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Convergent evolution of SWS2 opsin facilitates adaptive radiation of threespine stickleback into different light environments.
Published in:
PLoS Biology, 2017, v. 15, n. 4, p. 1, doi. 10.1371/journal.pbio.2001627
By:
- Marques, David A.;
- Taylor, John S.;
- Jones, Felicity C.;
- Di Palma, Federica;
- Kingsley, David M.;
- Reimchen, Thomas E.
Publication type:
Article
A new genome allows the identification of genes associated with natural variation in aluminium tolerance in Brachiaria grasses.
Published in:
Journal of Experimental Botany, 2021, v. 72, n. 2, p. 302, doi. 10.1093/jxb/eraa469
By:
- Worthington, Margaret;
- Perez, Juan Guillermo;
- Mussurova, Saule;
- Silva-Cordoba, Alexander;
- Castiblanco, Valheria;
- Arango, Juan Andres Cardoso;
- Jones, Charlotte;
- Fernandez-Fuentes, Narcis;
- Skot, Leif;
- Dyer, Sarah;
- Tohme, Joe;
- Palma, Federica Di;
- Arango, Jacobo;
- Armstead, Ian;
- Vega, Jose J De
Publication type:
Article
microRNA profiling in the Weddell seal suggests novel regulatory mechanisms contributing to diving adaptation.
Published in:
BMC Genomics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12864-020-6675-0
By:
- Penso-Dolfin, Luca;
- Haerty, Wilfried;
- Hindle, Allyson;
- Di Palma, Federica
Publication type:
Article
Single Nucleotide Polymorphisms in the Bovine TLR2 Extracellular Domain Contribute to Breed and Species-Specific Innate Immune Functionality.
Published in:
Frontiers in Immunology, 2021, v. 12, p. 1, doi. 10.3389/fimmu.2021.764390
By:
- Bartens, Marie-Christine;
- Gibson, Amanda J.;
- Etherington, Graham J.;
- Di Palma, Federica;
- Holder, Angela;
- Werling, Dirk;
- Willcocks, Sam
Publication type:
Article
Free fatty-acid transport via CD36 drives β-oxidation-mediated hematopoietic stem cell response to infection.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-27460-9
By:
- Mistry, Jayna J.;
- Hellmich, Charlotte;
- Moore, Jamie A.;
- Jibril, Aisha;
- Macaulay, Iain;
- Moreno-Gonzalez, Mar;
- Di Palma, Federica;
- Beraza, Naiara;
- Bowles, Kristian M.;
- Rushworth, Stuart A.
Publication type:
Article
Full-length transcriptome assembly from RNA-Seq data without a reference genome.
Published in:
Nature Biotechnology, 2011, v. 29, n. 7, p. 644, doi. 10.1038/nbt.1883
By:
- Grabherr, Manfred G;
- Haas, Brian J;
- Yassour, Moran;
- Levin, Joshua Z;
- Thompson, Dawn A;
- Amit, Ido;
- Adiconis, Xian;
- Fan, Lin;
- Raychowdhury, Raktima;
- Zeng, Qiandong;
- Chen, Zehua;
- Mauceli, Evan;
- Hacohen, Nir;
- Gnirke, Andreas;
- Rhind, Nicholas;
- di Palma, Federica;
- Birren, Bruce W;
- Nusbaum, Chad;
- Lindblad-Toh, Kerstin;
- Friedman, Nir
Publication type:
Article
Mutations in Cdh23, encoding a new type of cadherin, cause stereocilia disorganization in waltzer, the mouse model for Usher syndrome type 1D.
Published in:
Nature Genetics, 2001, v. 27, n. 1, p. 103, doi. 10.1038/83660
By:
- Palma, Federica Di;
- Holme, Ralph H.;
- Bryda, Elizabeth C.;
- Belyantseva, Inna A.;
- Pellegrino, Richard;
- Kachar, Bechara;
- Steel, Karen P.;
- Noben-Trauth, Konrad
Publication type:
Article
Extensive genome introgression between domestic ferret and European polecat during population recovery in Great Britain.
