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Daphnia magna egg piRNA cluster expression profiles change as mothers age
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Daphnia magna egg piRNA cluster expression profiles change as mothers age
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Journal Article
Daphnia magna egg piRNA cluster expression profiles change as mothers age
2022
Overview
Background
PiRNAs prevent transposable elements wreaking havoc on the germline genome. Changes in piRNA expression over the lifetime of an individual may impact on ageing through continued suppression, or release, of transposable element expression. We identified piRNA producing clusters in the genome of
Daphnia magna
by a combination of bioinformatic methods, and then contrasted their expression between parthenogenetically produced eggs representing maternally-deposited germline piRNAs of young (having their 1
st
clutch) and old (having their 5
th
clutch) mothers. Results from eggs were compared to cluster expression in three generations of adults.
Results
As for other arthropods,
D. magna
encodes long uni-directionally transcribed non-coding RNAs consisting of fragmented transposable elements which account for most piRNAs expressed. Egg tissues showed extensive differences between clutches from young mothers and those from old mothers, with 578 and 686 piRNA clusters upregulated, respectively. Most log fold-change differences for significant clusters were modest, however. When considering only highly expressed clusters, there was a bias towards 1
st
clutch eggs at 41 upregulated versus eight clusters in the eggs from older mothers. F
0
generation differences between young and old mothers were fewer than eggs, as 179 clusters were up-regulated in young versus 170 old mothers. This dropped to 31 versus 22 piRNA clusters when comparing adults in the F
1
generation, and no differences were detected in the F
3
generation. Inter-generational losses of differential piRNA cluster were similar to that observed for
D. magna
micro-RNA expression.
Conclusions
Little overlap in differentially expressed clusters was found between adults containing mixed somatic and germline (ovary) tissues and germ-line representing eggs. A cluster encompassing a Tudor domain containing gene important in the piRNA pathway was upregulated in the eggs from old mothers. We hypothesise that regulation of this gene could form part of a feedback loop that reduces piRNA pathway activity explaining the reduced number of highly-expressed clusters in eggs from old mothers.
Publisher
BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
Subject
/ Age
/ Ageing
/ Aging
/ Analysis
/ Animal Genetics and Genomics
/ Animals
/ Bias
/ Biomedical and Life Sciences
/ Clusters
/ Control
/ Daphnia
/ DNA Transposable Elements - genetics
/ Eggs
/ Female
/ Genomes
/ Genomics
/ Humans
/ Identification and classification
/ Insects
/ Methods
/ Microbial Genetics and Genomics
/ Mothers
/ piRNA
/ Proteins
/ RNA, Small Interfering - genetics
