Publications
The aquaculture team's research, recorded in writing.
The Roslin Institute makes consistent contributions to the scientific community's body of knowledge on aquaculture topics. The below lists contain articles hosted on external sites to which the Roslin Institute has contributed. These articles cover a variety of topics but are centered on aquaculture research and innovation.
2022
The impact of genetic relationship between training and validation populations on genomic prediction accuracy in Atlantic salmon
Clemence Fraslin, JM Yáñez, Diego Robledo, Ross D Houston
Aquaculture Reports 23, 101033
Transcriptomic response to ISAV infection in the gills, head kidney and spleen of resistant and susceptible Atlantic salmon
Ophélie Gervais, Athina Papadopoulou, Remi Gratacap, Borghild Hillestad, Alan Tinch, Samuel AM Martin, Ross D Houston, Diego Robledo
bioRxiv 10.1101
Plasma Proteome Responses in Salmonid Fish Following Immunization
Monica Hongroe Solbakken, Kim Dawn Thompson, Bo Peng, Daniel J Macqueen, Helen Dooley, FK Bakke, MM Monte, DA Stead, DR Causey, A Douglas
Evolution and Comparative Immunology of Immune Systems in Marine Organisms
A chromosome-level genome assembly enables the identification of the follicle stimulating hormone receptor as the master sex determining gene in Solea senegalensis
Roberto De la Herran, Miguel Hermida, Juan Andres Rubiolo, Jessica Gomez-Garrido, Fernando Cruz, Rafael Navajas, Andres Blanco, Paula R Villamayor, Dorinda Torres, Pablo Sanchez-Quinteiro, Daniel Ramirez, Maria E Rodriguez, Alberto Arias-Perez, Ismael Cross, Neil J Duncan, Teresa Martinez-Pena, Ana Riaza, Adrian Millan, Marta J Gut, Carmen Bouza, Diego Robledo, Laureana Rebordinos, Tyler Alioto, Carmelo Ruiz-Rejon, Paulino Martinez
bioRxiv 10.1101
Genome-wide association and genomic prediction of resistance to Flavobacterium columnare in a farmed rainbow trout population
C Fraslin, H Koskinen, A Nousianen, RD Houston, A Kause
bioRxiv 10.1101
Genome-wide reconstruction of rediploidization following autopolyploidization across one hundred million years of salmonid evolution
Manu Kumar Gundappa, Thu-Hien To, Lars Grønvold, Samuel AM Martin, Sigbjørn Lien, Juergen Geist, David Hazlerigg, Simen R Sandve, Daniel J Macqueen
Molecular Biology and Evolution 39 (1)
Understanding host response to infectious salmon anaemia virus in an Atlantic salmon cell line using single-cell RNA sequencing
Ophélie Gervais, Remi Gratacap, Athina Papadopoulou, Ross D Houston, Musa A Hassan, Diego Robledo
bioRxiv 10.1101
Methods for mapping genomic variants associated with production traits in aquaculture species
C Fraslin, RD Houston, D Robledo
Cellular and Molecular Approaches in Fish Biology, 193-220
2021
Genomic Epidemiology of Salmonid Alphavirus in Norwegian Aquaculture Reveals Recent Subtype-2 Transmission Dynamics and Novel Subtype-3 Lineages
Daniel J Macqueen, Oliver Eve, Manu Kumar Gundappa, Rose Ruiz Daniels, Michael D Gallagher, Svein Alexandersen, Marius Karlsen
Viruses 13 (12), 2549
Evolution of ray-finned fish genomes: Status and directions with a primer on microRNA characterization
Richard S. Taylor, Rose Ruiz Daniels, Diego Perojil Morata, Manu Kumar Gundappa, Daniel J. Macqueen
Cellular and Molecular Approaches in Fish Biology 309-336
Methods for mapping genomic variants associated with production traits in aquaculture species
