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Banse SA, Lucanic M, Sedore CA, Coleman-Hulbert AL, Plummer WT, Chen E, Kish JL, Hall D, Onken B, Presley MP, Jones EG, Blue BW, Garrett T, Abbott M, Xue J, Guo S, Johnson E, Foulger AC, Chamoli M, Falkowski R, Melentijevic I, Harinath G, Huynh P, Patel S, Edgar D, Jarrett CM, Guo M, Kapahi P, Lithgow GJ, Driscoll M, Phillips PC. Automated lifespan determination across Caenorhabditis strains and species reveals assay-specific effects of chemical interventions. GeroScience 2019; 41:945-960. [PMID: 31820364 PMCID: PMC6925072 DOI: 10.1007/s11357-019-00108-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2019] [Accepted: 09/16/2019] [Indexed: 02/01/2023] Open
Abstract
The goal of the Caenorhabditis Intervention Testing Program is to identify robust and reproducible pro-longevity interventions that are efficacious across genetically diverse cohorts in the Caenorhabditis genus. The project design features multiple experimental replicates collected by three different laboratories. Our initial effort employed fully manual survival assays. With an interest in increasing throughput, we explored automation with flatbed scanner-based Automated Lifespan Machines (ALMs). We used ALMs to measure survivorship of 22 Caenorhabditis strains spanning three species. Additionally, we tested five chemicals that we previously found extended lifespan in manual assays. Overall, we found similar sources of variation among trials for the ALM and our previous manual assays, verifying reproducibility of outcome. Survival assessment was generally consistent between the manual and the ALM assays, although we did observe radically contrasting results for certain compound interventions. We found that particular lifespan outcome differences could be attributed to protocol elements such as enhanced light exposure of specific compounds in the ALM, underscoring that differences in technical details can influence outcomes and therefore interpretation. Overall, we demonstrate that the ALMs effectively reproduce a large, conventionally scored dataset from a diverse test set, independently validating ALMs as a robust and reproducible approach toward aging-intervention screening.
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Affiliation(s)
- Stephen A. Banse
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | - Mark Lucanic
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Christine A. Sedore
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | | | - W. Todd Plummer
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Esteban Chen
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Jason L. Kish
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - David Hall
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Brian Onken
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | | | - E. Grace Jones
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | - Benjamin W. Blue
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | - Theo Garrett
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Mark Abbott
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Jian Xue
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Suzhen Guo
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Erik Johnson
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | - Anna C. Foulger
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Manish Chamoli
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Ron Falkowski
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Ilija Melentijevic
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Girish Harinath
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Phu Huynh
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Shobhna Patel
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Daniel Edgar
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | - Cody M. Jarrett
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
| | - Max Guo
- Division of Aging Biology, National Institute on Aging, Bethesda, MD 20892-9205 USA
| | - Pankaj Kapahi
- The Buck Institute for Research on Aging, Novato, CA 94945 USA
| | | | - Monica Driscoll
- Department of Molecular Biology and Biochemistry, Nelson Biological Laboratories, Rutgers University, Piscataway, NJ 08854 USA
| | - Patrick C. Phillips
- Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403 USA
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Lucanic M, Plummer WT, Chen E, Harke J, Foulger AC, Onken B, Coleman-Hulbert AL, Dumas KJ, Guo S, Johnson E, Bhaumik D, Xue J, Crist AB, Presley MP, Harinath G, Sedore CA, Chamoli M, Kamat S, Chen MK, Angeli S, Chang C, Willis JH, Edgar D, Royal MA, Chao EA, Patel S, Garrett T, Ibanez-Ventoso C, Hope J, Kish JL, Guo M, Lithgow GJ, Driscoll M, Phillips PC. Impact of genetic background and experimental reproducibility on identifying chemical compounds with robust longevity effects. Nat Commun 2017; 8:14256. [PMID: 28220799 PMCID: PMC5321775 DOI: 10.1038/ncomms14256] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Accepted: 12/13/2016] [Indexed: 12/19/2022] Open
Abstract
Limiting the debilitating consequences of ageing is a major medical challenge of our time. Robust pharmacological interventions that promote healthy ageing across diverse genetic backgrounds may engage conserved longevity pathways. Here we report results from the Caenorhabditis Intervention Testing Program in assessing longevity variation across 22 Caenorhabditis strains spanning 3 species, using multiple replicates collected across three independent laboratories. Reproducibility between test sites is high, whereas individual trial reproducibility is relatively low. Of ten pro-longevity chemicals tested, six significantly extend lifespan in at least one strain. Three reported dietary restriction mimetics are mainly effective across C. elegans strains, indicating species and strain-specific responses. In contrast, the amyloid dye ThioflavinT is both potent and robust across the strains. Our results highlight promising pharmacological leads and demonstrate the importance of assessing lifespans of discrete cohorts across repeat studies to capture biological variation in the search for reproducible ageing interventions.
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Affiliation(s)
- Mark Lucanic
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - W Todd Plummer
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Esteban Chen
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Jailynn Harke
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Anna C Foulger
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Brian Onken
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | | | - Kathleen J Dumas
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Suzhen Guo
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Erik Johnson
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Dipa Bhaumik
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Jian Xue
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Anna B Crist
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Michael P Presley
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Girish Harinath
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Christine A Sedore
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Manish Chamoli
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Shaunak Kamat
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Michelle K Chen
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Suzanne Angeli
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Christina Chang
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - John H Willis
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
| | - Daniel Edgar
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Mary Anne Royal
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Elizabeth A Chao
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Shobhna Patel
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Theo Garrett
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Carolina Ibanez-Ventoso
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - June Hope
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Jason L Kish
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Max Guo
- Division of Aging Biology, National Institute on Aging, 7201 Wisconsin Avenue, Bethesda, Maryland 20892-9205, USA
| | - Gordon J Lithgow
- The Buck Institute for Research on Aging, 8001 Redwood Boulevard, Novato, California 94945, USA
| | - Monica Driscoll
- Nelson Biological Laboratories, Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Patrick C Phillips
- Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon 97403, USA
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