Published in:
Journal of Heredity, 2022, v. 113, n. 5, p. 500, doi. 10.1093/jhered/esac038
By:
- Etherington, Graham J;
- Ciezarek, Adam;
- Shaw, Rebecca;
- Michaux, Johan;
- Croose, Elizabeth;
- Haerty, Wilfried;
- Palma, Federica Di
Publication type:
Article
LaGomiCs--Lagomorph Genomics Consortium: An International Collaborative Effort for Sequencing the Genomes of an Entire Mammalian Order.
Published in:
2016
By:
- Fontanesi, Luca;
- Di Palma, Federica;
- Flicek, Paul;
- Smith, Andrew T.;
- Thulin, Carl-Gustaf;
- Alves, Paulo C.
Publication type:
Opinion
Sequencing smart: De novo sequencing and assembly approaches for a non-model mammal.
Published in:
GigaScience, 2020, v. 9, n. 5, p. N.PAG, doi. 10.1093/gigascience/giaa045
By:
- Etherington, Graham J;
- Heavens, Darren;
- Baker, David;
- Lister, Ashleigh;
- McNelly, Rose;
- Garcia, Gonzalo;
- Clavijo, Bernardo;
- Macaulay, Iain;
- Haerty, Wilfried;
- Di Palma, Federica
Publication type:
Article
A Galaxy-based training resource for single-cell RNA-sequencing quality control and analyses.
Published in:
GigaScience, 2019, v. 8, n. 12, p. N.PAG, doi. 10.1093/gigascience/giz144
By:
- Etherington, Graham J;
- Soranzo, Nicola;
- Mohammed, Suhaib;
- Haerty, Wilfried;
- Davey, Robert P;
- Palma, Federica Di
Publication type:
Article
Newly discovered cichlid fish biodiversity threatened by hybridization with non‐native species.
Published in:
Molecular Ecology, 2021, v. 30, n. 4, p. 895, doi. 10.1111/mec.15638
By:
- Blackwell, Tabitha;
- Ford, Antonia G. P.;
- Ciezarek, Adam G.;
- Bradbeer, Stephanie J.;
- Gracida Juarez, Carlos A.;
- Smith, Alan M.;
- Ngatunga, Benjamin P.;
- Shechonge, Asilatu;
- Tamatamah, Rashid;
- Etherington, Graham;
- Haerty, Wilfried;
- Di Palma, Federica;
- Turner, George F.;
- Genner, Martin J.
Publication type:
Article
Evolution of regulatory networks associated with traits under selection in cichlids.
Published in:
Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-020-02208-8
By:
- Mehta, Tarang K.;
- Koch, Christopher;
- Nash, Will;
- Knaack, Sara A.;
- Sudhakar, Padhmanand;
- Olbei, Marton;
- Bastkowski, Sarah;
- Penso-Dolfin, Luca;
- Korcsmaros, Tamas;
- Haerty, Wilfried;
- Roy, Sushmita;
- Di-Palma, Federica
Publication type:
Article
Exploiting Nucleotide Composition to Engineer Promoters.
Published in:
PLoS ONE, 2011, v. 6, n. 5, p. 1, doi. 10.1371/journal.pone.0020136
By:
- Grabherr, Manfred G.;
- Pontiller, Jens;
- Mauceli, Evan;
- Ernst, Wolfgang;
- Baumann, Martina;
- Biagi, Tara;
- Swofford, Ross;
- Russell, Pamela;
- Zody, Michael C.;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Grabherr, Reingard M.
Publication type:
Article
Analysis of structural variants in four African cichlids highlights an association with developmental and immune related genes.
Published in:
BMC Evolutionary Biology, 2020, v. 20, n. 1, p. 1, doi. 10.1186/s12862-020-01629-0
By:
- Penso-Dolfin, Luca;
- Man, Angela;
- Mehta, Tarang;
- Haerty, Wilfried;
- Di Palma, Federica
Publication type:
Article
Characterizing subgenome recombination and chromosomal imbalances in banana varietal lineages.