Clémence Fraslin, Ross D Houston, Diego Robledo
Cellular and Molecular Approaches in Fish Biology 193
Assessment of Marine Gill Disease in Farmed Atlantic Salmon (Salmo salar) in Chile Using a Novel Total Gross Gill Scoring System: A Case Study
Sophie Fridman, Smaragda Tsairidou, Nilantha Jayasuriya, Halina Sobolewska, Alastair Hamilton, Carlos Lobos, Ross D Houston, Hamish Rodger, James Bron, Tharangani Herath
Microorganisms 9 (12), 2605
Validation and mapping of flat oyster genetic markers associated with the Bonamia ostreae status following a population genomics approach
I Martinez, A Chiclan, A Blanco Garcia, M Gundappa, T Bean, Daniel J Macqueen, Ross D Houston, A Villalba, M Vera, P Kamermans, Paulino Martinez
NORA 4 Reconnecting across Europe 1
Estimates of recent and historical effective population size in turbot, seabream, seabass and carp selective breeding programmes
María Saura, Armando Caballero, Enrique Santiago, Almudena Fernández, Elisabeth Morales-González, Jesús Fernández, Santiago Cabaleiro, Adrián Millán, Paulino Martínez, Christos Palaiokostas, Martin Kocour, Muhammad L Aslam, Ross D Houston, Martin Prchal, Luca Bargelloni, Kostas Tzokas, Pierrick Haffray, Jean-Sebastien Bruant, Beatriz Villanueva
Genetics Selection Evolution 53 (1), 1-8
Comparative regulomics supports pervasive selection on gene dosage following whole genome duplication
Gareth B Gillard, Lars Grønvold, Line L Røsæg, Matilde Mengkrog Holen, Øystein Monsen, Ben F Koop, Eric B Rondeau, Manu Kumar Gundappa, John Mendoza, Daniel J Macqueen, Rori V Rohlfs, Simen R Sandve, Torgeir R Hvidsten
Genome Biology 22 (1), 1-18
Investigating mechanisms underlying genetic resistance to Salmon Rickettsial Syndrome in Atlantic salmon using RNA sequencing
Carolina P Moraleda, Diego Robledo, Alejandro P Gutiérrez, Jorge Del-Pozo, José M Yáñez, Ross D Houston
BMC Genomics 22 (1), 156
Identification and Full Characterisation of Two Novel Crustacean Infecting Members of the Family Nudiviridae Provides Support for Two Subfamilies
Kelly S Bateman, Rose Kerr, Grant D Stentiford, Tim P Bean, Chantelle Hooper, Benigna Van Eynde, Daan Delbare, Jamie Bojko, Olivier Christiaens, Clauvis NT Taning, Guy Smagghe, Monique M Van Oers, Ronny van Aerle
Viruses 13 (9)
Exploring genetic resistance to infectious salmon anaemia virus in Atlantic salmon by genome-wide association and RNA sequencing
Ophelie Gervais, Agustin Barria, Athina Papadopoulou, RL Gratacap, Borghild Hillestad, Alan E Tinch, Sam AM Martin, Diego Robledo, Ross D Houston
BMC Genomics 22 (1), 345
Ancestral Physical Stress and Later Immune Gene Family Expansions Shaped Bivalve Mollusc Evolution
Tim Regan, Lewis Stevens, Carolina Peñaloza, Ross D Houston, Diego Robledo, Tim P Bean
Genome Biology and Evolution 13 (8)
The nedd-8 activating enzyme gene underlies genetic resistance to infectious pancreatic necrosis virus in Atlantic salmon
Jon Pavelin, Yehwa Jin, Remi L Gratacap, John B Taggart, Alastair Hamilton, David W Verner-Jeffreys, Richard K Paley, Carl-johan Rubin, Stephen C Bishop, James E Bron, Diego Robledo, Ross D Houston
Genomics 113 (6), 3842-3850
A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus)
Agustin Barría, Trọng Quốc Trịnh, Mahirah Mahmuddin, Carolina Peñaloza, Athina Papadopoulou, Ophelie Gervais, V Mohan Chadag, John AH Benzie, Ross D Houston
Heredity 1-9
Investigating mechanisms underlying genetic resistance to Salmon Rickettsial Syndrome in Atlantic salmon using RNA sequencing
