Whole‐genome sequencing identifies interferon-induced protein IFI6/IFI27-like as a strong candidate gene for VNN resistance in European sea bass

[1]  C. Tsigenopoulos,et al.  Genetic Basis for Resistance Against Viral Nervous Necrosis: GWAS and Potential of Genomic Prediction Explored in Farmed European Sea Bass (Dicentrarchus labrax) , 2022, Frontiers in Genetics.

[2]  K. C. Sivakumar,et al.  Identification of two ISG15 homologues involved in host immune response against RGNNV in Asian seabass (Lates calcarifer) , 2022, Fish and shellfish Immunology reports.

[3]  E. Brun,et al.  Assessing the economic impact of diseases in Mediterranean grow-out farms culturing European sea bass , 2022, Aquaculture.

[4]  T. Morin,et al.  Optimization of Genomic Selection to Improve Disease Resistance in Two Marine Fishes, the European Sea Bass (Dicentrarchus labrax) and the Gilthead Sea Bream (Sparus aurata) , 2021, Frontiers in Genetics.

[5]  Sek-Man Wong,et al.  VNN disease and status of breeding for resistance to NNV in aquaculture , 2021 .

[6]  L. Bargelloni,et al.  Resistance to viral nervous necrosis in European sea bass (Dicentrarchus labrax L.): heritability and relationships with body weight, cortisol concentration, and antibody titer , 2021, Genetics, selection, evolution : GSE.

[7]  Yu Chen,et al.  The Functional and Antiviral Activity of Interferon Alpha-Inducible IFI6 Against Hepatitis B Virus Replication and Gene Expression , 2021, Frontiers in Immunology.

[8]  T. Morin,et al.  Genome-wide association studies for resistance to viral nervous necrosis in three populations of European sea bass (Dicentrarchus labrax) using a novel 57k SNP array DlabChip , 2021, Aquaculture.

[9]  Thomas M. Keane,et al.  Twelve years of SAMtools and BCFtools , 2020, GigaScience.

[10]  A. Figueras,et al.  RNA-Seq analysis of European sea bass (Dicentrarchus labrax L.) infected with nodavirus reveals powerful modulation of the stress response , 2020, Veterinary Research.

[11]  Xiaohong Huang,et al.  Metabolic Profiles of fish nodavirus infection in vitro: RGNNV induced and exploited cellular fatty acid synthesis for virus infection. , 2020, Cellular microbiology.

[12]  Taedong Yun,et al.  Accurate, scalable cohort variant calls using DeepVariant and GLnexus , 2020, bioRxiv.

[13]  F. Allal,et al.  APIS: An auto‐adaptive parentage inference software that tolerates missing parents , 2019, Molecular ecology resources.

[14]  E. Chaves-Pozo,et al.  Recombinant nodavirus vaccine produced in bacteria and administered without purification elicits humoral immunity and protects European sea bass against infection , 2019, Fish & shellfish immunology.

[15]  J. Flowers,et al.  Origins and geographic diversification of African rice (Oryza glaberrima) , 2018, bioRxiv.

[16]  C. Rice,et al.  Intrinsic Immunity Shapes Viral Resistance of Stem Cells , 2017, Cell.

[17]  F. Buonocore,et al.  Vaccination and immune responses of European sea bass (Dicentrarchus labrax L.) against betanodavirus. , 2017, Fish & shellfish immunology.

[18]  H. Hang,et al.  The palmitoyltransferase ZDHHC20 enhances interferon-induced transmembrane protein 3 (IFITM3) palmitoylation and antiviral activity , 2017, The Journal of Biological Chemistry.

[19]  G. Breuil,et al.  Genetic variation of resistance to Viral Nervous Necrosis and genetic correlations with production traits in wild populations of the European sea bass (Dicentrarchus labrax) , 2017 .

[20]  P. Liu,et al.  Genome-Wide Association Study Identifies Loci Associated with Resistance to Viral Nervous Necrosis Disease in Asian Seabass , 2017, Marine Biotechnology.

[21]  T. Morin,et al.  Viral encephalopathy and retinopathy in aquaculture: a review. , 2017, Journal of fish diseases.

[22]  A. Maass,et al.  Genome wide association study for resistance to Caligus rogercresseyi in Atlantic salmon (Salmo salar L.) using a 50K SNP genotyping array , 2017 .

[23]  R. Sun,et al.  Systematic identification of anti-interferon function on hepatitis C virus genome reveals p7 as an immune evasion protein , 2017, Proceedings of the National Academy of Sciences.

[24]  Zhanjiang Liu,et al.  GWAS analysis of QTL for enteric septicemia of catfish and their involved genes suggest evolutionary conservation of a molecular mechanism of disease resistance , 2017, Molecular Genetics and Genomics.

[25]  Zhanjiang Liu,et al.  GWAS analysis of QTL for enteric septicemia of catfish and their involved genes suggest evolutionary conservation of a molecular mechanism of disease resistance , 2016, Molecular Genetics and Genomics.

