The duck genome and transcriptome provide insight into an avian influenza virus reservoir species
Yinhua Huang
(1, 2)
,
Yingrui Li
(3)
,
David W Burt
(2)
,
Hualan Chen
(4)
,
Yong Zhang
(3)
,
Wubin Qian
(3)
,
Heebal Kim
(5)
,
Shangquan Gan
(1)
,
Yiqiang Zhao
(1)
,
Jianwen Li
(3)
,
Kang Yi
(3)
,
Huapeng Feng
(4)
,
Pengyang Zhu
(4)
,
Bo Li
(3)
,
Qiuyue Liu
(1)
,
Suan Fairley
(6)
,
Katharine E Magor
(7)
,
Zhenlin Du
(1)
,
Xiaoxiang Hu
(1)
,
Laurie Goodman
(3)
,
Hakim Tafer
(8, 9)
,
Alain Vignal
(10)
,
Taeheon Lee
(5)
,
Kyu-Won Kim
(11)
,
Zheya Sheng
(1)
,
Yang An
(1)
,
Steve Searle
(6)
,
Javier Herrero
(12)
,
Martien a M Groenen
(13)
,
Richard P M A Crooijmans
(13)
,
Thomas Faraut
(10)
,
Qingle Cai
(3)
,
Robert G Webster
(14)
,
Jerry R Aldridge
(14)
,
Wesley C Warren
(15)
,
Sebastian Bartschat
(8)
,
Stephanie Kehr
(8)
,
Manja Marz
(8)
,
Peter F Stadler
(8)
,
Jacqueline Smith
(2)
,
Robert H S Kraus
(16, 17)
,
Yaofeng Zhao
(1)
,
Liming Ren
(1)
,
Jing Fei
(1)
,
Mireille Morisson
(10)
,
Pete Kaiser
(2)
,
Darren K Griffin
(18)
,
Man Rao
,
Frederique Pitel
(10)
,
Jun Wang
(3, 19)
,
Ning Li
(1)
1
State Key Laboratory for Agrobiotechnology
2 The Roslin Institute and Royal (Dick) School of Veterinary Studies
3 BGI - Beijing Genomics Institute [Shenzhen]
4 CAS - Chinese Academy of Sciences
5 Department of Agricultural Biotechnology
6 The Wellcome Trust Sanger Institute [Cambridge]
7 Department of Biological Sciences
8 Leipzig University / Universität Leipzig
9 University of Vienna [Vienna]
10 LGC - Laboratoire de Génétique Cellulaire
11 SNU - Seoul National University [Seoul]
12 Wellcome Trust
13 Animal Breeding and Genomics Centre
14 Department of Infectious Diseases
15 The Genome Institute
16 Resource Ecology Group
17 Senckenberg Museum [Frankfurt]
18 University of Kent
19 Department of Biology
2 The Roslin Institute and Royal (Dick) School of Veterinary Studies
3 BGI - Beijing Genomics Institute [Shenzhen]
4 CAS - Chinese Academy of Sciences
5 Department of Agricultural Biotechnology
6 The Wellcome Trust Sanger Institute [Cambridge]
7 Department of Biological Sciences
8 Leipzig University / Universität Leipzig
9 University of Vienna [Vienna]
10 LGC - Laboratoire de Génétique Cellulaire
11 SNU - Seoul National University [Seoul]
12 Wellcome Trust
13 Animal Breeding and Genomics Centre
14 Department of Infectious Diseases
15 The Genome Institute
16 Resource Ecology Group
17 Senckenberg Museum [Frankfurt]
18 University of Kent
19 Department of Biology
Yong Zhang
- Fonction : Auteur
- PersonId : 758537
- ORCID : 0000-0003-3988-5961
Hakim Tafer
- Fonction : Auteur
Alain Vignal
- Fonction : Auteur
- PersonId : 744823
- IdHAL : alain-vignal
- ORCID : 0000-0002-6797-2125
- IdRef : 167816675
Thomas Faraut
- Fonction : Auteur
- PersonId : 749003
- IdHAL : thomas-faraut
- ORCID : 0000-0001-5156-3434
Mireille Morisson
- Fonction : Auteur
- PersonId : 737792
- IdHAL : mireille-morisson
- ORCID : 0000-0002-5279-6675
Man Rao
- Fonction : Auteur
Frederique Pitel
- Fonction : Auteur
- PersonId : 736308
- IdHAL : frederique-pitel
- ORCID : 0000-0002-1477-7633
- IdRef : 18573412X
Ning Li
- Fonction : Auteur
- PersonId : 759918
- ORCID : 0000-0001-6009-6831
Résumé
The duck (Anas platyrhynchos) is one of the principal natural hosts of influenza A viruses. We present the duck genome sequence and perform deep transcriptome analyses to investigate immune-related genes. Our data indicate that the duck possesses a contractive immune gene repertoire, as in chicken and zebra finch, and this repertoire has been shaped through lineage-specific duplications. We identify genes that are responsive to influenza A viruses using the lung transcriptomes of control ducks and ones that were infected with either a highly pathogenic (A/duck/Hubei/49/05) or a weakly pathogenic (A/goose/Hubei/65/05) H5N1 virus. Further, we show how the duck's defense mechanisms against influenza infection have been optimized through the diversification of its β-defensin and butyrophilin-like repertoires. These analyses, in combination with the genomic and transcriptomic data, provide a resource for characterizing the interaction between host and influenza viruses.