  24. Published

    Genome sequence and effectorome of Moniliophthora perniciosa and Moniliophthora roreri subpopulations

    Barbosa, C. S., Rodrigues da Fonseca, Rute Andreia, Batista, T. M., Barreto, M. A., Argolo, C. S., de Carvalho, M. R., Jordao do Amaral, D. O., de Andrade Silva, E. M., Arevalo-Gardini, E., Hidalgo, K. S., Franco, G. R., Pirovani, C. P., Micheli, F. & Gramacho, K. P., 3 Jul 2018, In: BMC Genomics. 19, 12 p., 509.

    Research output: Contribution to journalJournal articleResearchpeer-review

  25. Published

    "Out of the Can": A Draft Genome Assembly, Liver Transcriptome, and Nutrigenomics of the European Sardine, Sardina pilchardus

    Machado, A. M., Tørresen, O. K., Kabeya, N., Couto, A., Petersen, Bent, Felicio, M., Campos, P. F., Fonseca, E., Bandarra, N., Lopes-Marques, M., Ferraz, R., Ruivo, R., Fonseca, M. M., Jentoft, S., Monroig, Ó., Rodrigues da Fonseca, Rute Andreia & Castro, L. F. C., 2018, In: Genes. 9, 10, p. 1-13 485.

    Research output: Contribution to journalJournal articleResearchpeer-review

  26. Published

    A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias

    Machado, A. M., Felício, M., Fonseca, E., Rodrigues da Fonseca, Rute Andreia & Castro, L. F. C., 2018, In: Data in Brief. 18, p. 276-284 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  27. 2017
  28. Published

    Natural selection shaped the rise and fall of passenger pigeon genomic diversity

    Murray, G. G. R., Soares, A. E. R., Novak, B. J., Schaefer, N. K., Cahill, J. A., Baker, A. J., Demboski, J. R., Doll, A., Rodrigues da Fonseca, Rute Andreia, Fulton, T. L., Gilbert, M Thomas P, Heintzman, P. D., Letts, B., McIntosh, G., O'Connell, B. L., Peck, M., Pipes, M., Rice, E. S., Santos, K. M., Sohrweide, A. G., Vohr, S. H., Corbett-Detig, R. B., Green, R. E. & Shapiro, B., 17 Nov 2017, In: Science. 358, 6365, p. 951-954 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  29. Published

    Molecular clocks indicate turnover and diversification of modern coleoid cephalopods during the Mesozoic Marine Revolution

    Tanner, A. R., Fuchs, D., Winkelmann, I. E. H., Gilbert, M Thomas P, Pankey, M. S., Oliveira Ribeiro, Â. M., Kocot, K. M., Halanych, K. M., Oakley, T. H., Rodrigues da Fonseca, Rute Andreia, Pisani, D. & Vinther, J., 15 Mar 2017, In: Proceedings of the Royal Society B: Biological Sciences. 284, 1850, 7 p., 20162818.

    Research output: Contribution to journalJournal articleResearchpeer-review

  30. Published

    Marine genomics: news and views

    Oliveira Ribeiro, Â. M., Foote, A. D., Kupczok, A., Frazão, B., Limborg, Morten Tønsberg, Piñeiro, R., Abalde, S., Rocha, S. & Rodrigues da Fonseca, Rute Andreia, Feb 2017, In: Marine Genomics. 31, p. 1-8 8 p.

    Research output: Contribution to journalReviewResearchpeer-review

  31. 2016
  32. Published

    Combined transcriptomic and proteomic analysis of the posterior salivary gland from the southern blue-ringed octopus and the southern sand octopus

    Whitelaw, B. L., Strugnell, J. M., Faou, P., Rodrigues da Fonseca, Rute Andreia, Hall, N. E., Norman, M., Finn, J. & Cooke, I. R., 2016, In: Journal of Proteome Research. 15, 9, p. 3284-3297 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  33. Published

    Comparative analysis of complete mitochondrial genomes suggests that relaxed purifying selection is driving high nonsynonymous evolutionary rate of the NADH2 gene in whitefish (Coregonus ssp.)

