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A comparative phenotypic and genomic analysis of C57BL/6J and C57BL/6N mouse strains

Michelle M Simon1, Simon Greenaway1, Jacqueline K White2, Helmut Fuchs3, Valérie Gailus-Durner3, Sara Wells1, Tania Sorg6, Kim Wong2, Elodie Bedu6, Elizabeth J Cartwright7, Romain Dacquin9, Sophia Djebali9, Jeanne Estabel2, Jochen Graw4, Neil J Ingham2, Ian J Jackson10, Andreas Lengeling11, Silvia Mandillo12, Jacqueline Marvel9, Hamid Meziane6, Frédéric Preitner13, Oliver Puk4, Michel Roux6, David J Adams2, Sarah Atkins1, Abdel Ayadi6, Lore Becker3, Andrew Blake1, Debra Brooker1, Heather Cater1, Marie-France Champy6, Roy Combe6, Petr Danecek2, Armida di Fenza1, Hilary Gates1, Anna-Karin Gerdin2, Elisabetta Golini12, John M Hancock1, Wolfgang Hans3, Sabine M Hölter3, Tertius Hough1, Pierre Jurdic9, Thomas M Keane2, Hugh Morgan1, Werner Müller8, Frauke Neff5, George Nicholson1, Bastian Pasche14, Laura-Anne Roberson2, Jan Rozman3, Mark Sanderson2, Luis Santos1, Mohammed Selloum6, Carl Shannon2, Anne Southwell1, Glauco P Tocchini-Valentini12, Valerie E Vancollie2, Henrik Westerberg1, Wolfgang Wurst1617184, Min Zi7, Binnaz Yalcin156, Ramiro Ramirez-Solis2, Karen P Steel2, Ann-Marie Mallon1, Martin Hrabě de Angelis3, Yann Herault6 and Steve DM Brown1*

Author Affiliations

1 Medical Research Council Harwell (Mammalian Genetics Unit and Mary Lyon Centre), Harwell Science Campus, OX11 0RD, UK

2 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK

3 Helmholtz Zentrum München, German Research Centre for Environmental Health, Institute of Experimental Genetics and German Mouse Clinic, Ingolstädter Landstraße 1, Neuherberg, D-85764, Germany

4 Helmholtz Zentrum München, German Research Centre for Environmental Health, Institute of Developmental Genetics, Ingolstädter Landstraße 1, Neuherberg, D-85764, Germany

5 Helmholtz Zentrum München, German Research Centre for Environmental Health, Institute of Pathology, Ingolstädter Landstraße 1, Neuherberg, D-85764, Germany

6 Institut Clinique de la Souris, ICS/MCI, PHENOMIN, GIE CERBM, IGBMC, CNRS, INSERM, 1 Rue Laurent Fries, 67404 Illkirch-Graffenstaden Cedex, France

7 Faculty of Medical and Human Sciences, University of Manchester, Oxford Road, Manchester, MN13 9PT, UK

8 Faculty of Life Sciences, University of Manchester, Oxford Road, Manchester, MN13 9PT, UK

9 AniRA ImmOs phenotyping facility- SFR Biosciences Lyon Gerland- UMS3444/US8, 21 avenue Tony Garnier F-69007 Lyon, France

10 Medical Research Council Human Genetics Unit, IGMM, University of Edinburgh, Western General Hospital, Crewe Road, Edinburgh, EH4 2XU, UK

11 Infection and Immunity Division, Roslin Institute, University of Edinburgh, Easter Bush Veterinary Campus, Midlothian, EH25 9RG, UK

12 Consiglio Nazionale delle Ricerche- Cell Biology and Neurobiology Institute, Via E.Ramarini 32, 00015 Monterotondo Scala, Italy

13 Department of Infection Genetics, Helmholtz Centre for Infection Research, Inhoffenstraße 7, Braunschweig, 38124, Germany

14 Mouse Metabolic Facility of the Cardiomet Center, University Hospital, and Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland

15 Center for Integrative Genomics, University of Lausanne, Lausanne, CH-1015, Switzerland

16 Chair for Developmental Genetics, Technische Universität München, Arcisstr. 21, Munich, 80333, Germany

17 Max Planck Institute of Psychiatry, Kraepelinstrasse 2, Munich, 80804, Germany

18 Deutsches Zentrum für Neurodegenerative Erkrankungen, Schillerstrasse 44, Munich, 80336, Germany

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Genome Biology 2013, 14:R82  doi:10.1186/gb-2013-14-7-r82

Published: 31 July 2013

Additional files

Additional file 1:

Table S1, Single-nucleotide polymorphism (SNP) and small indel validation numbers.

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Additional file 2:

Figure S1, The European Mouse Phenotyping Resource of Standardised Screens (EMPReSS)slim phenotyping pipeline. Figure S1. EMPReSSslim phenotyping pipeline. The pipeline includes 20 phenotyping platforms. Data for FACS analysis of peripheral blood populations were not acquired for all centers and are not presented here.

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Additional file 3:

Figure S2 (a-h) Heat maps showing phenotyping parameter differences between the phenotyping centers. Figure S2. Heat maps and phenotype parameters. (A-D) Heat maps (see Figure 1 and Figure 2) displayed with numbers of C57BL/6N (N) and C57BL/6J (J) animals analyzed for each test in each center. (E-H) Heat maps (see Figure 1 andFigure 2) showing the effect sizes seen in each test in each center. (A, E) Phenotype parameters that showed a significant difference between N and J in three or more centers. (B, F) Phenotype parameters that showed a significant difference between N and J in two centers but no evidence of trends in the other centers. (C, G) Phenotype parameters for which no significant differences were seen across the centers. (D, H) Phenotype parameters that showed significant differences in two or more centers, but the opposite trend in one of the centers.

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