The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease

被引：100

作者：

Peng, Xinxia ^{[1
]}

Alfoeldi, Jessica ^{[2
]}

Gori, Kevin ^{[3
]}

Eisfeld, Amie J. ^{[4
]}

Tyler, Scott R. ^{[5
,6
]}

Tisoncik-Go, Jennifer ^{[1
]}

Brawand, David ^{[2
]}

Law, G. Lynn ^{[1
]}

Skunca, Nives ^{[7
,8
]}

Hatta, Masato ^{[4
]}

Gasper, David J. ^{[4
]}

Kelly, Sara M. ^{[1
]}

Chang, Jean ^{[1
]}

Thomas, Matthew J. ^{[1
]}

Johnson, Jeremy ^{[2
]}

Berlin, Aaron M. ^{[2
]}

Lara, Marcia ^{[2
]}

Russell, Pamela ^{[2
]}

Swofford, Ross ^{[2
]}

Turner-Maier, Jason ^{[2
]}

Young, Sarah ^{[2
]}

Hourlier, Thibaut ^{[9
]}

Aken, Bronwen ^{[9
]}

Searle, Steve ^{[9
]}

Sun, Xingshen ^{[5
]}

Yi, Yaling ^{[5
]}

Suresh, M. ^{[4
]}

Tumpey, Terrence M. ^{[10
]}

Siepel, Adam ^{[11
]}

Wisely, Samantha M. ^{[12
]}

Dessimoz, Christophe ^{[3
,13
,14
]}

Kawaoka, Yoshihiro ^{[4
,15
,16
,17
,18
]}

Birren, Bruce W. ^{[2
]}

Lindblad-Toh, Kerstin ^{[2
,19
]}

Di Palma, Federica ^{[2
]}

Engelhardt, John F. ^{[5
,20
]}

Palermo, Robert E.

Katze, Michael G. ^{[1
,21
]}

机构：

[1] Univ Washington, Dept Microbiol, Seattle, WA 98195 USA

[2] Broad Inst MIT & Harvard, Cambridge, MA USA

[3] European Bioinformat Inst, European Mol Biol Lab, Cambridge, England

[4] Univ Wisconsin, Sch Vet Med, Dept Pathobiol Sci, Madison, WI 53706 USA

[5] Univ Iowa, Dept Anat & Cell Biol, Carver Coll Med, Iowa City, IA USA

[6] Univ Iowa, Carver Coll Med, Mol & Cellular Biol Program, Iowa City, IA USA

[7] ETH, Swiss Fed Inst Technol, Dept Comp Sci, Zurich, Switzerland

[8] Swiss Inst Bioinformat, Zurich, Switzerland

[9] Wellcome Trust Sanger Inst, Cambridge, England

[10] Ctr Dis Control & Prevent, Atlanta, GA USA

[11] Cornell Univ, Dept Biol Stat & Computat Biol, Ithaca, NY USA

[12] Univ Florida, Dept Wildlife Ecol & Conservat, Gainesville, FL USA

[13] UCL, Dept Genet Evolut & Environm, London, England

[14] UCL, Dept Comp Sci, London, England

[15] Japan Sci & Technol Agcy, ERATO Infect Induced Host Responses Project, Saitama, Japan

[16] Univ Tokyo, Inst Med Sci, Dept Microbiol & Immunol, Div Virol, Tokyo, Japan

[17] Univ Tokyo, Inst Med Sci, Int Res Ctr Infect Dis, Dept Special Pathogens,Minato Ku, Tokyo, Japan

[18] Kyoto Univ, Inst Virus Res, Dept Biol Responses, Lab Bioresponses Regulat, Kyoto 606, Japan

[19] Uppsala Univ, Dept Med Biochem & Microbiol, Uppsala, Sweden

[20] Univ Iowa, Carver Coll Med, Ctr Gene Therapy, Iowa City, IA USA

[21] Washington Natl Primate Res Ctr, Seattle, WA USA

来源：

NATURE BIOTECHNOLOGY | 2014年 / 32卷 / 12期

基金：

英国生物技术与生命科学研究理事会; 美国国家卫生研究院;

关键词：

CYSTIC-FIBROSIS; INFLUENZA-VIRUS; RNA; EXPRESSION; TRACT; ANNOTATION; PHENOTYPE; INFECTION; IMMUNITY; MODELS;

D O I：

10.1038/nbt.3079

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

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(1-)4. 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.