Carolina P Moraleda, Diego Robledo, Alejandro P Gutiérrez, Jorge Del-Pozo, José M Yáñez, Ross D Houston
BMC Genomics 22 (1), 156
Genome-wide reconstruction of rediploidization following autopolyploidization across one hundred million years of salmonid evolution
Manu Kumar Gundappa, Thu-Hien To, Lars Grønvold, Samuel AM Martin, Sigbjørn Lien, Juergen Geist, David Hazlerigg, Simen R Sandve, Daniel J Macqueen
bioRxiv 447185
Current status and potential of genomic selection to improve selective breeding in the main aquaculture species of International Council for the Exploration of the Sea (ICES) member countries
Pierre Boudry, François Allal, Muhammad L Aslam, Luca Bargelloni, Tim P Bean, Sophie Brard-Fudulea, Marine SO Brieuc, Federico CF Calboli, John Gilbey, Pierrick Haffray, Jean-Baptiste Lamy, Romain Morvezen, Catherine Purcell, Paulo A Prodöhl, Marc Vandeputte, Geoffrey C Waldbieser, Anna K Sonesson, Ross D Houston
Aquaculture Reports (20) 100700
Comparative regulomics supports pervasive selection on gene dosage following whole genome duplication
Gareth B Gillard, Lars Grønvold, Line L Røsæg, Matilde Mengkrog Holen, Øystein Monsen, Ben F Koop, Eric B Rondeau, Manu Kumar Gundappa, John Mendoza, Daniel J Macqueen, Rori V Rohlfs, Simen R Sandve, Torgeir R Hvidsten
Genome Biology 22 (1), 1-18
Optimizing hatchery practices for genetic improvement of marine bivalves
Jennifer C Nascimento‐Schulze, Tim P Bean, Ross D Houston, Eduarda M Santos, Matthew B Sanders, Ceri Lewis, Robert P Ellis
Reviews in Aquaculture
Nanopore whole genome sequencing and partionioned phylogenetic analysis supports a new salmonid alphavirus genotype (SAV7)
Andrew J Tighe, Michael D Gallagher, Jens Carlsson, Iveta Matejusova, Fiona Swords, Daniel J Macqueen, Neil M Ruane
Diseases of Aquatic Organisms, 142, 203-211
Potential of genomic technologies to improve disease resistance in molluscan aquaculture
RWA Potts, AP Gutierrez, CS Penaloza, T Regan, TP Bean, RD Houston
Philosophical Transactions of the Royal Society B 376 (1825), 20200168
What do the terms resistance, tolerance, and resilience mean in the case of Ostrea edulis infected by the haplosporidian parasite Bonamia ostreae
Zoë Holbrook, Tim P Bean, Sharon A Lynch, Chris Hauton
Journal of Invertebrate Pathology 107579
Development and testing of a combined species SNP array for the European seabass (Dicentrarchus labrax) and gilthead seabream (Sparus aurata)
Carolina Penaloza, Tereza Manousaki, R Franch, A Tsakogiannis, Anna Kristina Sonesson, ML Aslam, Francois Allal, L Bargelloni, RD Houston, CS Tsigenopoulos
Genomics (113) 4, 2096-2107
Surrogate broodstock to enhance biotechnology research and applications in aquaculture
YH Jin, D Robledo, J Hickey, M McGrew, R Houston
Biotechnology Advances, 107756
A genome-wide association study, supported by a new chromosome-level genome assembly, suggests sox2 as a main driver of the undifferentiated ZZ/ZW sex determination of turbot (Scophthalmus maximus)
Paulino Martínez, Diego Robledo, Xoana Taboada, Andrés Blanco, Michel Moser, Francesco Maroso, Miguel Hermida, Antonio Gómez-Tato, Blanca Álvarez-Blázquez, Santiago Cabaleiro, Francesc Piferrer, Carmen Bouza, Sigbjorn Lien, Ana M Viñas
Genomics Journal
The role of energy reserves in common carp performance inferred from phenotypic and genetic parameters
