mtDNA sequence, phylogeny and evolution of laboratory mice

Zheng, Jiangjun; Chen, Yan; Deng, Fengyuan; Huang, Renliang; Petersen, Frank; Ibrahim, Saleh M.; Yu, Xinhua

doi:10.1016/j.mito.2014.07.006

Cited by 7 publications

(6 citation statements)

References 37 publications

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“…In hybridization among subspecies of mice, the disruption of co‐adapted genes increases developmental instability (Auffray et al ., ; Alibert & Auffray, ). This could be the case for the CC mice, as M. m. castaneus and M. m. domesticus are sister subspecies that diverged from M. m. musculus around 435 000–557 000 years ago (Yang et al ., ; Zheng et al ., ). Moreover, wild‐derived inbred strains have large genetic differences as indicated by a large number of SNPs, structural variants and indels compared with the reference mouse genome (Keane et al ., ).…”

Section: Discussionmentioning

confidence: 97%

Genetic structure of phenotypic robustness in the collaborative cross mouse diallel panel

González

Pavličev

Mitterœcker

et al. 2016

J of Evolutionary Biology

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Developmental stability and canalization describe the ability of developmental systems to minimize phenotypic variation in the face of stochastic micro-environmental effects, genetic variation and environmental influences. Canalization is the ability to minimize the effects of genetic or environmental effects, while developmental stability is the ability to minimize the effects of micro-environmental effects within individuals. Despite much attention, the mechanisms that underlie these two components of phenotypic robustness remain unknown. We investigated the genetic structure of phenotypic robustness in the Collaborative Cross (CC) mouse reference population. We analyzed the magnitude of fluctuating asymmetry (FA) and among-individual variation of cranial shape in reciprocal crosses among the eight parental strains, by using geometric morphometrics and a diallel analysis based on a Bayesian approach. Significant differences among genotypes were found for both measures, though they were poorly correlated at the level of individuals. An overall positive effect of inbreeding was found for both components of variation. The strain CAST/EiJ exerted a positive additive effect on FA and, to a lesser extent, among-individual variance. Sex and other strain specific effects were not significant. Neither FA nor among-individual variation was associated with phenotypic extremeness. Our results support the existence of genetic variation for both developmental stability and canalization. This finding is important because robustness is a key feature of developmental systems. Our finding that robustness is not related to phenotypic extremeness is consistent with theoretical work that suggests that its relationship to stabilizing selection is not straightforward.

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Section: Discussionmentioning

confidence: 97%

Genetic structure of phenotypic robustness in the collaborative cross mouse diallel panel

González

Pavličev

Mitterœcker

et al. 2016

J of Evolutionary Biology

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“…Human–primate lineage divergence and generation times were obtained from Langergraber et al 52 . The divergence times for the wild-derived and classical laboratory strains were obtained from Vicens et al 53 , Goios et al 9 , and Zheng et al 54 . The data for the two outgroup species’ divergence times was obtained from Thybert et al 29 .…”

Section: Methodsmentioning

confidence: 99%

Transcriptional activity and strain-specific history of mouse pseudogenes

et al. 2020

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Pseudogenes are ideal markers of genome remodelling. In turn, the mouse is an ideal platform for studying them, particularly with the recent availability of strain-sequencing and transcriptional data. Here, combining both manual curation and automatic pipelines, we present a genome-wide annotation of the pseudogenes in the mouse reference genome and 18 inbred mouse strains (available via the mouse.pseudogene.org resource). We also annotate 165 unitary pseudogenes in mouse, and 303, in human. The overall pseudogene repertoire in mouse is similar to that in human in terms of size, biotype distribution, and family composition (e.g. with GAPDH and ribosomal proteins being the largest families). Notable differences arise in the pseudogene age distribution, with multiple retrotranspositional bursts in mouse evolutionary history and only one in human. Furthermore, in each strain about a fifth of all pseudogenes are unique, reflecting strain-specific evolution. Finally, we find that~15% of the mouse pseudogenes are transcribed, and that highly transcribed parent genes tend to give rise to many processed pseudogenes.

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“…Since independent foraging emerges at weaning, we profile developmental changes in early-weaning age (postnatal day 15 [P15]), weaning age (P20), post-weaning age (P25), and adult mice. To test for genetic and parental effects, our design uses reciprocal crosses of the distant subspecies, Mus musculus castaneous (Cast) and C57BL6/J (B6) ( Zheng et al, 2014 ). By comparing the F1cb (Cast mother × B6 father) and F1bc (B6 mother × Cast father) hybrid offspring from these crosses, we test how parental effects influence foraging ( Figures 1 and S1B ).…”

Section: Resultsmentioning

confidence: 99%

Complex Economic Behavior Patterns Are Constructed from Finite, Genetically Controlled Modules of Behavior

et al. 2019

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Highlights d A methodology to dissect the architecture of complex behavior patterns d Foraging patterns are built from finite, genetically controlled modules of behavior d Different modules are linked to different economic behavior patterns d Parental alleles of the Prader-Willi syndrome gene Magel2 regulate distinct modules SUMMARY Complex ethological behaviors could be constructed from finite modules that are reproducible functional units of behavior.Here, we test this idea for foraging and develop methods to dissect rich behavior patterns in mice. We uncover discrete modules of foraging behavior reproducible across different strains and ages, as well as nonmodular behavioral sequences. Modules differ in terms of form, expression frequency, and expression timing and are expressed in a probabilistically determined order. Modules shape economic patterns of feeding, exposure, activity, and perseveration responses. The modular architecture of foraging changes developmentally, and different developmental, genetic, and parental effects are found to shape the expression of specific modules. Dissecting modules from complex patterns is powerful for phenotype analysis. We discover that both parental alleles of the imprinted Prader-Willi syndrome gene Magel2 are functional in mice but regulate different modules. Our study found that complex economic patterns are built from finite, genetically controlled modules.

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mtDNA sequence, phylogeny and evolution of laboratory mice

Cited by 7 publications

References 37 publications

Genetic structure of phenotypic robustness in the collaborative cross mouse diallel panel

Genetic structure of phenotypic robustness in the collaborative cross mouse diallel panel

Transcriptional activity and strain-specific history of mouse pseudogenes

Complex Economic Behavior Patterns Are Constructed from Finite, Genetically Controlled Modules of Behavior

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