    Jacobsen, M. W., Rodrigues da Fonseca, Rute Andreia, Bernatchez, L. & Hansen, M. M., 2016, In: Molecular Phylogenetics and Evolution. 95, p. 161-170 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  34. Published

    Next-generation biology: sequencing and data analysis approaches for non-model organisms

    Rodrigues da Fonseca, Rute Andreia, Albrechtsen, Anders, Themudo, G. E. C., Ramos Madrigal, Jazmin, Sibbesen, Jonas Andreas, Sørensen, L. M., Zepeda Mendoza, M. L., Campos, P., Heller, Rasmus & Pereira, R., 2016, In: Marine Genomics. 30, p. 3-13

    Research output: Contribution to journalJournal articleResearchpeer-review

  35. 2015
  36. Published

    A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

    Ribeiro, Â. M., Zepeda Mendoza, M. L., Bertelsen, Mads Frost, Kristensen, Annemarie T., Jarvis, E. D., Gilbert, M Thomas P & Rodrigues da Fonseca, Rute Andreia, 2015, In: B M C Evolutionary Biology. 15, 8 p., 124.

    Research output: Contribution to journalJournal articleResearchpeer-review

  37. Published

    Ancient genomics

    Der Sarkissian, C., Allentoft, Morten Erik, Avila Arcos, M. D. C., Barnett, R., Campos, P. F., Cappellini, Enrico, Ermini, L., Fernandez Garcia, R., Rodrigues da Fonseca, Rute Andreia, Ginolhac, A., Hansen, Anders Johannes, Jónsson, H., Korneliussen, Thorfinn Sand, Margaryan, Ashot, Martin, M. D., Moreno Mayar, J. Víctor, Raghavan, M., Rasmussen, M., Sandoval-Velasco, Marcela, Schroeder, Hannes, Schubert, M., Seguin-Orlando, A., Wales, N., Gilbert, M Thomas P, Willerslev, Eske & Orlando, L. A. A., 2015, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 370, 1660, 12 p., 20130387.

    Research output: Contribution to journalReviewResearchpeer-review

  38. Published

    Phylogenomic analyses data of the avian phylogenomics project

    Jarvis, E. D., Mirarab, S., Aberer, A. J., Li, B., Houde, P., Li, C., Ho, S. Y. W., Faircloth, B. C., Nabholz, B., Howard, J. T., Suh, A., Weber, C. C., Rodrigues da Fonseca, Rute Andreia, Alfaro Nuñez, L. A., Narula, N., Liu, L., Burt, D., Ellegren, H., Edwards, S. V., Stamatakis, A., Mindell, D. P., Cracraft, J., Braun, E. L., Warnow, T., Wang, J., Gilbert, M Thomas P & Zhang, Guojie, 2015, In: GigaScience. 4, 9 p., 4.

    Research output: Contribution to journalJournal articleResearchpeer-review

  39. Published

    Proteomic profiling of gill GSTs in Mytilus galloprovincialis from the North of Portugal and Galicia evidences variations at protein isoform level with a possible relation with water quality

    Azevedo, C. C., Guzman-Guillen, R., Martins, J. C., Osório, H., Vasconcelos, V., Rodrigues da Fonseca, Rute Andreia & Campos, A., 2015, In: Marine Environmental Research. 110, p. 152-161 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  40. Published

    Shotgun analysis of the marine mussel Mytilus edulis hemolymph proteome and mapping the innate immunity elements

    Campos, A., Apraiz, I., Rodrigues da Fonseca, Rute Andreia & Cristobal, S., 2015, In: Proteomics. 15, 23-24, p. 4021-4029 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  41. Published

    The origin and evolution of maize in the Southwestern United States

    Rodrigues da Fonseca, Rute Andreia, Smith, B. D., Wales, N., Cappellini, Enrico, Skoglund, P., Fumagalli, M., Samaniego Castruita, J. A., Carøe, Christian, Avila Arcos, M. D. C., Hufnagel, D. E., Korneliussen, Thorfinn Sand, Vieira, Filipe Garrett, Jakobsson, M., Arriaza, B., Willerslev, Eske, Nielsen, Rasmus, Hufford, M. B., Albrechtsen, Anders, Ross-Ibarra, J. & Gilbert, M Thomas P, 2015, In: Nature Plants. 1, 5 p., 14003.