Jinfeng Zhao, Martin Prchal, Antti Kause, Marc Vandeputte, David Gela, Hana Kocour Kroupová, Veronika Piačková, Pavel Šauer, Christoph Steinbach, Jean-Michel Allamellou, Christos Palaiokostas, Ross D Houston, Martin Kocour
Aquaculture, 736-799
Quantitative trait loci and transcriptome signatures associated with avian heritable resistance to Camplobacter
Androniki Psifidi, Andreas Kranis, Lisa M Rothwell, Abi Bremner, Kay Russell, Diego Robledo, Stephen J Bush, Mark Fife, Paul M Hocking, Georgios Banos, David A Hume, Jim Kaufman, Richard A Bailey, Santiago Avendano, Kellie A Watson, Pete Kaiser, Mark P Stevens
Scientific reports 11
Genetic improvement technologies to support the sustainable growth of UK aquaculture
Tim Regan, Tim P Bean, Tim Ellis, Andrew Davie, Stefano Carboni, Herve Migaud, Ross D Houston
Reviews in Aquaculture
A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas
Carolina Peñaloza, Alejandro P Gutierrez, Lél Eöry, Shan Wang, Ximing Guo, Alan L Archibald, Tim P Bean, Ross D Houston
GigaScience 10 (3)
Exploring genetic resistance to infectious salmon anaemia virus in Atlantic salmon by genome-wide association and RNA sequencing
Ophelie Gervais, Agustin Barria, Athina Papadopoulou, RL Gratacap, Borghild Hillestad, Alan E Tinch, Sam AM Martin, Diego Robledo, Ross D Houston
BMC Genomics 22 (1), 345
Aquaculture breeding
G Simm, G Pollott, R Mrode, R Houston, K Marshall
Genetic improvement of farmed animals, 414-434
Predicting breeding values
G Simm, G Pollott, R Mrode, R Houston, K Marshall
Genetic improvement of farmed animals, 193-233
Analysing genetic variation in farm animals
G Simm, G Pollott, R Mrode, R Houston, K Marshall
Genetic improvement of farmed animals, 178-192
Strategies for genetic improvement
G Simm, G Pollott, R Mrode, R Houston, K Marshall
Genetic improvement of farmed animals, 59-96
Genes, genetic codes and genetic variation
G Simm, G Pollott, R Mrode, R Houston, K Marshall
Genetic improvement of farmed animals, 11-58
Loss of active neurogenesis in the adult shark retina
Ismael Hernández-Núñez, Diego Robledo, Hélène Mayeur, Sylvie Mazan, Laura Elena Sanchez, Fátima Adrio, Antón Barreiro-Iglesias, Eva Candal
Frontiers in cell and developmental biology 9, 115
Genomic diversity of the Ostreid Herpesvirus Type 1 across time and location and among host species
Benjamin Morga, Maude Jacquot, Camille Pelletier, Germain Chevignon, Lionel Dégremont, Antoine Biétry, Jean-François Pepin, Serge Heurtebise, Jean-Michel Escoubas, Tim P Bean, Umberto Rosani, Chang-Ming Bai, Tristan Renault, Jean-Baptiste Lamy
Frontiers in Microbiology
2020
Development of a SNP linkage map and genome-wide association study for resistance to Aeromonas hydrophila in pacu (Piaractus mesopotamicus)
Vito A Mastrochirico-Filho, Carolina HS Borges, Milena V Freitas, Raquel B Ariede, Fabiana Pilarski, Ricardo Utsunomia, Roberto Carvalheiro, Alejandro P Gutierrez, Carolina Peñaloza, José M Yáñez, Ross D Houston, Diogo T Hashimoto
BMC Genomics 21 (1), 1-13
From FAANG to Fork: application of highly annotated genomes to improved farmed animal production
Emily L Clark, Alan L Archibald, Hans D Daetwyler, Martien AM Groenen, Peter W Harrison, Ross D Houston, Christa Kühn, Sigbjørn Lien, Daniel J Macqueen, James M Reecy, Diego Robledo, Mick Watson, Christopher K Tuggle, Elisabetta Giuffra
Genome Biology 21 (1), 1-9
