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Generation of meiomaps of genome-wide recombination and chromosome segregation in human oocytes

Ottolini, Christian S, Capalbo, Antonio, Newnham, Louise, Cimadomo, Danilo, Natesan, Senthilkumar A, Hoffmann, Eva R, Ubaldi, Filippo M, Rienzi, Laura, Handyside, Alan H (2016) Generation of meiomaps of genome-wide recombination and chromosome segregation in human oocytes. Nature Protocols, 11 (7). pp. 1229-1243. ISSN 1754-2189. (doi:10.1038/nprot.2016.075) (KAR id:59360)

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Abstract

We have developed a protocol for the generation of genome-wide maps (meiomaps) of recombination and chromosome segregation for the three products of human female meiosis: the first and second polar bodies (PB1 and PB2) and the corresponding oocyte. PB1 is biopsied and the oocyte is artificially activated by exposure to calcium ionophore, after which PB2 is biopsied and collected with the corresponding oocyte. The whole genomes of the polar bodies and oocytes are amplified by multiple displacement amplification and, together with maternal genomic DNA, genotyped for ~300,000 single-nucleotide polymorphisms (SNPs) genome-wide by microarray. Informative maternal heterozygous SNPs are phased using a haploid PB2 or oocyte as a reference. A simple algorithm is then used to identify the maternal haplotypes for each chromosome, in all of the products of meiosis for each oocyte. This allows mapping of crossovers and analysis of chromosome segregation patterns. The protocol takes a minimum of 3–5 d and requires a clinical embryologist with micromanipulation experience and a molecular biologist with basic bioinformatic skills. It has several advantages over previous methods; importantly, the use of artificial oocyte activation avoids the creation of embryos for research purposes. In addition, compared with next-generation sequencing, targeted SNP genotyping is cost-effective and it simplifies the bioinformatic analysis, as only one haploid reference sample is required to establish phase for maternal haplotyping. Finally, meiomapping is more informative than copy-number analysis alone for analysis of chromosome segregation patterns. Using this protocol, we have provided new insights that may lead to improvements in assisted reproduction for the treatment of infertility.

Item Type: Article
DOI/Identification number: 10.1038/nprot.2016.075
Subjects: Q Science
Divisions: Divisions > Division of Natural Sciences > School of Biosciences
Depositing User: Susan Davies
Date Deposited: 01 Dec 2016 15:26 UTC
Last Modified: 29 May 2019 18:24 UTC
Resource URI: https://kar.kent.ac.uk/id/eprint/59360 (The current URI for this page, for reference purposes)
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