引用

页码：1250 / U114

页数：10

共 42 条

[31] Disease phenotype of a ferret CFTR-knockout model of cystic fibrosis [J].

Sun, Xingshen ;

Sui, Hongshu ;

Fisher, John T. ;

Yan, Ziying ;

Liu, Xiaoming ;

Cho, Hyung-Ju ;

Joo, Nam Soo ;

Zhang, Yulong ;

Zhou, Weihong ;

Yi, Yaling ;

Kinyon, Joann M. ;

Lei-Butters, Diana C. ;

Griffin, Michelle A. ;

Naumann, Paul ;

Luo, Meihui ;

Ascher, Jill ;

Wang, Kai ;

Frana, Timothy ;

Wine, Jeffrey J. ;

Meyerholz, David K. ;

Engelhardt, John F. .

JOURNAL OF CLINICAL INVESTIGATION, 2010, 120 (09) :3149-3160

[32] Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation [J].

Trapnell, Cole ;

Williams, Brian A. ;

Pertea, Geo ;

Mortazavi, Ali ;

Kwan, Gordon ;

van Baren, Marijke J. ;

Salzberg, Steven L. ;

Wold, Barbara J. ;

Pachter, Lior .

NATURE BIOTECHNOLOGY, 2010, 28 (05) :511-U174

[33]

Tripp RA, 2009, CURR TOP MICROBIOL, V333, P397, DOI 10.1007/978-3-540-92165-3_19

[34] H5N1 virus attachment to lower respiratory tract [J].

van Riel, D ;

Munster, VJ ;

de Wit, E ;

Rimmelzwaan, GF ;

Fouchier, RAM ;

Osterhaus, ADME ;

Kuiken, T .

SCIENCE, 2006, 312 (5772) :399-399

[35] Human and avian influenza viruses target different cells in the lower respiratory tract of humans and other mammals [J].

van Riel, Debby ;

Munster, Vincent J. ;

de Wit, Emmie ;

Rimmelzwaan, Guus F. ;

Fouchier, Ron A. M. ;

Osterhaus, Albert D. M. E. ;

Kuiken, Thijs .

AMERICAN JOURNAL OF PATHOLOGY, 2007, 171 (04) :1215-1223

[36] Suppression of cytokine storm with a sphingosine analog provides protection against pathogenic influenza virus [J].

Walsh, Kevin B. ;

Teijaro, John R. ;

Wilker, Peter R. ;

Jatzek, Anna ;

Fremgen, Daniel M. ;

Das, Subash C. ;

Watanabe, Tokiko ;

Hatta, Masato ;

Shinya, Kyoko ;

Suresh, Marulasiddappa ;

Kawaoka, Yoshihiro ;

Rosen, Hugh ;

Oldstone, Michael B. A. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2011, 108 (29) :12018-12023

[37] Hsp90 cochaperone Aha1 downregulation rescues misfolding of CFTR in cystic fibrosis [J].

Wang, Xiaodong ;

Venable, John ;

LaPointe, Paul ;

Hutt, Darren M. ;

Koulov, Atanas V. ;

Coppinger, Judith ;

Gurkan, Cemal ;

Kellner, Wendy ;

Matteson, Jeanne ;

Plutner, Helen ;

Riordan, John R. ;

Kelly, Jeffery W. ;

Yates, John R., III ;

Balch, William E. .

CELL, 2006, 127 (04) :803-815

[38] Viral RNA polymerase complex promotes optimal growth of 1918 virus in the lower respiratory tract of ferrets [J].

Watanabe, Tokiko ;

Watanabe, Shinji ;

Shinya, Kyoko ;

Kim, Jin Hyun ;

Hatta, Masato ;

Kawaoka, Yoshihiro .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2009, 106 (02) :588-592

[39] Evaluation of the genetic management of the endangered black-footed ferret (Mustela nigripes) [J].

Wisely, SM ;

McDonald, DB ;

Buskirk, SW .

ZOO BIOLOGY, 2003, 22 (03) :287-298

[40] Genetic diversity and fitness in black-footed ferrets before and during a bottleneck [J].

Wisely, SM ;

Buskirk, SW ;

Fleming, MA ;

McDonald, DB ;

Ostrander, EA .

JOURNAL OF HEREDITY, 2002, 93 (04) :231-237

← 1 2 3 4 5 →