    Research output: Contribution to journalLetterResearchpeer-review

  42. 2014
  43. Published

    Cephalopods in neuroscience: regulations, research and the 3Rs

    Fiorito, G., Affuso, A., Anderson, D. B., Basil, J., Bonnaud, L., Botta, G., Cole, A., D'Angelo, L., De Girolamo, P., Dennison, N., Dickel, L., Di Cosmo, A., Di Cristo, C., Gestal, C., Rodrigues da Fonseca, Rute Andreia, Grasso, F., Kristiansen, T., Kuba, M., Maffucci, F., Manciocco, A., Mark, F. C., Melillo, D., Osorio, D., Palumbo, A., Perkins, K., Ponte, G., Raspa, M., Shashar, N., Smith, J., Smith, D., Sykes, A., Villanueva, R., Tublitz, N., Zullo, L. & Andrews, P., 2014, In: Invertebrate Neuroscience. 14, 1, p. 13-36 24 p.

    Research output: Contribution to journalReviewResearchpeer-review

  44. Published

    Comparative genomics reveals insights into avian genome evolution and adaptation

    Zhang, Guojie, Li, C., Li, Q., Li, B., Larkin, D. M., Lee, C., Storz, J. F., Antunes, A., Greenwold, M. J., Meredith, R. W., Ödeen, A., Cui, J., Zhou, Q., Xu, L., Pan, H., Wang, Z., Jin, L., Zhang, P., Hu, H., Yang, W., Hu, J., Xiao, J., Yang, Z., Liu, Y., Xie, Q., Yu, H., Lian, J., Wen, P., Zhang, F., Li, H., Zeng, Y., Xiong, Z., Liu, S., Zhou, L., Huang, Z., An, N., Wang, J., Zheng, Q., Xiong, Y., Wang, G., Wang, B., Wang, J., Fan, Y., Rodrigues da Fonseca, Rute Andreia, Alfaro Nuñez, L. A., Schubert, M., Orlando, L. A. A., Mourier, T., Howard, J. T., Ganapathy, G., Pfenning, A., Whitney, O., Rivas, M. V., Hara, E., Smith, J., Farré, M., Narayan, J., Slavov, G., Romanov, M. N., Borges, R., MacHado, J. P., Khan, I., Springer, M. S., Gatesy, J., Hoffmann, F. G., Opazo, J. C., Håstad, O., Sawyer, R. H., Kim, H., Kim, K. W., Kim, H. J., Cho, S., Li, N., Huang, Y., Bruford, M. W., Zhan, X., Dixon, A., Bertelsen, Mads Frost, Derryberry, E., Warren, W., Wilson, R. K., Li, S., Ray, D. A., Green, R. E., O'Brien, S. J., Griffin, D., Johnson, W. E., Haussler, D., Ryder, O. A., Willerslev, Eske, Graves, G. R., Alström, P., Fjeldså, Jon, Mindell, D. P., Edwards, S. V., Braun, E. L., Rahbek, Carsten, Burt, D. W., Houde, P., Zhang, Y., Yang, H., Wang, J., Jarvis, E. D., Gilbert, M Thomas P & Wang, J., 2014, In: Science. 346, 6215, p. 1311-1320 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  45. Published

    DivA: detection of non-homologous and very divergent regions in protein sequence alignments

    Zepeda Mendoza, M. L., Nygaard, S. & Rodrigues da Fonseca, Rute Andreia, 2014, In: BMC Research Notes. 7, 806, 6 p., 806.

    Research output: Contribution to journalJournal articleResearchpeer-review

  46. Published

    Proteomic Profiling of Cytosolic Glutathione Transferases from Three Bivalve Species: Corbicula fluminea, Mytilus galloprovincialis and Anodonta cygnea

    Martins, J. C., Campos, A., Osorio, H., Rodrigues da Fonseca, Rute Andreia & Vasconcelos, V., 2014, In: International Journal of Molecular Sciences (Online). 15, 2, p. 1887-1900 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  47. Published

    The elusive nature of adaptive mitochondrial DNA evolution of an Arctic lineage prone to frequent introgression

    Melo-Ferreira, J., Vilela, J., Fonseca, M. M., Rodrigues da Fonseca, Rute Andreia, Boursot, P. & Alves, P. C., 2014, In: Genome Biology and Evolution. 6, 4, p. 886-896 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  48. Published

