The UAB Nathan Shock Center focuses on comparative energetics and aging. Energetics, as defined for this purpose, encompasses the causes, mechanisms, and consequences of the acquisition, storage, and use of metabolizable energy. Comparative energetics is the study of metabolic processes at multiple scales and across multiple species as it relates to health and aging. The link between energetics and aging is increasingly understood in terms of dysregulated mitochondrial function, altered metabolic signaling, and aberrant nutrient responsiveness with increasing age. The center offers world-class expertise in comprehensive, integrated energetic assessment and analysis from the level of the organelle to the organism and across species from the size of worms to rats as well as state-of-the-art data analytics. The range of services offered by our three research cores, (1) The Organismal Energetics Core, (2) Mitometabolism Core, and (3) Data Analytics Core, is described herein.
This is a preview of subscription content,to check access.
Access this article
Similar content being viewed by others
Kennedy BK, Berger SL, Brunet A, et al. Geroscience: linking aging to chronic disease. Cell. 2014;159(4):709–13.
Smith DL Jr, Barry RJ, Powell ML, Nagy TR, D’Abramo LR, Watts SA. Dietary protein source influence on body size and composition in growing zebrafish. Zebrafish. 2013;10(3):439–46.
Siccardi AJ 3rd, Padgett-Vasquez S, Garris HW, Nagy TR, D’Abramo LR, Watts SA. Dietary strontium increases bone mineral density in intact zebrafish (Danio rerio): a potential model system for bone research. Zebrafish. 2010;7(3):267–73.
Li X, Cope MB, Johnson MS, Smith DL Jr, Nagy TR. Mild calorie restriction induces fat accumulation in female C57BL/6J mice. Obesity. 2010;18(3):456–62.
Secor SM, Nagy TR. Non-invasive measure of body composition of snakes using dual-energy X-ray absorptiometry. Comp Biochem Physiol A Mol Integr Physiol. 2003;136(2):379–89.
Warner DA, Johnson MS, Nagy TR. Validation of body condition indices and quantitative magnetic resonance in estimating body composition in a small lizard. J Exp Zool A Ecol Genet Physiol. 2016;325(9):588–97.
Johnson MS, Watts RJ, Hammer HS, Nagy TR, Watts SA. Validation of dual-energy X-ray absorptiometry to predict body composition of channel catfish Ictalurus punctatus. J World Aquac Soc. 2017;48(1):122–31.
Smith DL Jr, Yang Y, Hu HH, Zhai G, Nagy TR. Measurement of interscapular brown adipose tissue of mice in differentially housed temperatures by chemical-shift-encoded water-fat MRI. J Magn Reson Imaging. 2013;38(6):1425–33.
Kramer PA, Ravi S, Chacko B, Johnson MS, Darley-Usmar VM. A review of the mitochondrial and glycolytic metabolism in human platelets and leukocytes: implications for their use as bioenergetic biomarkers. Redox Biol. 2014;2:206–10.
Chacko BK, Kramer PA, Ravi S, et al. Methods for defining distinct bioenergetic profiles in platelets, lymphocytes, monocytes, and neutrophils, and the oxidative burst from human blood. Lab Invest. 2013;93(6):690–700.
Kramer PA, Chacko BK, Ravi S, Johnson MS, Mitchell T, Darley-Usmar VM. Bioenergetics and the oxidative burst: protocols for the isolation and evaluation of human leukocytes and platelets. J Vis Exp. 2014;(85):51301.
Ravi S, Mitchell T, Kramer PA, Chacko B, Darley-Usmar VM. Mitochondria in monocytes and macrophages-implications for translational and basic research. Int J Biochem Cell Biol. 2014;53:202–7.
Giordano S, Darley-Usmar V, Zhang J. Autophagy as an essential cellular antioxidant pathway in neurodegenerative disease. Redox Biol. 2014;2:82–90.
Zhang J. Autophagy and Mitophagy in Cellular Damage Control. Redox Biol. 2013;1(1):19–23.
Redmann M, Dodson M, Boyer-Guittaut M, Darley-Usmar V, Zhang J. Mitophagy mechanisms and role in human diseases. Int J Biochem Cell Biol. 2014;53C:127–33.
Kesterson RA, Johnson LW, Lambert LJ, Vivian JL, Welch DR, Ballinger SW. Generation of mitochondrial-nuclear eXchange Mice via Pronuclear Transfer. Bio Protoc. 2016;6(20):e1976.
Nicholls DG, Darley-Usmar VM, Wu M, Jensen PB, Rogers GW, Ferrick DA. Bioenergetic profile experiment using C2C12 myoblast cells. J Vis Exp. 2010;(46):2511.
