A Minimally Invasive Method for Monitoring Age-Associated Changes in Gene Expression in Fish Nothobranchius guentheri

V. V. Volodin; Володин В. В.; N. S. Gladysh; Гладыш Н. С.; E. V. Bulavkina; Булавкина Е. В.; A. V. Snezhkina; Снежкина А. В.; G. M. Aliper; Алипер Г. М.; E. Y. Krysanov; Крысанов Е. Ю.; P. S. Grechishkina; Гречишкина П. С.; V. S. Fadeev; Фадеев В. С.; A. A. Kudryavtsev; Кудрявцев А. А.; A. L. Nikiforov-Nikishin; Никифоров-Никишин Д. Л.; N. I. Kochetkov; Кочетков Н. И.; A. A. Moskalev; Москалев А. А.; G. S. Krasnov; Краснов Г. С.; A. V. Kudryavtseva; Кудрявцева А. В.

doi:10.7868/S3034510325090072

A Minimally Invasive Method for Monitoring Age-Associated Changes in Gene Expression in Fish Nothobranchius guentheri

Authors: Volodin V.V.¹, Gladysh N.S.¹^,2, Bulavkina E.V.¹, Snezhkina A.V.¹, Aliper G.M.¹, Krysanov E.Y.³, Grechishkina P.S.¹^,2, Fadeev V.S.¹, Kudryavtsev A.A.¹^,4, Nikiforov-Nikishin A.L.⁴, Kochetkov N.I.⁴, Moskalev A.A.¹, Krasnov G.S.¹, Kudryavtseva A.V.¹
Affiliations:
1. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences
2. National Research University Higher School of Economics, Department of Biology and Biotechnology
3. Severtsov Institute for Problems of Ecology and Evolution, Russian Academy of Sciences
4. Razumovsky Moscow State University of Technology and Management
Issue: Vol 61, No 9 (2025)
Pages: 78-85
Section: ГЕНЕТИКА ЖИВОТНЫХ
URL: https://journals.rcsi.science/0016-6758/article/view/353930
DOI: https://doi.org/10.7868/S3034510325090072
ID: 353930

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Abstract

Fish of the genus Nothobranchius are a unique model object of longevity genetics due to their short life span. They are especially promising for testing geroprotectors. However, the small size of the fish does not allow for dynamic evaluation of parameters reflecting aging rate and response to experimental effects on the same individual. The aim of the study was to develop an approach for minimally invasive monitoring of age-related changes in a model of Nothobranchius guentheri. The caudal fin transcriptomes of female and male Nothobranchius guentheri of different ages, including those regenerated after resection, were sequenced. Differential gene expression was analysed. Gene expression profiles in caudal fins of Nothobranchius guentheri, regenerated once or twice, do not differ significantly when compared with intact fins. The results obtained open new prospects for minimally invasive monitoring of age-dependent changes in the organism at the molecular-genetic level, including the study of potential geroprotectors.