Evaluation of interactive effects of phosphorus-32 and copper on marine and freshwater bivalve mollusks
Emily L Vernon, Michael N Moore, Tim P Bean, Awadhesh N Jha
International Journal of Radiation Biology, 1-14
Insights into the development of hepatocellular fibrillar inclusions in European flounder (Platichthys flesus) from UK estuaries
John P Bignell, Jon Barber, Kelly S Bateman, Mark Etherton, Stephen W Feist, Tamara S Galloway, Ioanna Katsiadaki, Marion Sebire, Alexander P Scott, Grant D Stentiford, Tim P Bean
Chemosphere 256, 12956
Genomic epidemiology of domestic and travel-associated Vibrio parahaemolyticus infections in the UK, 2008–2018
Craig Baker-Austin, Claire Jenkins, Jerome Dadzie, Orson Mestanza, Erick Delgado, Andy Powell, Tim Bean, Jaime Martinez-Urtaza
Food Control 115, 107244
The structural variation landscape in 492 Atlantic salmon genomes
Alicia C Bertolotti, Ryan M Layer, Manu Kumar Gundappa, Michael D Gallagher, Ege Pehlivanoglu, Torfinn Nome, Diego Robledo, Matthew P Kent, Line L Røsæg, Matilde M Holen, Teshome D Mulugeta, Thomas J Ashton, Kjetil Hindar, Harald Sægrov, Bjørn Florø-Larsen, Jaakko Erkinaro, Craig R Primmer, Louis Bernatchez, Samuel AM Martin, Ian A Johnston, Simen R Sandve, Sigbjørn Lien, Daniel J Macqueen
Nature Communications 11-1, 1-16
Genome-wide target enriched viral sequencing reveals extensive ‘hidden’ salmonid alphavirus diversity in farmed and wild fish populations
Michael D Gallagher, Iveta Matejusova, Neil M Ruane, Daniel J Macqueen
Aquaculture 522, 735117
Genome sequencing of SAV3 reveals repeated seeding events of viral strains in Norwegian aquaculture
Michael D Gallagher, Marius Karlsen, Elin Petterson, Øyvind Haugland, Iveta Matejusova, Daniel J Macqueen
Frontiers in microbiology 11, 740
Arginine, ornithine and citrulline supplementation in rainbow trout: Free amino acid dynamics and gene expression responses to bacterial infection
TC Clark, J Tinsley, T Sigholt, DJ Macqueen, SAM Martin
Fish & Shellfish Immunology 98, 374-390
Supplementation of arginine, ornithine and citrulline in rainbow trout (Oncorhynchus mykiss): Effects on growth, amino acid levels in plasma and gene expression responses in liver tissue
TC Clark, J Tinsley, T Sigholt, DJ Macqueen, SAM Martin
Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology
Characterising the mechanisms underlying genetic resistance to amoebic gill disease in Atlantic salmon using RNA sequencing
Diego Robledo, Alastair Hamilton, Alejandro P. Gutiérrez, James E. Bron, Ross D. Houston
BMC Genomics 21, Article 271
QTL affecting morphometric traits and stress response in the gilthead seabream (Sparus aurata)
Kay Boulton, Cecile Massault, Ross D. Houston, Dirk Jande Koning, Chris S. Haley, Henk Bovenhuis, Costas Batargias, Adelino V.M. Canario, Giorgios Kotoulas, Costas S. Tsigenopoulos
Volume 319, Issues 1-2, 58-66
Quantitative trait loci and genes associated with salmonid alphavirus load in Atlantic salmon: implications for pancreas disease resistance and tolerance
M. L. Aslam, Diego Robledo, A. Krasnov, H. K. Moghadam, B. Hillestad, Ross D. Houston, M. Baranski, S. Boison, N. A. Robinson
Scientific Reports 10, 10393
Ephemeral detection of Bonamia exitiosa (Haplosporida) in adult and larval European flat oysters Ostrea edulis in the Solent, United Kingdom
Luke Helmer, Chris Hauton, Tim Bean, David Bass, Ian Hendy, Eric Harris-Scott, Joanne Preston
Journal of Invertebrate Pathology, Volume 174, 107421
