Establishment and application of information resource of mutant mice in RIKEN BioResource Research Center

Masuya, Hiroshi; Usuda, Daiki; Nakata, Hatsumi; Yuhara, Naomi; Kurihara, Keiko; Namiki, Yuri; Iwase, Shigeru; Takada, Toyoyuki; Tanaka, Nobuhiko; Suzuki, Kenta; Yamagata, Yuki; Kobayashi, Norio; Yoshiki, Atsushi; Kushida, Tatsuya

doi:10.1186/s42826-020-00068-8

Cited by 6 publications

(8 citation statements)

References 39 publications

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“…In 2019, operation of this database was transferred to the RIKEN BioResource Research Center (BRC) (Masuya et al 2021), and the database was renamed "MoG+" (https:// molos sinus. brc.…”

Section: Introductionmentioning

confidence: 99%

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MoG+: a database of genomic variations across three mouse subspecies for biomedical research

et al. 2021

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Laboratory mouse strains have mosaic genomes derived from at least three major subspecies that are distributed in Eurasia. Here, we describe genomic variations in ten inbred strains: Mus musculus musculus-derived BLG2/Ms, NJL/Ms, CHD/Ms, SWN/Ms, and KJR/Ms; M. m. domesticus-derived PGN2/Ms and BFM/Ms; M. m. castaneus-derived HMI/Ms; and JF1/Ms and MSM/Ms, which were derived from a hybrid between M. m. musculus and M. m. castaneus. These strains were established by Prof. Moriwaki in the 1980s and are collectively named the “Mishima Battery”. These strains show large phenotypic variations in body size and in many physiological traits. We resequenced the genomes of the Mishima Battery strains and performed a comparative genomic analysis with dbSNP data. More than 81 million nucleotide coordinates were identified as variant sites due to the large genetic distances among the mouse subspecies; 8,062,070 new SNP sites were detected in this study, and these may underlie the large phenotypic diversity observed in the Mishima Battery. The new information was collected in a reconstructed genome database, termed MoG+ that includes new application software and viewers. MoG+ intuitively visualizes nucleotide variants in genes and intergenic regions, and amino acid substitutions across the three mouse subspecies. We report statistical data from the resequencing and comparative genomic analyses and newly collected phenotype data of the Mishima Battery, and provide a brief description of the functions of MoG+, which provides a searchable and unique data resource of the numerous genomic variations across the three mouse subspecies. The data in MoG+ will be invaluable for research into phenotype-genotype links in diverse mouse strains.

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“…In 2019, operation of this database was transferred to the RIKEN BioResource Research Center (BRC) (Masuya et al 2021), and the database was renamed "MoG+" (https:// molos sinus. brc.…”

Section: Introductionmentioning

confidence: 99%

“…In 2019, operation of this database was transferred to the RIKEN BioResource Research Center (BRC) (Masuya et al 2021 ), and the database was renamed “MoG+” ( https://molossinus.brc.riken.jp/mogplus/ ). In this study, we performed a new comparative genomics analysis with dbSNP data (Mouse dbSNP 142; ftp://ftp-mouse.sanger.ac.uk/ ).…”

Section: Introductionmentioning

confidence: 99%

MoG+: a database of genomic variations across three mouse subspecies for biomedical research

et al. 2021

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“…Dissemination of information associated with mouse strains has a vital role in facilitating active use of largescale mouse resources by the biomedical community. We have recently renewed the RIKEN BRC home page and developed a revised version of the searchable online catalog of mouse strains that functions as a part of the BRCintegrated database (Masuya et al 2021).…”

Section: Dissemination Of Informationmentioning

confidence: 99%

“…Phenotypic data for each strain is an important key to evaluating the strain as a potential human disease model or a tool to study disease mechanisms. The Integrated Bioresource Information Division has recently upgraded the mouse web catalog by manually adding 24,490 phenotype annotations to over 4300 strains from publications so that users can find a specific mouse strain based on phenotype ontology terms in addition to gene names (Masuya et al 2021), thus increasing the findability of the strains. We also promote comprehensive phenotyping of deposited mouse strains by the Japan Mouse Clinic at the RIKEN BRC (Wakana et al 2009).…”

