LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq

Wilson Mckerrow; Larisa Kagermazova; Nicole Doudican; Nicholas Frazzette; Efiyenia Ismini Kaparos; Shane A. Evans; Azucena Rocha; John M. Sedivy; Nicola Neretti; John Carucci; Jef D. Boeke; David Fenyö

doi:10.1093/nar/gkad049

LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq

Wilson Mckerrow, Larisa Kagermazova, Nicole Doudican, Nicholas Frazzette, Efiyenia Ismini Kaparos, Shane A. Evans, Azucena Rocha, John M. Sedivy, Nicola Neretti, John Carucci, Jef D. Boeke, David Fenyö

Biomedical Engineering

Research output: Contribution to journal › Article › peer-review

Abstract

LINE-1 retrotransposons are sequences capable of copying themselves to new genomic loci via an RNA intermediate. New studies implicate LINE-1 in a range of diseases, especially in the context of aging, but without an accurate understanding of where and when LINE-1 is expressed, a full accounting of its role in health and disease is not possible. We therefore developed a method - 5′ scL1seq - that makes use of a widely available library preparation method (10x Genomics 5′ single cell RNA-seq) to measure LINE-1 expression in tens of thousands of single cells. We recapitulated the known pattern of LINE-1 expression in tumors - present in cancer cells, absent from immune cells - and identified hitherto undescribed LINE-1 expression in human epithelial cells and mouse hippocampal neurons. In both cases, we saw a modest increase with age, supporting recent research connecting LINE-1 to age related diseases.

Original language	English (US)
Pages (from-to)	2033-2045
Number of pages	13
Journal	Nucleic acids research
Volume	51
Issue number	5
DOIs	https://doi.org/10.1093/nar/gkad049
State	Published - Mar 21 2023

ASJC Scopus subject areas

Genetics

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Mckerrow, W., Kagermazova, L., Doudican, N., Frazzette, N., Kaparos, E. I., Evans, S. A., Rocha, A., Sedivy, J. M., Neretti, N., Carucci, J., Boeke, J. D., & Fenyö, D. (2023). LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq. Nucleic acids research, 51(5), 2033-2045. https://doi.org/10.1093/nar/gkad049

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title = "LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq",

abstract = "LINE-1 retrotransposons are sequences capable of copying themselves to new genomic loci via an RNA intermediate. New studies implicate LINE-1 in a range of diseases, especially in the context of aging, but without an accurate understanding of where and when LINE-1 is expressed, a full accounting of its role in health and disease is not possible. We therefore developed a method - 5′ scL1seq - that makes use of a widely available library preparation method (10x Genomics 5′ single cell RNA-seq) to measure LINE-1 expression in tens of thousands of single cells. We recapitulated the known pattern of LINE-1 expression in tumors - present in cancer cells, absent from immune cells - and identified hitherto undescribed LINE-1 expression in human epithelial cells and mouse hippocampal neurons. In both cases, we saw a modest increase with age, supporting recent research connecting LINE-1 to age related diseases.",

author = "Wilson Mckerrow and Larisa Kagermazova and Nicole Doudican and Nicholas Frazzette and Kaparos, {Efiyenia Ismini} and Evans, {Shane A.} and Azucena Rocha and Sedivy, {John M.} and Nicola Neretti and John Carucci and Boeke, {Jef D.} and David Feny{\"o}",

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doi = "10.1093/nar/gkad049",

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AU - Mckerrow, Wilson

AU - Kagermazova, Larisa

AU - Doudican, Nicole

AU - Frazzette, Nicholas

AU - Kaparos, Efiyenia Ismini

AU - Evans, Shane A.

AU - Rocha, Azucena

AU - Sedivy, John M.

AU - Neretti, Nicola

AU - Carucci, John

AU - Boeke, Jef D.

AU - Fenyö, David

PY - 2023/3/21

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AB - LINE-1 retrotransposons are sequences capable of copying themselves to new genomic loci via an RNA intermediate. New studies implicate LINE-1 in a range of diseases, especially in the context of aging, but without an accurate understanding of where and when LINE-1 is expressed, a full accounting of its role in health and disease is not possible. We therefore developed a method - 5′ scL1seq - that makes use of a widely available library preparation method (10x Genomics 5′ single cell RNA-seq) to measure LINE-1 expression in tens of thousands of single cells. We recapitulated the known pattern of LINE-1 expression in tumors - present in cancer cells, absent from immune cells - and identified hitherto undescribed LINE-1 expression in human epithelial cells and mouse hippocampal neurons. In both cases, we saw a modest increase with age, supporting recent research connecting LINE-1 to age related diseases.

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LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq

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