Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines

J. de Vos; R.P.M.A. Crooijmans; M.F.L. Derks; S.L. Kloet; M.A.M. Groenen; O. Madsen

doi:10.3920/978-90-8686-940-4_540

Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines

J. de Vos, R.P.M.A. Crooijmans, M.F.L. Derks, S.L. Kloet, M.A.M. Groenen, O. Madsen

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › Academic

Abstract

Cell lines are useful for investigating traits of interest e.g. intestinal absorption, feed efficiency and immunity in farm animals. We earlier investigated an intestinal cell line in pig and a fibroblast cell line in chicken and found chromosomal abnormalities by whole genome sequence (WGS) data analysis. Results from RNAseq allele-specific expression analysis (ASE) in 4 cell lines showed aneuploidy in some chromosomes. In this paper we show that RNA-seq can be used to detect whole/partial chromosomal abnormalities based on ASE analysis.

Original language	English
Title of host publication	Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)
Subtitle of host publication	Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges
Editors	R.F. Veerkamp, Y. de Haas
Place of Publication	Wageningen
Publisher	Wageningen Academic Publishers
Pages	2241-2244
ISBN (Electronic)	9789086869404
DOIs	https://doi.org/10.3920/978-90-8686-940-4_540
Publication status	Published - 2022
Event	World Congress on Genetics Applied to Livestock Production: WCGALP 2022 - Rotterdam, Netherlands Duration: 3 Jul 2022 → 8 Jul 2022

Conference

Conference	World Congress on Genetics Applied to Livestock Production: WCGALP 2022
Country/Territory	Netherlands
City	Rotterdam
Period	3/07/22 → 8/07/22

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10.3920/978-90-8686-940-4_540Licence: CC BY

https://edepot.wur.nl/588205Licence: CC BY

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de Vos, J., Crooijmans, R. P. M. A., Derks, M. F. L., Kloet, S. L., Groenen, M. A. M., & Madsen, O. (2022). Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines. In R. F. Veerkamp, & Y. de Haas (Eds.), Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges (pp. 2241-2244). [540] Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-940-4_540

de Vos, J. ; Crooijmans, R.P.M.A. ; Derks, M.F.L. et al. / Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines. Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. editor / R.F. Veerkamp ; Y. de Haas. Wageningen : Wageningen Academic Publishers, 2022. pp. 2241-2244

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title = "Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines",

abstract = "Cell lines are useful for investigating traits of interest e.g. intestinal absorption, feed efficiency and immunity in farm animals. We earlier investigated an intestinal cell line in pig and a fibroblast cell line in chicken and found chromosomal abnormalities by whole genome sequence (WGS) data analysis. Results from RNAseq allele-specific expression analysis (ASE) in 4 cell lines showed aneuploidy in some chromosomes. In this paper we show that RNA-seq can be used to detect whole/partial chromosomal abnormalities based on ASE analysis.",

author = "{de Vos}, J. and R.P.M.A. Crooijmans and M.F.L. Derks and S.L. Kloet and M.A.M. Groenen and O. Madsen",

year = "2022",

doi = "10.3920/978-90-8686-940-4_540",

language = "English",

pages = "2241--2244",

editor = "R.F. Veerkamp and {de Haas}, Y.",

booktitle = "Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)",

publisher = "Wageningen Academic Publishers",

address = "Netherlands",

note = "World Congress on Genetics Applied to Livestock Production: WCGALP 2022 ; Conference date: 03-07-2022 Through 08-07-2022",

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de Vos, J , Crooijmans, RPMA , Derks, MFL, Kloet, SL, Groenen, MAM & Madsen, O 2022, Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines. in RF Veerkamp & Y de Haas (eds), Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges., 540, Wageningen Academic Publishers, Wageningen, pp. 2241-2244, World Congress on Genetics Applied to Livestock Production: WCGALP 2022, Rotterdam, Netherlands, 3/07/22. https://doi.org/10.3920/978-90-8686-940-4_540

Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines. / de Vos, J.; Crooijmans, R.P.M.A.; Derks, M.F.L. et al.
Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. ed. / R.F. Veerkamp; Y. de Haas. Wageningen: Wageningen Academic Publishers, 2022. p. 2241-2244 540.

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › Academic

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AU - de Vos, J.

AU - Crooijmans, R.P.M.A.

AU - Derks, M.F.L.

AU - Kloet, S.L.

AU - Groenen, M.A.M.

AU - Madsen, O.

PY - 2022

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N2 - Cell lines are useful for investigating traits of interest e.g. intestinal absorption, feed efficiency and immunity in farm animals. We earlier investigated an intestinal cell line in pig and a fibroblast cell line in chicken and found chromosomal abnormalities by whole genome sequence (WGS) data analysis. Results from RNAseq allele-specific expression analysis (ASE) in 4 cell lines showed aneuploidy in some chromosomes. In this paper we show that RNA-seq can be used to detect whole/partial chromosomal abnormalities based on ASE analysis.

AB - Cell lines are useful for investigating traits of interest e.g. intestinal absorption, feed efficiency and immunity in farm animals. We earlier investigated an intestinal cell line in pig and a fibroblast cell line in chicken and found chromosomal abnormalities by whole genome sequence (WGS) data analysis. Results from RNAseq allele-specific expression analysis (ASE) in 4 cell lines showed aneuploidy in some chromosomes. In this paper we show that RNA-seq can be used to detect whole/partial chromosomal abnormalities based on ASE analysis.

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DO - 10.3920/978-90-8686-940-4_540

M3 - Conference paper

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BT - Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)

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Y2 - 3 July 2022 through 8 July 2022

ER -

de Vos J , Crooijmans RPMA , Derks MFL, Kloet SL, Groenen MAM , Madsen O. Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines. In Veerkamp RF, de Haas Y, editors, Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. Wageningen: Wageningen Academic Publishers. 2022. p. 2241-2244. 540 doi: 10.3920/978-90-8686-940-4_540

Allele specific expression as an indication of ploidy in pig IPECJ2 and chicken SL-29 cell lines

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