Screening and stability analysis of housekeeping genes for transcriptomic studies for Danio rerio (Zebrafish) at early developmental stages

Partevian SA, Safina DR, Rybolovlev IN, et al. . Screening and stability analysis of housekeeping genes for transcriptomic studies for Danio rerio (Zebrafish) at early developmental stages. Molecular Genetics, Microbiology and Virology. 2024;42(2):32‑38. (In Russ.)
https://doi.org/10.17116/molgen20244202132

Подписка 2026 Молекулярная генетика, микробиология и вирусология (Molecular Genetics, Microbiology and Virology)

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INTRODUCTION

The Danio rerio (D. rerio) is one of the advanced targets for modelling pathological conditions. A large amount of such work in this case is carried out at the transcriptomic level. Transcriptomic studies require the use of stable housekeeping genes (HKG), so we selected candidate HKG and analyzed their stability in D. rerio under normal conditions.

MATHERIAL AND METHODS

The work was carried out using D. rerio (line AB) whose embryos were sampled at three time points: hatching stage (2 days post-fertilisation, dpf), early larvae stages (5 dpf and 9 dpf). The expression levels of HKGs were analyzed using real-time PCR. Further analysis of the obtained Ct results was performed in RefFinder software.

RESULTS

Different HKGs are suitable for assessing gene expression changes at different developmental stages of D.rerio. aars1 and polr2f is the optimal pair of HKGs at the hatching stage (2 dpf), aars1 and psmd6 are most suitable for the early larvae stage (5 dpf), bcat2 and actb1 are most suitable for 9 dpf. During the transcriptomic studies at several developmental stages simultaneously, it is necessary to use a single selected pair of HKGs for all investigated stages of development of D.rerio: aars1 and lsm12b.

CONCLUSION

According to the data obtained, aars1 and lsm12b are the most stable HKGs for all studied early developmental stages of D.rerio. In addition, we have shown for the first time that aars1 is the most stable HKG for the early stages of development. The second most stable HKG is lsm12b. Our data about the stability of the lsm12b gene are consistent with previously published data.

Keywords:

Danio rerio

transcriptome analysis

real-time PCR

housekeeping genes

gene expression

Authors:

Partevian S.A.

National Research Center «Kurchatov Institute»

ORCID: 0000-0001-7691-7796

Safina D.R.

National Research Center «Kurchatov Institute»

ORCID: 0000-0001-9664-1766

Rybolovlev I.N.

National Research Center «Kurchatov Institute»

ORCID: 0000-0002-6768-2152

Rudenok M.M.

National Research Center «Kurchatov Institute»

ORCID: 0000-0002-6524-9101

Kostrov S.V.

National Research Center «Kurchatov Institute»

ORCID: 0000-0002-8512-7857

Shadrina M.I.

National Research Center «Kurchatov Institute»

ORCID: 0000-0002-4544-6183

Slominsky P.A.

National Research Center «Kurchatov Institute»

ORCID: 0000-0003-3530-0655

Alieva A.Kh.

National Research Center «Kurchatov Institute»

ORCID: 0000-0002-6200-4491

Received:

01.02.2024

Accepted:

15.03.2024

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