Published in:
Annals of Botany, 2024, v. 133, n. 2, p. 349, doi. 10.1093/aob/mcad192
By:
- Higgins, Janet;
- Osorio-Guarín, Jaime Andrés;
- Olave-Achury, Carolina;
- Toloza-Moreno, Deisy Lisseth;
- Enriquez, Ayda;
- Palma, Federica Di;
- Yockteng, Roxana;
- Vega, Jose J De
Publication type:
Article
Ancient and Recent Hybridization in the Oreochromis Cichlid Fishes.
Published in:
Molecular Biology & Evolution, 2024, v. 41, n. 7, p. 1, doi. 10.1093/molbev/msae116
By:
- Ciezarek, Adam G;
- Mehta, Tarang K;
- Man, Angela;
- Ford, Antonia G P;
- Kavembe, Geraldine Dorcas;
- Kasozi, Nasser;
- Ngatunga, Benjamin P;
- Shechonge, Asilatu H;
- Tamatamah, Rashid;
- Nyingi, Dorothy Wanja;
- Cnaani, Avner;
- Ndiwa, Titus C;
- Palma, Federica Di;
- Turner, George F;
- Genner, Martin J;
- Haerty, Wilfried
Publication type:
Article
Evolution of miRNA-Binding Sites and Regulatory Networks in Cichlids.
Published in:
Molecular Biology & Evolution, 2022, v. 39, n. 7, p. 1, doi. 10.1093/molbev/msac146
By:
- Mehta, Tarang K;
- Penso-Dolfin, Luca;
- Nash, Will;
- Roy, Sushmita;
- Di-Palma, Federica;
- Haerty, Wilfried
Publication type:
Article
Origins of Shared Genetic Variation in African Cichlids.
Published in:
Molecular Biology & Evolution, 2013, v. 30, n. 4, p. 906, doi. 10.1093/molbev/mss326
By:
- Loh, Yong-Hwee E.;
- Bezault, Etienne;
- Muenzel, Frauke M.;
- Roberts, Reade B.;
- Swofford, Ross;
- Barluenga, Marta;
- Kidd, Celeste E.;
- Howe, Aimee E.;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Hey, Jody;
- Seehausen, Ole;
- Salzburger, Walter;
- Kocher, Thomas D.;
- Streelman, J. Todd
Publication type:
Article
Genome-wide association analyses using multilocus models on bananas (Musa spp.) reveal candidate genes related to morphology, fruit quality, and yield.
Published in:
G3: Genes | Genomes | Genetics, 2024, v. 14, n. 8, p. 1, doi. 10.1093/g3journal/jkae108
By:
- Osorio-Guarin, Jaime Andrés;
- Higgins, Janet;
- Toloza-Moreno, Deisy Lisseth;
- Palma, Federica Di;
- Valencia, Ayda Lilia Enriquez;
- Munévar, Fernando Riveros;
- Vega, José J De;
- Yockteng, Roxana
Publication type:
Article
Colombia's cyberinfrastructure for biodiversity: Building data infrastructure in emerging countries to foster socioeconomic growth.
Published in:
Plants, People, Planet, 2020, v. 2, n. 3, p. 229, doi. 10.1002/ppp3.10086
By:
- De Vega, Jose J.;
- Davey, Robert P.;
- Duitama, Jorge;
- Escobar, Dairo;
- Cristancho‐Ardila, Marco A.;
- Etherington, Graham J.;
- Minotto, Alice;
- Arenas‐Suarez, Nelson E.;
- Pineda‐Cardenas, Juan D.;
- Correa‐Alvarez, Javier;
- Camargo Rodriguez, Anyela V.;
- Haerty, Wilfried;
- Mallarino‐Robayo, Juan P.;
- Barreto‐Hernandez, Emiliano;
- Muñoz‐Torres, Monica;
- Fernandez‐Fuentes, Narcis;
- Di Palma, Federica
Publication type:
Article
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems.