[26]  A. Michenet,et al.  Detection of quantitative trait loci for maternal traits using high-density genotypes of Blonde d’Aquitaine beef cattle , 2016, BMC Genetics.

[27]  K. Thompson,et al.  Understanding the interaction between Betanodavirus and its host for the development of prophylactic measures for viral encephalopathy and retinopathy. , 2016, Fish & shellfish immunology.

[28]  M. Toson,et al.  Water temperature affects pathogenicity of different betanodavirus genotypes in experimentally challenged Dicentrarchus labrax. , 2016, Diseases of aquatic organisms.

[29]  E. García-Rosado,et al.  SJNNV down-regulates RGNNV replication in European sea bass by the induction of the type I interferon system , 2016, Veterinary Research.

[30]  T. Gjedrem.  Disease Resistant Fish and Shellfish Are within Reach: A Review , 2015 .

[31]  Jingguang Wei,et al.  Identification of orange-spotted grouper (Epinephelus coioides) interferon regulatory factor 3 involved in antiviral immune response against fish RNA virus. , 2015, Fish & shellfish immunology.

[32]  R. Reinhardt,et al.  European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation , 2014, Nature Communications.

[33]  N. Robinson,et al.  Advances by Selective Breeding for Aquatic Species: A Review , 2014 .

[34]  Carson C Chow,et al.  Second-generation PLINK: rising to the challenge of larger and richer datasets , 2014, GigaScience.

[35]  C. Kuo,et al.  Functional analysis of an orange-spotted grouper (Epinephelus coioides) interferon gene and characterisation of its expression in response to nodavirus infection. , 2014, Developmental and comparative immunology.

[36]  I. Hirono,et al.  Influence of temperature on Mx gene expression profiles and the protection of sevenband grouper, Epinephelus septemfasciatus, against red-spotted grouper nervous necrosis virus (RGNNV) infection after poly (I:C) injection. , 2014, Fish & shellfish immunology.

[37]  R. Veerkamp,et al.  Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle , 2014, Nature Genetics.

[38]  F. Schenkel,et al.  A new approach for efficient genotype imputation using information from relatives , 2014, BMC Genomics.

[39]  Surajit Das,et al.  Immune system and immune responses in fish and their role in comparative immunity study: a model for higher organisms. , 2012, Immunology letters.

[40]  Xiang Zhou,et al.  Polygenic Modeling with Bayesian Sparse Linear Mixed Models , 2012, PLoS genetics.

[41]  Christopher T. Jones,et al.  A diverse array of gene products are effectors of the type I interferon antiviral response , 2011, Nature.

[42]  E. Gomez-Casado,et al.  A comparative review on European-farmed finfish RNA viruses and their vaccines. , 2011, Vaccine.

[43]  M. Stephens,et al.  Bayesian statistical methods for genetic association studies , 2009, Nature Reviews Genetics.

[44]  Manuel A. R. Ferreira,et al.  PLINK: a tool set for whole-genome association and population-based linkage analyses. , 2007, American journal of human genetics.

[45]  Tony O’Hagan.  Bayes factors , 2006 .

[46]  J. Berger,et al.  Optimal predictive model selection , 2004, math/0406464.

[47]  A. Porter,et al.  Identification of a novel gene family that includes the interferon-inducible human genes 6–16 and ISG12 , 2004, BMC Genomics.

[48]  B. Munday,et al.  Betanodavirus infections of teleost fish: a review , 2002 .

[49]  J. Castric,et al.  Sea bream Sparus aurata, an asymptomatic contagious fish host for nodavirus. , 2001, Diseases of aquatic organisms.

[50]  F. Ollevier,et al.  Viral nervous necrosis (VNN) associated with mass mortalities in cage-reared sea bass, Dicentrarchus labrax (L.) , 1997 .

[51]  G. Breuil,et al.  Viral infection (picorna-like virus) associated with mass mortalities in hatchery-reared sea-bass (Dicentrarchus labrax) larvae and juveniles , 1991 .

[52]  T. Morin,et al.  Genome-wide association and genomic prediction of resistance to viral nervous necrosis in European sea bass (Dicentrarchus labrax) using RAD sequencing , 2018, Genetics, Selection, Evolution : GSE.

[53]  N. J. Olesen,et al.  Fish health in Mediterranean Aquaculture, past mistakes and future challenges , 2016 .

[54]  Claude-Alain H. Roten,et al.  Fast and accurate short read alignment with Burrows–Wheeler transform , 2009, Bioinform..

[55]  J. Dekkers.  Commercial application of marker- and gene-assisted selection in livestock: strategies and lessons. , 2004, Journal of animal science.

[56]  Hilde van der Togt,et al.  Publisher's Note , 2003, J. Netw. Comput. Appl..

[57]  J. Dekkers,et al.  Multifactorial genetics: The use of molecular genetics in the improvement of agricultural populations , 2002, Nature Reviews Genetics.