Efficient CRISPR/Cas9 genome editing in a salmonid fish cell line using a lentivirus delivery system
Remi L. Gratacap, Tim Regan, Carola E. Dehler, Samuel A. M. Martin, Pierre Boudinot, Bertrand Collet, Ross D. Houston
BMC Biotechnology 20, 35
Development and Validation of an Open Access SNP Array for Nile Tilapia (Oreochromis niloticus)
Carolina Peñaloza, Diego Robledo, Agustin Barría, Trọng Q. Trịnh, Mahirah Mahmuddin, Pamela Wiener, John A.H. Benzie, Ross D. Houston
G3: Genes, Genomes, Genetics 120.401343
Developments in marine invertebrate primary culture reveal novel cell morphologies in the model bivalve Crassotrea gigas
Robert W.A. Potts, Alejandro P. Gutierrez, Yennifer Cortés-Araya, Ross D. Houston, Tim P. Bean
PubMed eCollection 32547861
Harnessing genomics to fast-track genetic improvement in aquaculture
Ross D. Houston, Tim P. Bean, Daniel J. Macqueen, Manu Kumar Gundappa, Ye Hwa Jin, Tom L. Jenkins, Sarah Louise C. Selly, Samuel A. M. Martin, Jamie R. Stevens, Eduarda M. Santos, Andrew Davie, Diego Robledo
Nature Reviews Genetics 21, 389-409
Genetic parameters for resistance to Tilapia Lake Virus (TiLV) in Nile tilapia (Oreochromis niloticus)
A. Barria, T. Q. Trinh, M. Mahmuddin, J.A.H. Benzie, V. M. Chadag, R. D. Houston
Aquaculture 522, 735126
Characterising the mechanisms underlying genetic resistance to amoebic gill disease in Atlantic salmon using RNA sequencing
D. Robledo, A. Hamilton, A. P. Gutierrez, J.E. Bron, R. D. Houston
BMC Genomics 21 (271)
Arginine, ornithine and citrulline supplementation in rainbow trout: Free amino acid dynamics and gene expression responses to bacterial infection
T. C. Clark, J. Tinsley, T. Sigholt, D. J. Macqueen, S. A. M. Martin
Fish & Shellfish Immunology 97, 374-390
Changed Patterns of Genomic Variation Following Recent Domestication: Selection Sweeps in Farmed Atlantic Salmon
M. Naval-Sanchez, S. McWilliam, B. Evans, J. M. Yáñez, R. D. Houston, J. W. Kijas
Frontiers in genetics 10
De novo transcriptome assembly of the Qatari pearl oyster (Pinctada imbricata radiata)
Tim P Bean, Zenaba Khatir, Brett P Lyons, Ronny van Aerle, Diana Minardi, John P Bignell, David Smyth, Bruno Welter Giraldes, Alexandra Leitão
Marine genomics 51, 100734
The application of nanopore sequencing technology to the study of dinoflagellates: a proof of concept study for rapid sequence-based discrimination of potentially harmful algae
Robert G Hatfield, Frederico M Batista, Timothy P Bean, Vera G Fonseca, Andres Santos, Andrew D Turner, Adam Lewis, Karl J Dean, Jaime Martinez-Urtaza
Frontiers in Microbiology 11, 844
Genomic prediction using low density marker panels in aquaculture: performance across species, traits, and genotyping platforms
C. Kriaridou, S. Tsairidou, R. D. Houston, D. Robledo
Frontiers in genetics 10
Assessing relative biomarker responses in marine and freshwater bivalve molluscs following exposure to phosphorus 32: application of genotoxicological and molecular biomarkers
Emily L Vernon, Tim P Bean, Awadhesh N Jha
Journal of environmental radioactivity 213, 106120
Potential of genomic selection for improvement of resistance to ostreid herpesvirus in Pacific oyster (Crassostrea gigas)
A. P. Gutierrez, J. Symonds, N. King, K. Steiner, T.P. Bean, R. D. Houston
Animal Genetics 522, 735126
Pearl Oyster: from national icon to guardian of Qatar's marine environment
