Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis

tRNA-derived fragments participate in the regulation of many processes, such as gene silencing, splicing and translation in many organisms, ranging from bacteria to humans. We were interested to know how tRF abundance changes during the different stages of renal cell development. The research model...

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Bibliographic Details
Published in:International journal of molecular sciences 2022-03, Vol.23 (7), p.3644
Main Authors: Kazimierczyk, Marek, Wojnicka, Marta, Biała, Ewa, Żydowicz-Machtel, Paulina, Imiołczyk, Barbara, Ostrowski, Tomasz, Kurzyńska-Kokorniak, Anna, Wrzesinski, Jan
Format: Article
Language:English
Subjects:
Adult
Amino acids
Biosynthesis
Breast cancer
Cell culture
Computational Biology
Dicer
Embryo cells
Embryos
Fragments
Gene expression
Gene silencing
Genomes
Humans
Hypoxia
Kidney - metabolism
Kidneys
Northern blot
Nuclease
Proteins
renal cells
RNA, Transfer - genetics
RNA, Transfer - metabolism
Splicing
Stem cells
Transfer RNA
tRF
tRNA
tRNA-derived fragment
Tumor cells
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Summary:tRNA-derived fragments participate in the regulation of many processes, such as gene silencing, splicing and translation in many organisms, ranging from bacteria to humans. We were interested to know how tRF abundance changes during the different stages of renal cell development. The research model used here consisted of the following human renal cells: hESCs, HEK-293T, HK-2 and A-489 kidney tumor cells, which, together, mimic the different stages of kidney development. The characteristics of the most abundant tRFs, tRFGly(CCC), tRFVal(AAC) and tRFArg(CCU), were presented. It was found that these parental tRNAs present in cells are the source of many tRFs, thus increasing the pool of potential regulatory RNAs. Indeed, a bioinformatic analysis showed the possibility that tRFGly(CCC) and tRRFVal(AAC) could regulate the activity of a range of kidney proteins. Moreover, the distribution of tRFs and the efficiency of their expression is similar in adult and embryonic stem cells. During the formation of tRFs, HK-2 cells resemble A-498 cancer cells more than other cells. Additionally, we postulate the involvement of Dicer nuclease in the formation of tRF-5b in all the analyzed tRNAs. To confirm this, 293T NoDice cells, which in the absence of Dicer activity do not generate tRF-5b, were used.
ISSN:1422-0067
1661-6596
1422-0067
DOI:10.3390/ijms23073644