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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MDPI AG
2022-03-01
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| author | Marek Kazimierczyk Marta Wojnicka Ewa Biała Paulina Żydowicz-Machtel Barbara Imiołczyk Tomasz Ostrowski Anna Kurzyńska-Kokorniak Jan Wrzesinski |
| author_facet | Marek Kazimierczyk Marta Wojnicka Ewa Biała Paulina Żydowicz-Machtel Barbara Imiołczyk Tomasz Ostrowski Anna Kurzyńska-Kokorniak Jan Wrzesinski |
| author_sort | Marek Kazimierczyk |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-03-09T11:47:08Z |
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| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-09T11:47:08Z |
| publishDate | 2022-03-01 |
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| series | International Journal of Molecular Sciences |
| spelling | doaj.art-0d89f7b1f43442618ff236f154aa72302023-11-30T23:19:57ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-03-01237364410.3390/ijms23073644Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF BiogenesisMarek Kazimierczyk0Marta Wojnicka1Ewa Biała2Paulina Żydowicz-Machtel3Barbara Imiołczyk4Tomasz Ostrowski5Anna Kurzyńska-Kokorniak6Jan Wrzesinski7Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandInstitute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznań, PolandtRNA-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.https://www.mdpi.com/1422-0067/23/7/3644renal cellstRNA-derived fragmenttRFDicerNorthern blot |
| spellingShingle | Marek Kazimierczyk Marta Wojnicka Ewa Biała Paulina Żydowicz-Machtel Barbara Imiołczyk Tomasz Ostrowski Anna Kurzyńska-Kokorniak Jan Wrzesinski Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis International Journal of Molecular Sciences renal cells tRNA-derived fragment tRF Dicer Northern blot |
| title | Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis |
| title_full | Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis |
| title_fullStr | Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis |
| title_full_unstemmed | Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis |
| title_short | Characteristics of Transfer RNA-Derived Fragments Expressed during Human Renal Cell Development: The Role of Dicer in tRF Biogenesis |
| title_sort | characteristics of transfer rna derived fragments expressed during human renal cell development the role of dicer in trf biogenesis |
| topic | renal cells tRNA-derived fragment tRF Dicer Northern blot |
| url | https://www.mdpi.com/1422-0067/23/7/3644 |
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