Journal article
The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease
Nature biotechnology, Vol.32(12), pp.1250-1255
12/2014
DOI: 10.1038/nbt.3079
PMCID: PMC4262547
PMID: 25402615
Abstract
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.
Details
- Title: Subtitle
- The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease
- Creators
- Xinxia Peng - Department of Microbiology, University of Washington, Seattle, Washington, USAJessica Alföldi - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAKevin Gori - European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UKAmie J Eisfeld - Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USAScott R Tyler - 1] Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. . Molecular and Cellular Biology Program, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USAJennifer Tisoncik-Go - Department of Microbiology, University of Washington, Seattle, Washington, USADavid Brawand - 1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. 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.)G Lynn Law - Department of Microbiology, University of Washington, Seattle, Washington, USANives Skunca - 1] Department of Computer Science, Swiss Federal Institute of Technology (ETH Zurich), Zurich, Switzerland. Swiss Institute of Bioinformatics, Zurich, SwitzerlandMasato Hatta - Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USADavid J Gasper - Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USASara M Kelly - Department of Microbiology, University of Washington, Seattle, Washington, USAJean Chang - Department of Microbiology, University of Washington, Seattle, Washington, USAMatthew J Thomas - Department of Microbiology, University of Washington, Seattle, Washington, USAJeremy Johnson - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAAaron M Berlin - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAMarcia Lara - 1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. 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 Russell - 1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. 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.)Ross Swofford - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAJason Turner-Maier - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USASarah Young - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAThibaut Hourlier - Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UKBronwen Aken - Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UKSteve Searle - Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UKXingshen Sun - Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USAYaling Yi - Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USAM Suresh - Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USATerrence M Tumpey - Centers for Disease Control and Prevention, Atlanta, Georgia, USAAdam Siepel - Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, USASamantha M Wisely - Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, Florida, USAChristophe Dessimoz - 1] European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK. Department of Genetics, Evolution and Environment, University College London, London, UK. Department of Computer Science, University College London, London, UKYoshihiro Kawaoka - 1] Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin, Madison, Wisconsin, USA. ERATO Infection-Induced Host Responses Project, Japan Science and Technology Agency, Saitama, Japan. Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan. Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo, Japan. Laboratory of Bioresponses Regulation, Department of Biological Responses, Institute for Virus Research, Kyoto University, Kyoto, JapanBruce W Birren - Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USAKerstin Lindblad-Toh - 1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, SwedenFederica Di Palma - 1] Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. 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.)John F Engelhardt - 1] Department of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USA. . Center for Gene Therapy, Carver College of Medicine, University of Iowa, Iowa City, Iowa, USARobert E Palermo - Department of Microbiology, University of Washington, Seattle, Washington, USAMichael G Katze - 1] Department of Microbiology, University of Washington, Seattle, Washington, USA. Washington National Primate Research Center, Seattle, Washington, USA
- Resource Type
- Journal article
- Publication Details
- Nature biotechnology, Vol.32(12), pp.1250-1255
- DOI
- 10.1038/nbt.3079
- PMID
- 25402615
- PMCID
- PMC4262547
- NLM abbreviation
- Nat Biotechnol
- ISSN
- 1087-0156
- eISSN
- 1546-1696
- Publisher
- United States
- Grant note
- R01 HL108902 / NHLBI NIH HHS R24 HL123482 / NHLBI NIH HHS U19 AI110818 / NIAID NIH HHS P30 ES005605 / NIEHS NIH HHS HHSN272201400005C / NIAID NIH HHS R01 GM102192 / NIGMS NIH HHS T32 RR023916 / NCRR NIH HHS 095908 / Wellcome Trust R24 DK096518 / NIDDK NIH HHS P51OD010425 / NIH HHS HHSN272200900018C / NIAID NIH HHS T32 OD010423 / NIH HHS HHSN272200800060C / NIAID NIH HHS 9T32OD010423-06 / NIH HHS R37 DK047967 / NIDDK NIH HHS P30 DK054759 / NIDDK NIH HHS 5T32RR023916-05 / NCRR NIH HHS P51 OD010425 / NIH HHS
- Language
- English
- Date published
- 12/2014
- Academic Unit
- Roy J. Carver Department of Biomedical Engineering; Anatomy and Cell Biology; Radiation Oncology; Internal Medicine
- Record Identifier
- 9984025313202771
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