Published in:
Genetics Selection Evolution, 2020, v. 52, n. 1, p. 1, doi. 10.1186/s12711-020-00553-7
By:
- Bovo, Samuele;
- Ribani, Anisa;
- Muñoz, Maria;
- Alves, Estefania;
- Araujo, Jose P.;
- Bozzi, Riccardo;
- Čandek-Potokar, Marjeta;
- Charneca, Rui;
- Di Palma, Federica;
- Etherington, Graham;
- Fernandez, Ana I.;
- García, Fabián;
- García-Casco, Juan;
- Karolyi, Danijel;
- Gallo, Maurizio;
- Margeta, Vladimir;
- Martins, José Manuel;
- Mercat, Marie J.;
- Moscatelli, Giulia;
- Núñez, Yolanda
Publication type:
Article
Describing variability in pig genes involved in coronavirus infections for a One Health perspective in conservation of animal genetic resources.
Published in:
Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-82956-0
By:
- Bovo, Samuele;
- Schiavo, Giuseppina;
- Ribani, Anisa;
- Utzeri, Valerio J.;
- Taurisano, Valeria;
- Ballan, Mohamad;
- Muñoz, Maria;
- Alves, Estefania;
- Araujo, Jose P.;
- Bozzi, Riccardo;
- Charneca, Rui;
- Di Palma, Federica;
- Djurkin Kušec, Ivona;
- Etherington, Graham;
- Fernandez, Ana I.;
- García, Fabián;
- García-Casco, Juan;
- Karolyi, Danijel;
- Gallo, Maurizio;
- Martins, José Manuel
Publication type:
Article
An Improved microRNA Annotation of the Canine Genome.
Published in:
PLoS ONE, 2016, v. 11, n. 4, p. 1, doi. 10.1371/journal.pone.0153453
By:
- Penso-Dolfin, Luca;
- Swofford, Ross;
- Johnson, Jeremy;
- Alföldi, Jessica;
- Lindblad-Toh, Kerstin;
- Swarbreck, David;
- Moxon, Simon;
- Di Palma, Federica
Publication type:
Article
The genome of the green anole lizard and a comparative analysis with birds and mammals.
Published in:
Nature, 2011, v. 477, n. 7366, p. 587, doi. 10.1038/nature10390
By:
- Alföldi, Jessica;
- Di Palma, Federica;
- Grabherr, Manfred;
- Williams, Christina;
- Kong, Lesheng;
- Mauceli, Evan;
- Russell, Pamela;
- Lowe, Craig B.;
- Glor, Richard E.;
- Jaffe, Jacob D.;
- Ray, David A.;
- Boissinot, Stephane;
- Shedlock, Andrew M.;
- Botka, Christopher;
- Castoe, Todd A.;
- Colbourne, John K.;
- Fujita, Matthew K.;
- Moreno, Ricardo Godinez;
- ten Hallers, Boudewijn F.;
- Haussler, David
Publication type:
Article
The evolutionary dynamics of microRNAs in domestic mammals.
Published in:
Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-34243-8
By:
- Penso-Dolfin, Luca;
- Moxon, Simon;
- Haerty, Wilfried;
- Di Palma, Federica
Publication type:
Article
Analysis of the transcriptome of the Indonesian coelacanth Latimeria menadoensis.
Published in:
BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-538
By:
- Pallavicini, Alberto;
- Canapa, Adriana;
- Barucca, Marco;
- Alfőldi, Jessica;
- Biscotti, Maria Assunta;
- Buonocore, Francesco;
- Moro, Gianluca De;
- Palma, Federica Di;
- Fausto, Anna Maria;
- Forconi, Mariko;
- Gerdol, Marco;
- Makapedua, Daisy Monica;
- Turner-Meier, Jason;
- Olmo, Ettore;
- Scapigliati, Giuseppe
Publication type:
Article
Unsupervised genome-wide recognition of local relationship patterns.