Alexandra Leitao BenHamadou, Zenaba Khatir, Noora Al-Shamary, Hassan Hassan, Zainab Hizan, Aisha Al-Ashwal, Mark Chatting, Shafeeq Hamza, Bruno Giraldes, Diana Minardi, Tim Bean, Stephane Bayen, Brett Lyons
Qatar University Press
A Single-Tube HNB-Based Loop-Mediated Isothermal Amplification for the Robust Detection of the Ostreid herpesvirus 1
Maja A Zaczek-Moczydłowska, Letitia Mohamed-Smith, Anna Toldrà, Chantelle Hooper, Mònica Campàs, M Dolors Furones, Tim P Bean, Katrina Campbell
International journal of molecular sciences 21.18, 6605
Genome-wide target enriched viral sequencing reveals extensive 'hidden' salmonid alphavirus diversity in farmed and wild fish populations
M. D. Gallagher, I. Matejusova, N. M. Ruane, D. J. Macqueen
Aquaculture 422, 735117
Optimising low-cost genotyping and imputation strategies for genomic selection in Atlantic salmon
S. Tsairidou, A. Hamilton, D. Robledo, J. E. Bron, R. D. Houston
G3: Genes, Genomes, Genetics 10 (2) 181-590
2019
Effect of growth rate on transcriptomic responses to immune stimulation in wild-type, domesticated, and GH-transgenic coho salmon
Jin-Hyoung Kim, Daniel J Macqueen, James R Winton, John D Hansen, Hyun Park, Robert H Devlin
BMC Genomics 20.1, 1-16
SalMotifDB: a tool for analyzing putative transcription factor binding sites in Salmonid genomes
Teshome Dagne Mulugeta, Torfinn Nome, Thu-Hien To, Manu Kumar Gundappa, Daniel J Macqueen, Dag Inge Våge, Simen Rød Sandve, Torgeir R Hvidsten
BMC Genomics 20.1, 1-8
Characterizing the genetic structure of introduced Nile tilapia (Oreochromis niloticus) strains in Tanzania using double digest RAD sequencing
M. Moses, M. Mtolera, L. J. Chauk, F. A. L. Pinto, D. J. De Koning, R. D. Houston, C. Palaiokostas
Aquaculture International 28, 477-492
Assessment of genetic diversity and population structure in culture Australian Pacific oysters
J. W. Kijas, A. P. Gutierrez, R. D. Houston, S. McWilliam, T. P. Bean, K. Soyano, J. E. Symonds, N. King, C. Lind, P. Kube
Animal Genetics 50 (6), 686-694
Potential of Genome Editing to Improve Aquaculture Breeding and Production
R. Gratacap, A. Wargelius, R. B. Edvardsen, R. D. Houston
Trends in Genetics 35 (9), 672-684
Discovery and Functional Annotation of Quantitative Trait Loci Affecting Resistance to Sea Lice in Atlantic Salmon
Diego Robledo, Alejandro P. Gutierrez, A. Barria, J. P. Lhorente, Ross D Houston, J. M. Yáñez
Frontiers in genetics 10
Signatures of selection for bonamiosis resistance in European flat oyster (Ostrea edulis): New genomic tools for breeding programs and management of natural resources
Manuel Vera, Belén G Pardo, Asunción Cao, Román Vilas, Carlos Fernández, Andrés Blanco, Alejandro P Gutierrez, Tim P Bean, Ross D Houston, Antonio Villalba, Paulino Martínez
Evolutionary Applications 12.9, 1781-1796
Expanding the miRNA Repertoire in Atlantic Salmon; Discovery of IsomiRs and miRNAs Highly Expressed in Different Tissues and Developmental Stages
Nardos Tesfaye Woldemariam, Oleg Agafonov, Bjørn Høyheim, Ross D. Houston, John B. Taggart, Rune Andreassen
Cells 8 (1), 42
Optimizing genomic prediction of host resistance to koi herpesvirus disease in carp
Christos Palaiokostas, Tomas Vesely, Martin Kocour, Martin Prchal, Dagmar Pokorova, Veronika Piackova, Lubomir Pojezdal, Ross D. Houston
BioRxiv, 609784
Balancing selection at a premature stop mutation in the myostatin gene underlies a recessive leg weakness syndrome in pigs