Section: Adding Value To Collected Mouse Strainsmentioning

confidence: 99%

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

et al. 2021

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The RIKEN BioResource Research Center (BRC) was established in 2001 as a comprehensive biological resource center in Japan. The Experimental Animal Division, one of the BRC infrastructure divisions, has been designated as the core facility for mouse resources within the National BioResource Project (NBRP) by the Japanese government since FY2002. Our activities regarding the collection, preservation, quality control, and distribution of mouse resources have been supported by the research community, including evaluations and guidance on advancing social and research needs, as well as the operations and future direction of the BRC. Expenditure for collection, preservation, and quality-control operations of the BRC, as a national core facility, has been funded by the government, while distribution has been separately funded by users’ reimbursement fees. We have collected over 9000 strains created mainly by Japanese scientists including Nobel laureates and researchers in cutting-edge fields and distributed mice to 7000 scientists with 1500 organizations in Japan and globally. Our users have published 1000 outstanding papers and a few dozen patents. The collected mouse resources are accessible via the RIKEN BRC website, with a revised version of the searchable online catalog. In addition, to enhance the visibility of useful strains, we have launched web corners designated as the “Mouse of the Month” and “Today’s Tool and Model.” Only high-demand strains are maintained in live colonies, while other strains are cryopreserved as embryos or sperm to achieve cost-effective management. Since 2007, the RIKEN BRC has built up a back-up facility in the RIKEN Harima branch to protect the deposited strains from disasters. Our mice have been distributed with high quality through the application of strict microbial and genetic quality control programs that cover a globally accepted pathogens list and mutated alleles generated by various methods. Added value features, such as information about users’ publications, standardized phenotyping data, and genome sequences of the collected strains, are important to facilitate the use of our resources. We have added and disseminated such information in collaboration with the NBRP Information Center and the NBRP Genome Information Upgrading Program. The RIKEN BRC has participated in international mouse resource networks such as the International Mouse Strain Resource, International Mouse Phenotyping Consortium, and Asian Mouse Mutagenesis and Resource Association to facilitate the worldwide use of high-quality mouse resources, and as a consequence it contributes to reproducible life science studies and innovation around the globe.

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“…RIKEN BRC was established in 2001 and has been designated as the mouse resource core facility (and the backup rat resource facility) for the National BioResource Project, MEXT, Japan. RIKEN BRC has collected, preserved, quality-controlled and distributed valuable mouse resources created mainly in Japan with support of the global research community (Yoshiki et al 2009 ; Masuya et al 2021 ). Four divisions and three teams at RIKEN BRC have collaborated to participate in AMMRA and IMPC, facilitate dissemination of mouse resources, and enrich the value of the strains with broad-based phenotyping data and high-quality genome information (Takada et al 2015 ; Dickinson et al 2016 ; Bowl et al 2017 ; Karp et al 2017 ; Rozman et al 2018 ; Lloyd et al 2020 ; Tanaka and Masuya 2020 ) as well as sharing relevant knowledge and technologies with the global community (Masuya et al 2011 ; Kobayashi et al 2018 ).…”

Section: Riken Bioresource Research Center (Riken Brc) Tsukubamentioning

confidence: 99%

Asian Mouse Mutagenesis Resource Association (AMMRA): mouse genetics and laboratory animal resources in the Asia Pacific

et al. 2021

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The Asian Mouse Mutagenesis Resource Association (AMMRA) is a non-profit organization consisting of major resource and research institutions with rodent expertise from within the Asia Pacific region. For more than a decade, aiming to support biomedical research and stimulate international collaboration, AMMRA has always been a friendly and passionate ally of Asian and Australian member institutions devoted to sharing knowledge, exchanging resources, and promoting biomedical research. AMMRA is also missioned to global connection by working closely with the consortiums such as the International Mouse Phenotyping Consortium and the International Mouse Strain Resource. This review discusses the emergence of AMMRA and outlines its many roles and responsibilities in promoting, assisting, enriching research, and ultimately enhancing global life science research quality.

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Establishment and application of information resource of mutant mice in RIKEN BioResource Research Center

Cited by 6 publications

References 39 publications

MoG+: a database of genomic variations across three mouse subspecies for biomedical research

MoG+: a database of genomic variations across three mouse subspecies for biomedical research

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

Asian Mouse Mutagenesis Resource Association (AMMRA): mouse genetics and laboratory animal resources in the Asia Pacific

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