The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease.
The domestic ferret (Mustela putorius furo) is an important animal model for multiple human respiratory diseases. It is considered the 'gold standard' for modeling human influenza virus infection and transmission. Here we describe the 2.41 Gb draft genome assembly of the domestic ferret, constituting 2.28 Gb of sequence plus gaps. We annotated 19,910 protein-coding genes on this assembly using RNA-seq data from 21 ferret tissues. We characterized the ferret host response to two influenza virus infections by RNA-seq analysis of 42 ferret samples from influenza time-course data and showed distinct signatures in ferret trachea and lung tissues specific to 1918 or 2009 human pandemic influenza virus infections. Using microarray data from 16 ferret samples reflecting cystic fibrosis disease progression, we showed that transcriptional changes in the CFTR-knockout ferret lung reflect pathways of early disease that cannot be readily studied in human infants with cystic fibrosis disease.
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Xinxia
0000000201173582
X
Peng
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Jessica
0000000197136200
J
Alföldi
European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK.
Kevin
K
Gori
Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA.
Amie J
AJ
Eisfeld
1] Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. . [2] Molecular and Cellular Biology Program, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA.
Scott R
SR
Tyler
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Jennifer
J
Tisoncik-Go
1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. [2] MRC Functional Genomics Unit, University of Oxford, xford, UK (D.B.); Biogen Idec, Cambridge, Massachusetts, USA (M.L.); Division of Biology, California Institute of Technology, Pasadena, California, USA (P.R.); Vertebrate and Health Genomics, The Genome Analysis Center, Norwich, UK (F.D.P.).
David
0000000203573520
D
Brawand
Department of Microbiology, University of Washington, Seattle, Washington, USA.
G Lynn
GL
Law
1] Department of Computer Science, Swiss Federal Institute of Technology (ETH Zurich), Zurich, Switzerland. [2] Swiss Institute of Bioinformatics, Zurich, Switzerland.
Nives
N
Skunca
Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA.
Masato
M
Hatta
Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA.
David J
DJ
Gasper
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Sara M
SM
Kelly
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Jean
J
Chang
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Matthew J
MJ
Thomas
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Jeremy
J
Johnson
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Aaron M
AM
Berlin
1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. [2] MRC Functional Genomics Unit, University of Oxford, xford, UK (D.B.); Biogen Idec, Cambridge, Massachusetts, USA (M.L.); Division of Biology, California Institute of Technology, Pasadena, California, USA (P.R.); Vertebrate and Health Genomics, The Genome Analysis Center, Norwich, UK (F.D.P.).
Marcia
M
Lara
1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. [2] MRC Functional Genomics Unit, University of Oxford, xford, UK (D.B.); Biogen Idec, Cambridge, Massachusetts, USA (M.L.); Division of Biology, California Institute of Technology, Pasadena, California, USA (P.R.); Vertebrate and Health Genomics, The Genome Analysis Center, Norwich, UK (F.D.P.).
Pamela
P
Russell
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Ross
R
Swofford
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Jason
J
Turner-Maier
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Sarah
S
Young
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Thibaut
T
Hourlier
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Bronwen
B
Aken
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Steve
S
Searle
Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. .
Xingshen
X
Sun
Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. .
Yaling
Y
Yi
Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA.
M
M
Suresh
Centers for Disease Control and Prevention, Atlanta, Georgia, USA.
Terrence M
TM
Tumpey
Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, USA.
Adam
A
Siepel
Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, Florida, USA.
Samantha M
SM
Wisely
1] European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK. [2] Department of Genetics, Evolution and Environment, University College London, London, UK. [3] Department of Computer Science, University College London, London, UK.
Christophe
000000022170853X
C
Dessimoz
1] Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA. [2] ERATO Infection-Induced Host Responses Project, Japan Science and Technology Agency, Saitama, Japan. [3] Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan. [4] Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo, Japan. [5] Laboratory of Bioresponses Regulation, Department of Biological Responses, Institute for Virus Research, Kyoto University, Kyoto, Japan.
Yoshihiro
Y
Kawaoka
Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Bruce W
BW
Birren
1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. [2] Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden.
Kerstin
K
Lindblad-Toh
1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. [2] MRC Functional Genomics Unit, University of Oxford, xford, UK (D.B.); Biogen Idec, Cambridge, Massachusetts, USA (M.L.); Division of Biology, California Institute of Technology, Pasadena, California, USA (P.R.); Vertebrate and Health Genomics, The Genome Analysis Center, Norwich, UK (F.D.P.).
Federica
F
Di Palma
1] Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. . [2] Center for Gene Therapy, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA.
John F
JF
Engelhardt
Department of Microbiology, University of Washington, Seattle, Washington, USA.
Robert E
0000000177051568
RE
Palermo
1] Department of Microbiology, University of Washington, Seattle, Washington, USA. [2] Washington National Primate Research Center, Seattle, Washington, USA.
Michael G
MG
Katze
D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping; D004195:Disease Models, Animal; D005289:Ferrets / Q000235:genetics*; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D007251:Influenza, Human / Q000235:genetics* / Q000635:transmission / Q000821:virology; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D009975:Orthomyxoviridae / Q000235:genetics / Q000472:pathogenicity; D017422:Sequence Analysis, DNA