Isolation and Processing of Bovine Oocytes for Small RNA Sequencing.
Cumulus oocyte complexes (COCs)
GV oocytes
PIWIL3
RNA-sequencing
piRNAs
β-Oxidation
Journal
Methods in molecular biology (Clifton, N.J.)
ISSN: 1940-6029
Titre abrégé: Methods Mol Biol
Pays: United States
ID NLM: 9214969
Informations de publication
Date de publication:
2022
2022
Historique:
entrez:
7
7
2022
pubmed:
8
7
2022
medline:
12
7
2022
Statut:
ppublish
Résumé
In modern biomedical research, mice have been the mammalian model system of choice to investigate molecular pathways for potential future medical applications. Over the last years, it has become clear that female mice employ an exceptional piRNA pathway-independent mechanism to neutralize transposon activity in the ovary. In other model organisms studied to date, the piRNA pathway is indispensable for efficient targeting of transposable elements and fertility in both males and females. Moreover, recent studies have demonstrated that in other mammals, including humans, the piRNA pathway is highly active in the female germline as well, indicating that the situation in the mouse female germline is anomalous. For this reason, novel models to study piRNA pathways in female mammalian germlines are currently emerging, including Bos taurus. Here we describe a protocol for isolation and downstream processing of female bovine tissues in order to perform downstream applications including piRNA sequencing.
Identifiants
pubmed: 35796958
doi: 10.1007/978-1-0716-2380-0_5
doi:
Substances chimiques
Argonaute Proteins
0
DNA Transposable Elements
0
RNA, Small Interfering
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
83-91Informations de copyright
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.
Références
Brennecke J, Aravin AA, Stark A, Dus M, Kellis M, Sachidanandam R, Hannon GJ (2007) Discrete small RNA-generating loci as master regulators of transposon activity in drosophila. Cell 128:1089–1103
doi: 10.1016/j.cell.2007.01.043
pubmed: 17346786
Houwing S, Kamminga LM, Berezikov E, Cronembold D, Girard A, van den Elst H, Filippov DV, Blaser H, Raz E, Moens CB, Plasterk RHA, Hannon GJ, Draper BW, Ketting RF (2007) A role for Piwi and piRNAs in germ cell maintenance and transposon silencing in zebrafish. Cell 129:69–82
doi: 10.1016/j.cell.2007.03.026
pubmed: 17418787
Kawaoka S, Hayashi N, Suzuki Y, Abe H, Sugano S, Tomari Y, Shimada T, Katsuma S (2009) The Bombyx ovary-derived cell line endogenously expresses PIWI/PIWI-interacting RNA complexes. RNA 15(7):1258–1264. https://doi.org/10.1261/rna.1452209
doi: 10.1261/rna.1452209
pubmed: 19460866
pmcid: 2704083
Huang HY, Houwing S, Kaaij LJT, Meppelink A, Redl S, Gauci S, Vos H, Draper BW, Moens CB, Burgering BM, Ladurner P, Krijgsveld J, Berezikov E, Ketting RF (2011) Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish. EMBO J 30:3298–3308
doi: 10.1038/emboj.2011.228
pubmed: 21743441
pmcid: 3160653
Cox DN, Chao A, Baker J, Chang L, Qiao D, Lin H (1998) A novel class of evolutionarily conserved genes defined by piwi are essential for stem cell self-renewal. Genes Dev 12(23):3715–3727. https://doi.org/10.1101/gad.12.23.3715
doi: 10.1101/gad.12.23.3715
pubmed: 9851978
pmcid: 317255
Kamminga LM, Luteijn MJ, den Broeder MJ, Redl S, Kaaij LJT, Roovers EF, Ladurner P, Berezikov E, Ketting RF (2010) Hen1 is required for oocyte development and piRNA stability in zebrafish. EMBO J 29:3688–3700
doi: 10.1038/emboj.2010.233
pubmed: 20859253
pmcid: 2982757
Deng W, Lin H (2002) Miwi, a murine homolog of piwi, encodes a cytoplasmic protein essential for spermatogenesis. Dev Cell 2:819–830
doi: 10.1016/S1534-5807(02)00165-X
pubmed: 12062093
Carmell MA, Girard A, van de Kant HJG, Bourc’his D, Bestor TH, de Rooij DG, Hannon GJ (2007) MIWI2 is essential for spermatogenesis and repression of transposons in the mouse male germline. Dev Cell 12:503–514
doi: 10.1016/j.devcel.2007.03.001
pubmed: 17395546
Aravin AA, Van Der Heijden GW, Castaneda J, Vagin VV, Hannon GJ, Bortvin A (2009) Cytoplasmic compartmentalization of the fetal piRNA pathway in mice. PLoS Genet 5:e1000764
doi: 10.1371/journal.pgen.1000764
pubmed: 20011505
pmcid: 2785470
Flemr M, Malik R, Franke V, Nejepinska J, Sedlacek R, Vlahoviček K, Svoboda P (2013) A retrotransposon-driven dicer isoform directs endogenous siRNA production in mouse oocytes. Cell 155:807–816
doi: 10.1016/j.cell.2013.10.001
pubmed: 24209619
Roovers EF, Rosenkranz D, Mahdipour M, Han CT, He N, de Sousa Lopes SMC, van der Westerlaken LAJ, Zischler H, Butter F, Roelen BAJ, Ketting RF (2015) Piwi proteins and piRNAs in mammalian oocytes and early embryos. Cell Rep 10(12):2069–2082. https://doi.org/10.1016/j.celrep.2015.02.062
doi: 10.1016/j.celrep.2015.02.062
pubmed: 25818294
Tan M, van Tol HTA, Rosenkranz D, Roovers EF, Damen MJ, Stout TAE, Wu W, Roelen BAJ (2020) PIWIL3 forms a complex with TDRKH in mammalian oocytes. Cells 9(6):1356. https://doi.org/10.3390/cells9061356
doi: 10.3390/cells9061356
pmcid: 7349845
Ishino K, Hasuwa H, Yoshimura J, Iwasaki YW, Nishihara H, Seki NM, Hirano T, Tsuchiya M, Ishizaki H, Masuda H, Kuramoto T, Saito K, Sakakibara Y, Toyoda A, Itoh T, Siomi MC, Morishita S, Siomi H (2020) Hamster PIWI proteins bind to piRNAs with stage-specific size variations during oocyte maturation. bioRxiv. https://doi.org/10.1101/2020.12.01.407411
Van Tol HTA, Van Eerdenburg EFCM, Colenbrander B, Roelen BAJ (2008) Enhancement of bovine oocyte maturation by leptin is accompanied by an upregulation in mRNA expression of leptin receptor isoforms in cumulus cells. Mol Reprod Dev 75(4):578–587. https://doi.org/10.1002/mrd.20801
doi: 10.1002/mrd.20801
pubmed: 17886271
Simon B, Kirkpatrick JP, Eckhardt S, Reuter M, Rocha EA, Andrade-Navarro MA, Sehr P, Pillai RS, Carlomagno T (2011) Recognition of 2′-o-methylated 3′-end of piRNA by the PAZ domain of a Piwi protein. Structure 19(2):172–180. https://doi.org/10.1016/j.str.2010.11.015
doi: 10.1016/j.str.2010.11.015
pubmed: 21237665
Rosenkranz D, Han C-T, Roovers EF, Zischler H, Ketting RF (2015) Piwi proteins and piRNAs in mammalian oocytes and early embryos: From sample to sequence. Genomics Data 5:309–313
doi: 10.1016/j.gdata.2015.06.026
pubmed: 26484274
pmcid: 4583685