Keywords

Nothobranchius, RNA sequencing, differential expression, transcriptome, aging

References

Levine M.E., Lu A.T., Quach A. et al. An epigenetic biomarker of aging for lifespan and healthspan // Aging. 2018. V. 10. № 4. P. 573–591. https://doi.org/10.18632/aging.101414
Horvath S. DNA methylation age of human tissues and cell types // Genome Biol. 2013. V. 14. № 10. P. 3156. https://doi.org/10.1186/gb-2013-14-10-r115
Horvath S., Haghani A., Peng S. et al. DNA methylation aging and transcriptomic studies in horses: 1 // Nat. Commun. 2022. V. 13. № 1. P. 40. https://doi.org/10.1038/s41467-021-27754-y
Thompson M.J., von Holdt B., Horvath S. et al. An epigenetic aging clock for dogs and wolves // Aging. 2017. V. 9. № 3. P. 1055–1068. https://doi.org/10.18632/aging.101211
Prado N.A., Brown J.L., Zoller J.A. et al. Epigenetic clock and methylation studies in elephants // Aging Cell. 2021. V. 20. № 7. https://doi.org/10.1111/acel.13414
Raj K., Szladovits B., Haghani A. et al. Epigenetic clock and methylation studies in cats // GeroScience. 2021. V. 43. № 5. P. 2363–2378. https://doi.org/10.1007/s11357-021-00445-8
Bors E.K., Baker C.S., Wade P.R. et al. An epigenetic clock to estimate the age of living beluga whales // Evol. Applications. 2021. V. 14. № 5. P. 1263–1273. https://doi.org/10.1111/eva.13195
Mayne B., Mustin W., Baboolal V. et al. Age prediction of green turtles with an epigenetic clock // Mol. Ecol. Res. 2022. V. 22. № 6. P. 2275–2284. https://doi.org/10.1111/1755-0998.13621
Jasinska A.J., Haghani A., Zoller J.A. et al. Epigenetic clock and methylation studies in vervet monkeys // GeroScience. 2022. V. 44. № 2. P. 699–717. https://doi.org/10.1007/s11357-021-00466-3
Meyer D.H., Schumacher B. BiT age: A transcriptome-based aging clock near the theoretical limit of accuracy // Aging Cell. 2021. V. 20. № 3. https://doi.org/10.1111/acel.13320
Mayne B., Korbie D., Kenchington L. et al. A DNA methylation age predictor for zebrafish // Aging. 2020. V. 12. № 24. P. 24817–24835. https://doi.org/10.18632/aging.202400
Cowell J.K. LGI1: From zebrafish to human epilepsy // Prog. Brain Res. 2014. V. 213. P. 159–179. https://doi.org/ 10.1016/B978-0-444-63326-2.00009-0
Clark K.J., Boczek N.J. Stressing zebrafish for beha- vioral genetics // Revneuro. 2011. V. 22. № 1. P. 49–62. https://doi.org/10.1515/rns.2011.007
Poss K.D., Keating M.T., Nechiporuk A. Tales of regeneration in zebrafish // Develop. Dynamics. 2003. V. 226. № 2. P. 202–210. https://doi.org/10.1002/dvdy.10220
Yu L., Tucci V., Kishi S. et al. Cognitive аging in zebrafish // PLоS One. 2006. V. 1. № 1. https://doi.org/10.1371/journal.pone.0000014
Lucas-Sánchez A. Nothobranchius as a model for aging studies. A review // Аging Dis. 2014. https://doi.org/10.14336/ad.2014.0500281
Dolfi L., Ripa R., Medelbekova D. et al. Nonlethal blood sampling from the killifish Nothobranchius furzeri // Cold Spring Harb. Protoc. 2023. V. 2023. № 8. https://doi.org/10.1101/pdb.prot107745
Bauer M.E. Chronic stress and immunosenescence: A review // Neuroimmunomodulation. 2008. V. 15. № 4–6. P. 241–250. https://doi.org/10.1159/000156467
Palma-Gudiel H., Fañanás L., Horvath S. et al. Psychosocial stress and epigenetic aging // Int. Rev. Neurobiology. 2020. V. 150. P. 107–128. https://doi.org/10.1016/bs.irn.2019.10.020
Beery A.K., Lin J., Biddle J.S. et al. Chronic stress elevates telomerase activity in rats // Biol. Lett. 2012. V. 8. № 6. P. 1063–1066. https://doi.org/10.1098/rsbl.2012.0747
Bakhtogarimov I.R., Kudryavtseva A.V., Krasnov G.S. et al. The effect of meclofenoxate on the transcriptome of aging brain of Nothobranchius guentheri annual killifish // IJMS. 2022. V. 23. № 5. https://doi.org/10.3390/ijms23052491
Bushmanova E., Antipov D., Lapidus A. et al. rnaQUAST: A quality assessment tool for de novo transcriptome assemblies // Bioinformatics. 2016. V. 32. № 14. P. 2210–2212. https://doi.org/10.1093/bioinformatics/btw218
Li B., Dewey C.N. RSEM: Accurate transcript quantification from RNA-Seq data with or without a reference genome // BMC Bioinformatics. 2011. V. 12. № 1. https://doi.org/10.1186/1471-2105-12-323

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A Minimally Invasive Method for Monitoring Age-Associated Changes in Gene Expression in Fish Nothobranchius guentheri

Full Text

Abstract

Keywords

About the authors

References

Supplementary files