    Whole-genome analyses resolve early branches in the tree of life of modern birds

    Jarvis, E. D., Mirarab, S., Aberer, A. J., Li, B., Houde, P., Li, C., Ho, S. Y. W., Faircloth, B. C., Nabholz, B., Howard, J. T., Suh, A., Weber, C. C., Rodrigues da Fonseca, Rute Andreia, Li, J., Zhang, F., Li, H., Zhou, L., Narula, N., Liu, L., Ganapathy, G., Boussau, B., Bayzid, M. S., Zavidovych, V., Subramanian, S., Gabaldón, T., Capella-Gutiérrez, S., Huerta-Cepas, J., Rekepalli, B., Terkelsen, K. M., Schierup, M. H., Lindow, Bent Erik Kramer, Warren, W. C., Ray, D., Green, R. E., Bruford, M. W., Zhan, X., Dixon, A., Li, S., Li, N., Huang, Y., Derryberry, E. P., Bertelsen, Mads Frost, Sheldon, F. H., Brumfield, R. T., Mello, C. V., Lovell, P. V., Wirthlin, M., Schneider, M. P. C., Prosdocimi, F., Samaniego Castruita, J. A., Velazquez, A. M. V., Alfaro Nuñez, L. A., Campos, P., Petersen, Bent, Sicheritz-Ponten, T., Pas, A., Bailey, T., Scofield, P., Bunce, M., Lambert, D. M., Zhou, Q., Perelman, P., Driskell, A. C., Shapiro, B., Xiong, Z., Zeng, Y., Liu, S., Li, Z., Liu, B., Wu, K., Xiao, J., Yinqi, X., Zheng, Q., Zhang, Y., Yang, H., Wang, J., Smeds, L., Rheindt, F. E., Braun, M., Fjeldså, Jon, Orlando, L. A. A., Barker, F. K., Jønsson, Knud Andreas, Johnson, W., Koepfli, K. P., O'Brien, S., Haussler, D., Ryder, O. A., Rahbek, Carsten, Willerslev, Eske, Graves, G. R., Glenn, T. C., McCormack, J., Burt, D., Ellegren, H., Alström, P., Edwards, S. V., Stamatakis, A., Mindell, D. P., Cracraft, J., Braun, E. L., Warnow, T., Wang, J., Gilbert, M Thomas P & Zhang, Guojie, 2014, In: Science. 346, 6215, p. 1320-1331 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  49. 2012
  50. Published

    Cephalopod genomics: a plan of strategies and organization

    Albertin, C. B., Bonnaud, L., Brown, C. T., Crookes-Goodson, W. J., Rodrigues da Fonseca, Rute Andreia, Di Cristo, C., Dilkes, B. P., Edsinger-Gonzales, E., Freeman, Jr., R. M., Hanlon, R. T., Koenig, K. M., Lindgren, A. R., Martindale, M. Q., Minx, P., Moroz, L. L., Nödl, M., Nyholm, S. V., Ogura, A., Pungor, J. R., Rosenthal, J. J. C., Schwarz, E. M., Shigeno, S., Strugnell, J. M., Wollesen, T., Zhang, G. & Ragsdale, C. W., 2012, In: Standards in Genomic Sciences. 7, p. 175-188 14 p., 1.

    Research output: Contribution to journalJournal articleResearchpeer-review

  51. Published

    Proteomic analysis of a pleistocene mammoth femur reveals more than one hundred ancient bone proteins

    Cappellini, Enrico, Jensen, Lars Juhl, Szklarczyk, D. M., Ginolhac, A., Rodrigues da Fonseca, Rute Andreia, Stafford jr., T., Holen, S. R., Collins, M. J., Orlando, L. A. A., Willerslev, Eske, Gilbert, M Thomas P & Olsen, Jesper Velgaard, 2012, In: Journal of Proteome Research. 11, 2, p. 917-926 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  52. 2011
  53. Published

    Positive selection on the killer whale mitogenome

    Foote, A. D., Morin, P. A., Durban, J. W., Pitman, R. L., Wade, P., Willerslev, Eske, Gilbert, M Thomas P & Rodrigues da Fonseca, Rute Andreia, 2011, In: Biology Letters. 7, 1, p. 116-118 3 p.

    Research output: Contribution to journalLetterResearchpeer-review

  54. 2010
  55. Published

    Positive selection on apoptosis related genes

    Rodrigues da Fonseca, Rute Andreia, Kosiol, C., Vinař, T., Siepel, A. & Nielsen, Rasmus, 2010, In: FEBS Letters. 584, 3, p. 469-476 8 p.

    Research output: Contribution to journalReviewResearchpeer-review

ID: 33270633