Oswald Matika, Diego Robledo, Ricardo Pong-Wong, Stephen C. Bishop, Valentina Riggio, Heather Finlayson, Natalie R. Lowe, Annabelle E. Hoste, Grant A. Walling, Jorge del Pozo, Alan L. Archibald, John A. Woolliams, Ross D. Houston
PLoS genetics 15 (1), e1007759
Development of a TaqMan qPCR assay for detection of Alexandrium spp and application to harmful algal bloom monitoring
Robert G Hatfield, Timothy Bean, Andrew D Turner, David N Lees, James Lowther, Adam Lewis, Craig Baker-Austin
Toxicon: X 2, 100011
Atlantic salmon (Salmo salar L.) genetics in the 21st century: taking leaps forward in aquaculture and biological understanding
Ross D. Houston, Daniel J. Macqueen
Animal genetics 50 (1), 3-14
Detailed insights into pan‐European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome‐wide SNP data
David L. J. Vendrami, Ross D. Houston, Karim Gharbi, Luca Telesca, Alejandro P. Gutierrez, Helen Gurney‐Smith, Natsuki Hasegawa, Pierre Boudry, Joseph I. Hoffman
Evolutionary Applications 12 (3), 519-534
Genetic differences in host infectivity affect disease spread and survival in epidemics
Osvaldo Anacleto, Santiago Cabaleiro, Beatriz Villanueva, Maria Saura, Ross D. Houston, John A. Woolliams, Andrea B. Doeschl-Wilson
Scientific reports 9 (1), 4924
Novel insights into the genetic relationship between growth and disease resistance in an aquaculture strain of Coho salmon (Oncorhynchus kisutch)
A Barría, A. B. Doeschl-Wilson, J. P. Lhorente, Ross D. Houston, J. M. Yáñez
Aquaculture, 734207
Development of a TaqMan qPCR assay for detection of Alexandrium spp and application to Harmful Algal Bloom monitoring
Robert G. Hatfield, Timothy Bean, Andrew D. Turner, David N. Lees, James Lowther, Adam Lewis, Craig Baker-Austin
Toxicon: X, 100011
Proteomic comparison of selective breeding and growth hormone transgenesis in fish: Unique pathways to enhanced growth
D. R. Causey, J. H. Kim, D. A. Stead, S. A. M. Martin, R. H. Devlin, Daniel J Macqueen
Journal of proteomics 192, 114-124
Rainbow trout (Oncorhynchus mykiss) urea cycle and polyamine synthesis gene families show dynamic expression responses to inflammation
T. C. Clark, J. Tinsley, Daniel J. Macqueen, S. A. M. Martin
Fish & Shellfish Immunology 89, 290-300
Integrating Genomic and Morphological Approaches in Fish Pathology Research: The Case of Turbot (Scophthalmus maximus) Enteromyxosis
Paolo Ronza, Diego Robledo, Roberto Bermúdez, Ana Paula Losada, Belén G Pardo, Paulino Martínez, María Isabel Quiroga
Frontiers in genetics 10, 26
Enhancing genetic disease control by selecting for lower host infectivity and susceptibility
S. Tsairidou, O. Anacleto, J. A. Wooliams, A. Doeschl-Wilson
Heredity 122, 742-758
Discovery of all three types in cartilaginous fishes enables phylogenetic resolution of the origins and evolution of interferons
AK Redmond, J Zou, CJ Secombes, DJ Macqueen, H Dooley
Frontiers in immunology 10, 1558
The AMPK system of salmonid fishes was expanded through genome duplication and is regulated by growth and immune status in muscle
DR Causey, JH Kim, RH Devlin, SAM Martin, DJ Macqueen
Scientific reports 9 (1), 1-11
Rainbow trout (Oncorhynchus mykiss) urea cycle and polyamine synthesis gene families show dynamic expression responses to inflammation
TC Clark, J Tinsley, DJ Macqueen, SAM Martin
Fish & shellfish immunology 89, 290-300
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