GSM7919318: Female, dnd1 mutant, old sample 13; Nothobranchius furzer... - SRA

SRX22655694: GSM7919318: Female, dnd1 mutant, old sample 13; Nothobranchius furzeri; RNA-Seq
1 ILLUMINA (NextSeq 2000) run: 37.1M spots, 2.6G bases, 823.3Mb downloads

External Id: GSM7919318_r1

Submitted by: Harel, Genetics, The Hebrew University of Jerusalem

Study: The germline regulates longevity and somatic repair in a sex-specific manner (RNA-Seq)

PRJNA1045687 • SRP474492 • All experiments • All runs

show Abstracthide Abstract

Classical evolutionary theories propose tradeoffs between reproduction, damage repair, and lifespan. However, the specific role of the germline in shaping vertebrate aging remains largely unknown. Here, we use the turquoise killifish (N. furzeri) to genetically arrest germline differentiation at discrete stages, and examine how different 'flavors' of infertility impact life-history. We first constructed a comprehensive single-cell gonadal atlas, providing cell-type-specific markers for downstream phenotypic analysis. Next, investigating our genetic models revealed that only germline ablation enhanced female damage repair, while arresting germline differentiation did not. Conversely, germline-ablated males were significantly long-lived, indicating that the mere presence of the germline can negatively affect lifespan. Transcriptomic analysis highlighted enrichment of pro-longevity pathways and genes, with functional conservation in germline-ablated C. elegans. Finally, germline depletion extended male healthspan through rejuvenated metabolic functions. Our results suggest that different germline manipulation paradigms can yield pronounced sexually dimorphic phenotypes, implying alternative mechanisms to classical evolutionary tradeoffs. Overall design: Livers from killifish were used, and each group varied by sex (males or females), age (young or old), and genotype (wild-type or dnd1 mutant).

Sample: Female, dnd1 mutant, old sample 13

SAMN38454071 • SRS19651940 • All experiments • All runs

Organism: Nothobranchius furzeri

Library:

Name: GSM7919318

Instrument: NextSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: Fish were euthanized in 500 mg/L of Tricaine (Sigma-Aldrich, A5040) in system water. Dissections were carried out under a stereo binocular (Leica S9D) at room temperature. Livers were collected and flash frozen in liquid nitrogen and kept in -80°C until use. Tissues were homogenized by metal beads in 300 μl of TRI reagent (Sigma-Aldrich, T9424), using a TissueLyzer LT (QIAGEN, #85600) with a dedicated adaptor (QIAGEN, #69980). RNA purification was performed using the Direct-zol RNA Miniprep kit (Zymo, R2052) according to the manufacturer's instructions. RNA concentration and quality were determined by using an Agilent 2100 bioanalyser (Agilent Technologies). Library preparation was performed using KAPA Stranded mRNA-Seq Kit (ROCHE-07962193001) according to the recommended protocols. Library quantity and pooling were measured by Qubit (dsDNA HS, Q32854), Size selection at 4% agarose gel. Library quality was measured by Tape Station (HS, 5067-5584). Libraries were sequenced by NextSeq 2000 P3, 50 cycle, 70 bp single-end (Illumina, 20046810) with ~35 million reads per sample.

Runs: 1 run, 37.1M spots, 2.6G bases, 823.3Mb

Run	# of Spots	# of Bases	Size	Published
SRR26961988	37,144,065	2.6G	823.3Mb	2024-03-06

ID:: 30668489

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