Published in:
BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-347
By:
- Zamani, Neda;
- Russell, Pamela;
- Lantz, Henrik;
- Hoeppner, Marc P.;
- Meadows, Jennifer R. S.;
- Vijay, Nagarjun;
- Mauceli, Evan;
- di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Jern, Patric;
- Grabherr, Manfred G.
Publication type:
Article
Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes.
Published in:
BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-49
By:
- Eckalbar, Walter L.;
- Hutchins, Elizabeth D.;
- Markov, Glenn J.;
- Allen, April N.;
- Corneveaux, Jason J.;
- Lindblad-Toh, Kerstin;
- Di Palma, Federica;
- Alföldi, Jessica;
- Huentelman, Matthew J.;
- Kusumi, Kenro
Publication type:
Article
Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus).
Published in:
BMC Genomics, 2010, v. 11, n. 1, p. 1, doi. 10.1186/1471-2164-11-636
By:
- Soler, Lucile;
- Conte, Matthew A;
- Katagiri, Takayuki;
- Howe, Aimee E;
- Lee, Bo-Young;
- Amemiya, Chris;
- Stuart, Andrew;
- Dossat, Carole;
- Poulain, Julie;
- Johnson, Jeremy;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Baroiller, Jean-Francois;
- D'Cotta, Helena;
- Ozouf-Costaz, Catherine;
- Kocher, Thomas D
Publication type:
Article
Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus).
Published in:
BMC Genomics, 2010, v. 11, p. 636, doi. 10.1186/1471-2164-11-636
By:
- Soler, Lucile;
- Conte, Matthew A.;
- Katagiri, Takayuki;
- Howe, Aimee E.;
- Bo-Young Lee;
- Amemiya, Chris;
- Stuart, Andrew;
- Dossat, Carole;
- Poulain, Julie;
- Johnson, Jeremy;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Baroiller, Jean-Francois;
- D'Cotta, Helena;
- Ozouf-Costaz, Catherine;
- Kocher, Thomas D.
Publication type:
Article
An EST resource for tilapia based on 17 normalized libraries and assembly of 116,899 sequence tags.
Published in:
BMC Genomics, 2010, v. 11, p. 278, doi. 10.1186/1471-2164-11-278
By:
- Bo-Young Lee;
- Howe, Aimee E.;
- Conte, Matthew A.;
- D'Cotta, Helena;
- Pepey, Elodie;
- Baroiller, Jean-Francois;
- di Palma, Federica;
- Carleton, Karen L.;
- Kocher, Thomas D.
Publication type:
Article
The Naked Mole Rat Genome Resource: facilitating analyses of cancer and longevity-related adaptations.
Published in:
Bioinformatics, 2014, v. 30, n. 24, p. 3558, doi. 10.1093/bioinformatics/btu579
By:
- Keane, Michael;
- Craig, Thomas;
- Alföldi, Jessica;
- Berlin, Aaron M.;
- Johnson, Jeremy;
- Seluanov, Andrei;
- Gorbunova, Vera;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Church, George M.;
- de Magalhães, João Pedro
Publication type:
Article
Genome-wide synteny through highly sensitive sequence alignment: Satsuma.
Published in:
Bioinformatics, 2010, v. 26, n. 9, p. 1145, doi. 10.1093/bioinformatics/btq102
By:
- Grabherr, Manfred G.;
- Russell, Pamela;
- Meyer, Miriah;
- Mauceli, Evan;
- Alföldi, Jessica;
- Di Palma, Federica;
- Lindblad-Toh, Kerstin;
- Frishman, Dmitrij
Publication type:
Article
Genomic changes underlying repeated niche shifts in an adaptive radiation.
Published in:
Evolution, 2022, v. 76, n. 6, p. 1301, doi. 10.1111/evo.14490
By:
- Marques, David A.;
- Jones, Felicity C.;
- Di Palma, Federica;
- Kingsley, David M.;
- Reimchen, Thomas E.
Publication type:
Article

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