Genes and gene expression modules associated with caloric restriction and aging in the laboratory mouse

Swindell, William R

doi:10.1186/1471-2164-10-585

Cited by 171Genetics, Aging, and Longevity in Model OrganismsSirtuins and Resveratrol in MedicineGenomics and Chromatin Dynamics

Genes and gene expression modules associated with caloric restriction and aging in the laboratory mouse

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Swindell, William R·2009·BMC Genomics

DOI 10.1186/1471-2164-10-585PMC PMC2795771

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Abstract

BACKGROUND: Caloric restriction (CR) counters deleterious effects of aging and, for most mouse genotypes, increases mean and maximum lifespan. Previous analyses of microarray data have identified gene expression responses to CR that are shared among multiple mouse tissues, including the activation of anti-oxidant, tumor suppressor and anti-inflammatory pathways. These analyses have provided useful research directions, but have been restricted to a limited number of tissues, and have focused on individual genes, rather than whole-genome transcriptional networks. Furthermore, CR is thought to oppose age-associated gene expression patterns, but detailed statistical investigations of this hypothesis have not been carried out. RESULTS: Systemic effects of CR and aging were identified by examining transcriptional responses to CR in 17 mouse tissue types, as well as responses to aging in 22 tissues. CR broadly induced the expression of genes known to inhibit oxidative stress (e.g., Mt1, Mt2), inflammation (e.g., Nfkbia, Timp3) and tumorigenesis (e.g., Txnip, Zbtb16). Additionally, a network-based investigation revealed that CR regulates a large co-expression module containing genes associated with the metabolism and splicing of mRNA (e.g., Cpsf6, Sfpq, Sfrs18). The effects of aging were, to a considerable degree, similar among groups of co-expressed genes. Age-related gene expression patterns characteristic of most mouse tissues were identified, including up regulation of granulin (Grn) and secreted phosphoprotein 1 (Spp1). The transcriptional association between CR and aging varied at different levels of analysis. With respect to gene subsets associated with certain biological processes (e.g., immunity and inflammation), CR opposed age-associated expression patterns. However, among all genes, global transcriptional effects of CR were only weakly related to those of aging. CONCLUSION: The study of aging, and of interventions thought to combat aging, has much to gain from data-driven and unbiased genomic investigations. Expression patterns identified in this analysis characterize a generalized response of mammalian cells to CR and/or aging. These patterns may be of importance in determining effects of CR on overall lifespan, or as factors that underlie age-related disease. The association between CR and aging warrants further study, but most evidence indicates that CR does not induce a genome-wide "reversal" of age-associated gene expression patterns.

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These findings were further confirmed via subsequent microarray studies, as well as network-based investigations.
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Authors: Swindell, W. R.
Affiliations: University of Michigan (US)
Corresponding author: Swindell, William R
ORCID: Swindell, William R
Venue: BMC Genomics
Publisher: Springer Science and Business Media LLC
Published: 2009
Volume: 10
Issue: 1
Pages: 585
ISSN: 1471-2164 (ISSN-L)
DOI: 10.1186/1471-2164-10-585
PMC: PMC2795771
OpenAlex: W1995217137
Cited by: 171
References: 111
Citations by year: 2026: 7 · 2025: 3 · 2024: 6 · 2023: 15 · 2022: 18 · 2021: 9 · 2020: 9 · 2019: 14 · 2018: 11 · 2017: 10 · 2016: 10 · 2015: 6 · 2014: 6 · 2013: 12 · 2012: 16
FWCI: 3.58
Type: journal article
Language: en
Open access: gold
doi.org
Licence: cc-by
Locations: BMC Genomics (publishedVersion, cc-by)
PubMed Central (publishedVersion, cc-by)
PubMed (publishedVersion)
Deep Blue (University of Michigan) (submittedVersion)
DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders: National Institutes of Health (AG000114, 2t32ar007197-46a1)
National Institute on Aging (AG 000114, T32AG000114)
National Institute of Arthritis and Musculoskeletal and Skin Diseases (T32-AR007197)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Aging › Genetics, Aging, and Longevity in Model Organisms
Health Sciences › Medicine › Geriatrics and Gerontology › Sirtuins and Resveratrol in Medicine
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Keywords: caloric restriction, aging, gene expression, transcriptional regulatory networks, gene co-expression modules, oxidative stress, inflammation, tumor suppression, mRNA splicing, lifespan, mouse tissues, granulin, osteopontin
MeSH terms: Aging, Animals, Animals, Laboratory, Gene Expression Regulation, Oligonucleotide Array Sequence Analysis, Gene Expression Profiling, Caloric Restriction, Mice

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Genes and gene expression modules associated with caloric restriction and aging in the laboratory mouse

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