2018
DOI: 10.1038/s41588-018-0223-8
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Abstract: We report full-length draft De novo genome assemblies for 16 widely used inbred mouse strains and reveal extensive strain-specific haplotype variation. We identify and characterise 2,567 regions on the current mouse reference genome exhibiting the greatest sequence diversity. These regions are enriched for genes involved in pathogen defence and immunity and exhibit enrichment of transposable elements and signatures of recent retrotransposition events. Combinations of alleles and genes un… Show more

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Cited by 170 publications
(195 citation statements)
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References 82 publications
(93 reference statements)
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“…We identified 721 B6 specific and 1,157 Cast specific genes by analyzing RNA-seq data of B6 and Cast naï ve CD4 T cells. GO analyses showed that genes associated with immune function are significantly enriched in these strain-specific genes ( Fig 5A), consistent with a recent report that environmental adaptation related-genes were significantly enriched among highly diverse genetic regions among mouse strains (Lilue et al 2018). We further identified 158 Fb6 specific and with B6 and Cast specific genes, respectively ( Fig S6A).…”
Section: Both Genetic and Epigenetic Factors Shaped Gene Expression Isupporting
confidence: 89%
See 1 more Smart Citation
“…We identified 721 B6 specific and 1,157 Cast specific genes by analyzing RNA-seq data of B6 and Cast naï ve CD4 T cells. GO analyses showed that genes associated with immune function are significantly enriched in these strain-specific genes ( Fig 5A), consistent with a recent report that environmental adaptation related-genes were significantly enriched among highly diverse genetic regions among mouse strains (Lilue et al 2018). We further identified 158 Fb6 specific and with B6 and Cast specific genes, respectively ( Fig S6A).…”
Section: Both Genetic and Epigenetic Factors Shaped Gene Expression Isupporting
confidence: 89%
“…The differences of compartment status are potentially associated with significant environmental differences that B6 and Cast have experienced. Indeed, a recent study by Lilue et al found that olfactory clusters are also significantly enriched in the highly different genetic variations among mouse strains (Lilue et al 2018).…”
Section: Parental Divergent Compartments Transit Into Same Status Inmentioning
confidence: 99%
“…Although NLRP1 was the first inflammasome described, exactly how it is activated is still unclear . Although the human genome encodes for a single NLRP1 protein, mice express eight paralogs, Nlrp1a‐f and Nlrp1b2 . Additionally, murine Nlrp1b has five different alleles that respond differentially to stimuli.…”
Section: Nlr Inflammasomesmentioning
confidence: 99%
“…1,8 Although the human genome encodes for a single NLRP1 protein, mice express eight paralogs, Nlrp1a-f and Nlrp1b2. 9 Additionally, murine Nlrp1b has five different alleles that respond differentially to stimuli. The human NLRP1 domain structure deviates from the typical tripartite domain structure and contains an N-terminal pyrin domain, followed by a nucleotide-binding domain, leucine-rich repeats, function to find domain (FIND) and C-terminal CARD.…”
Section: Nlrp1 Inflammasomementioning
confidence: 99%
“…By combining eight founder strains, the genetic and phenotypic diversity is similar to that of the human population. As the genomic sequences of the eight founder strains are available (Keane et al 2011;Lilue et al 2018), the CC represents an unprecedented and unique resource for genetic mapping and correlation studies (Roberts et al 2007). Detailed information about characteristics of the single founder strains can be found in Heike Kollmus and Helmut Fuchs contributed equally as first authors, Klaus Schughart and Martin Hrabê de Angelis contributed equally as last authors.…”
Section: Introductionmentioning
confidence: 99%