Dranka BP, Benavides GA, Diers AR, et al. Assessing bioenergetic function in response to oxidative stress by metabolic profiling. Free Radic Biol Med. 2011;51(9):1621–35.
Salabei JK, Gibb AA, Hill BG. Comprehensive measurement of respiratory activity in permeabilized cells using extracellular flux analysis. Nat Protoc. 2014;9(2):421–38.
Levonen AL, Hill BG, Kansanen E, Zhang J, Darley-Usmar VM. Redox regulation of antioxidants, autophagy, and the response to stress: implications for electrophile therapeutics. Free Radic Biol Med. 2014;71:196–207.
Hill BG, Benavides GA, Lancaster JR Jr, et al. Integration of cellular bioenergetics with mitochondrial quality control and autophagy. Biol Chem. 2012;393(12):1485–512.
Acin-Perez R, Benador HY, Petcherski A, et al. A novel approach to measure mitochondrial respiration in previously frozen biological samples. EMBO J. 2020;39(13):e104073.
Chacko BK, Smith MR, Johnson MS, et al. Mitochondria in precision medicine; linking bioenergetics and metabolomics in platelets. Redox Biol. 2019;22:101165.
Ding WX, Yin XM. Mitophagy: mechanisms, pathophysiological roles, and analysis. Biol Chem. 2012;393(7):547–64.
Klionsky DJ, Abdelmohsen K, Abe A, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition). Autophagy. 2016;12(1):1–222.
Redmann M, Benavides GA, Wani WY, et al. Methods for assessing mitochondrial quality control mechanisms and cellular consequences in cell culture. Redox Biol. 2018;17:59–69.
Dodson M, Wani WY, Redmann M, et al. Regulation of autophagy, mitochondrial dynamics and cellular bioenergetics by 4-hydroxynonenal in primary neurons. Autophagy. 2017;13(11):1828–40.
Redmann M, Benavides GA, Berryhill TF, et al. Inhibition of autophagy with bafilomycin and chloroquine decreases mitochondrial quality and bioenergetic function in primary neurons. Redox Biol. 2016;11:73–81.
Dodson M, Liang Q, Johnson MS, et al. Inhibition of glycolysis attenuates 4-hydroxynonenal-dependent autophagy and exacerbates apoptosis in differentiated SH-SY5Y neuroblastoma cells. Autophagy. 2013;9(12):1996–2008.
Giordano S, Dodson M, Ravi S, et al. Bioenergetic adaptation in response to autophagy regulators during rotenone exposure. J Neurochem. 2014;131(5):625–33.
Roberts LJ, Milne GL. Isoprostanes. J Lipid Res. 2009;50 Suppl(Suppl):S219–23.
Prasain JK, Arabshahi A, Taub PR, et al. Simultaneous quantification of F2-isoprostanes and prostaglandins in human urine by liquid chromatography tandem-mass spectrometry. J Chromatogr B Analyt Technol Biomed Life Sci. 2013;913–914:161–8.
Higdon A, Diers AR, Oh JY, Landar A, Darley-Usmar VM. Cell signalling by reactive lipid species: new concepts and molecular mechanisms. Biochem J. 2012;442(3):453–64.
Boyer-Guittaut M, Poillet L, Liang Q, et al. The role of GABARAPL1/GEC1 in autophagic flux and mitochondrial quality control in MDA-MB-436 breast cancer cells. Autophagy. 2014;10(6):986–1003.
Koike M, Shibata M, Waguri S, et al. Participation of autophagy in storage of lysosomes in neurons from mouse models of neuronal ceroid-lipofuscinoses (Batten disease). Am J Pathol. 2005;167(6):1713–28.
Uppal K, Ma C, Go YM, Jones DP, Wren J. xMWAS: a data-driven integration and differential network analysis tool. Bioinformatics. 2018;34(4):701–2.
Go YM, Fernandes J, Hu X, Uppal K, Jones DP. Mitochondrial network responses in oxidative physiology and disease. Free Rad Biol Med. 2018;116:31–40.
Hill BG, Shiva S, Ballinger S, Zhang J, Darley-Usmar VM. Bioenergetics and translational metabolism: implications for genetics, physiology and precision medicine. Biol Chem. 2019;401(1):3–29.
Fetterman JL, Zelickson BR, Johnson LW, et al. Mitochondrial genetic background modulates bioenergetics and susceptibility to acute cardiac volume overload. Biochem J. 2013;455(2):157–67.
Feeley KP, Bray AW, Westbrook DG, et al. Mitochondrial genetics regulate breast cancer tumorigenicity and metastatic potential. Cancer Res. 2015;75(20):4429–36.
