LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes
<i>Trypanosoma brucei</i> is a parasitic protist that causes African sleeping sickness. The establishment of <i>T. brucei</i> cell lines has provided a significant advantage for the majority of <i>T. brucei</i> research. However, these cell lines were isolated and...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-01-01
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| Series: | Non-Coding RNA |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2311-553X/8/1/7 |
| _version_ | 1797477535148146688 |
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| author | Hyung Chul Kim Emmitt R. Jolly |
| author_facet | Hyung Chul Kim Emmitt R. Jolly |
| author_sort | Hyung Chul Kim |
| collection | DOAJ |
| description | <i>Trypanosoma brucei</i> is a parasitic protist that causes African sleeping sickness. The establishment of <i>T. brucei</i> cell lines has provided a significant advantage for the majority of <i>T. brucei</i> research. However, these cell lines were isolated and maintained in culture for decades, occasionally accumulating changes in gene expression. Since trypanosome strains have been maintained in culture for decades, it is possible that difference may have accumulated in fast-evolving non-coding RNAs between trypanosomes from the wild and those maintained extensively in cultures. To address this, we compared the lncRNA expression profile of trypanosomes maintained as cultured cell lines (CL) to those extracted from human patients, wildtype (WT). We identified lncRNAs from CL and WT from available transcriptomic data and demonstrate that CL and WT have unique sets of lncRNAs expressed. We further demonstrate that the unique and shared lncRNAs are differentially expressed between CL and WT parasites, and that these lncRNAs are more evenly up-regulated and down-regulated than protein-coding genes. We validated the expression of these lncRNAs using qPCR. Taken together, this study demonstrates that lncRNAs are differentially expressed between cell lines and wildtype <i>T. brucei</i> and provides evidence for potential evolution of lncRNAs, specifically in <i>T. brucei</i> maintained in culture. |
| first_indexed | 2024-03-09T21:19:03Z |
| format | Article |
| id | doaj.art-9a46c3ff72574d8ca652d1a9f0ad1bbf |
| institution | Directory Open Access Journal |
| issn | 2311-553X |
| language | English |
| last_indexed | 2024-03-09T21:19:03Z |
| publishDate | 2022-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Non-Coding RNA |
| spelling | doaj.art-9a46c3ff72574d8ca652d1a9f0ad1bbf2023-11-23T21:27:11ZengMDPI AGNon-Coding RNA2311-553X2022-01-0181710.3390/ncrna8010007LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African TrypanosomesHyung Chul Kim0Emmitt R. Jolly1Department of Biology, Case Western Reserve University, Cleveland, OH 44106, USADepartment of Biology, Case Western Reserve University, Cleveland, OH 44106, USA<i>Trypanosoma brucei</i> is a parasitic protist that causes African sleeping sickness. The establishment of <i>T. brucei</i> cell lines has provided a significant advantage for the majority of <i>T. brucei</i> research. However, these cell lines were isolated and maintained in culture for decades, occasionally accumulating changes in gene expression. Since trypanosome strains have been maintained in culture for decades, it is possible that difference may have accumulated in fast-evolving non-coding RNAs between trypanosomes from the wild and those maintained extensively in cultures. To address this, we compared the lncRNA expression profile of trypanosomes maintained as cultured cell lines (CL) to those extracted from human patients, wildtype (WT). We identified lncRNAs from CL and WT from available transcriptomic data and demonstrate that CL and WT have unique sets of lncRNAs expressed. We further demonstrate that the unique and shared lncRNAs are differentially expressed between CL and WT parasites, and that these lncRNAs are more evenly up-regulated and down-regulated than protein-coding genes. We validated the expression of these lncRNAs using qPCR. Taken together, this study demonstrates that lncRNAs are differentially expressed between cell lines and wildtype <i>T. brucei</i> and provides evidence for potential evolution of lncRNAs, specifically in <i>T. brucei</i> maintained in culture.https://www.mdpi.com/2311-553X/8/1/7trypanosomalncRNAnon-coding RNAparasitedifferential expressionsplicing |
| spellingShingle | Hyung Chul Kim Emmitt R. Jolly LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes Non-Coding RNA trypanosoma lncRNA non-coding RNA parasite differential expression splicing |
| title | LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes |
| title_full | LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes |
| title_fullStr | LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes |
| title_full_unstemmed | LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes |
| title_short | LncRNAs Are Differentially Expressed between Wildtype and Cell Line Strains of African Trypanosomes |
| title_sort | lncrnas are differentially expressed between wildtype and cell line strains of african trypanosomes |
| topic | trypanosoma lncRNA non-coding RNA parasite differential expression splicing |
| url | https://www.mdpi.com/2311-553X/8/1/7 |
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