Dunham-Snary KJ, Sandel MW, Sammy MJ, et al. Mitochondrial - nuclear genetic interaction modulates whole body metabolism, adiposity and gene expression in vivo. EBioMed. 2018;36:316–28.
Kandasamy J, Rezonzew G, Jilling T, Ballinger SW, Ambalavanan N. Mitochondrial DNA variation modulates alveolar development in newborn mice exposed to hyperoxia. Am J Physiol Lung Cell Mol Physiol. 2019;317(6):L740–7.
Dunham-Snary KJ, Ballinger SW. GENETICS Mitochondrial-nuclear DNA mismatch matters. Science. 2015;349(6255):1449–50.
Fetterman JL, Ballinger SW. Mitochondrial genetics regulate nuclear gene expression through metabolites. Proc Natl Acad Sci U S A. 2019;116(32):15763–5.
Yu X, Gimsa U, Wester-Rosenlof L, et al. Dissecting the effects of mtDNA variations on complex traits using mouse conplastic strains. Genome Res. 2009;19(1):159–65.
West AP, Shadel GS, Ghosh S. Mitochondria in innate immune responses. Nat Rev Immunol. 2011;11(6):389–402.
West AP, Shadel GS. Mitochondrial DNA in innate immune responses and inflammatory pathology. Nat Rev Immunol. 2017;17(6):363–75.
Feldman N, Rotter-Maskowitz A, Okun E. DAMPs as mediators of sterile inflammation in aging-related pathologies. Ageing Res Rev. 2015;24(Pt A):29–39.
Venereau E, Ceriotti C, Bianchi ME. DAMPs from Cell Death to New Life. Front Immunol. 2015;6:422.
Brown AW, Kaiser KA, Allison DB. Issues with data and analyses: errors, underlying themes, and potential solutions. Proc Natl Acad Sci U S A. 2018;115(11):2563–70.
Allison DB, Brown AW, George BJ, Kaiser KA. Reproducibility: a tragedy of errors. Nature. 2016;530(7588):27–9.
CoRaRi S. Reproducibility and Replicability in Science. Washington: National Academies Press; 2019.
Casazza K, Hanks LJ, Beasley TM, Fernandez JR. Beyond thriftiness: independent and interactive effects of genetic and dietary factors on variations in fat deposition and distribution across populations. Am J Phys Anthropol. 2011;145(2):181–91.
Cope MB, Li X, Jumbo-Lucioni P, et al. Risperidone alters food intake, core body temperature, and locomotor activity in mice. Physiol Behav. 2009;96(3):457–63.
Klimentidis YC, Aissani B, Shriver MD, Allison DB, Shrestha S. Natural selection among Eurasians at genomic regions associated with HIV-1 control. BMC Evol Biol. 2011;11:173.
Willig AL, Hunter GR, Casazza K, Heimburger DC, Beasley TM, Fernandez JR. Body fat and racial genetic admixture are associated with aerobic fitness levels in a multiethnic pediatric population. Obesity. 2011;19(11):2222–7.
Klimentidis YC, Beasley TM, Lin HY, et al. Canaries in the coal mine: a cross-species analysis of the plurality of obesity epidemics. Proc Biol Sci R Soc. 2011;278(1712):1626–32.
Beasley TM. Tests of mediation: paradoxical decline in statistical power as a function of mediator collinearity. J Exp Educ. 2014;82(3):283–306.
Makowsky R, Beasley TM, Gadbury GL, Albert JM, Kennedy RE, Allison DB. Validity and power of missing data imputation for extreme sampling and terminal measures designs in mediation analysis. Front Genet. 2011;2:75.
Ejima K, Pavela G, Li P, Allison DB. Generalized lambda distribution for flexibly testing differences beyond the mean in the distribution of a dependent variable such as body mass index. Int J Obes. 2018;42(4):930–3.
Sarkis-Onofre R, Poletto-Neto V, Cenci MS, Moher D, Pereira-Cenci T. CONSORT endorsement improves the quality of reports of randomized clinical trials in dentistry. J Clin Epidemiol. 2020;122:20–6.
Percie du Sert N, Hurst V, Ahluwalia A, et al. The ARRIVE guidelines 2.0: updated guidelines for reporting animal research. J Physiol. 2020;598(18):3793–801.
Page MJ, McKenzie JE, Bossuyt PM, et al. The PRISMA 2020 statement: an updated guideline for reporting systematic reviews. Int J Surg. 2021;88:105906.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
About this article
Cite this article
Austad, S.N., Buford, T.W., Allison, D.B. et al. University of Alabama at Birmingham Nathan Shock Center: comparative energetics of aging . GeroScience 43, 2149–2160 (2021). https://doi.org/10.1007/s11357-021-00414-1