Cargando…

Gene-centromere mapping in meiotic gynogenetic European seabass

BACKGROUND: Fully isogenic lines in fish can be developed using “mitotic” gynogenesis (suppression of first zygotic mitosis following inactivation of the sperm genome). However, genome-wide verification of the steps in this process has seldom been applied. We used ddRADseq to generate SNP markers in...

Descripción completa

Detalles Bibliográficos
Autores principales: Oral, Münevver, Colléter, Julie, Bekaert, Michaël, Taggart, John B, Palaiokostas, Christos, McAndrew, Brendan J., Vandeputte, Marc, Chatain, Béatrice, Kuhl, Heiner, Reinhardt, Richard, Peruzzi, Stefano, Penman, David J
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5463376/
https://www.ncbi.nlm.nih.gov/pubmed/28592235
http://dx.doi.org/10.1186/s12864-017-3826-z
_version_ 1783242695891746816
author Oral, Münevver
Colléter, Julie
Bekaert, Michaël
Taggart, John B
Palaiokostas, Christos
McAndrew, Brendan J.
Vandeputte, Marc
Chatain, Béatrice
Kuhl, Heiner
Reinhardt, Richard
Peruzzi, Stefano
Penman, David J
author_facet Oral, Münevver
Colléter, Julie
Bekaert, Michaël
Taggart, John B
Palaiokostas, Christos
McAndrew, Brendan J.
Vandeputte, Marc
Chatain, Béatrice
Kuhl, Heiner
Reinhardt, Richard
Peruzzi, Stefano
Penman, David J
author_sort Oral, Münevver
collection PubMed
description BACKGROUND: Fully isogenic lines in fish can be developed using “mitotic” gynogenesis (suppression of first zygotic mitosis following inactivation of the sperm genome). However, genome-wide verification of the steps in this process has seldom been applied. We used ddRADseq to generate SNP markers in a meiotic gynogenetic family of European seabass (Dicentrarchus labrax): (i) to verify the lack of paternal contribution in a meiotic gynogenetic family; (ii) to generate a gene-centromere map from this family; (iii) to identify telomeric markers that could distinguish mitotic gynogenetics from meiotic gynogenetics, which sometimes arise spontaneously in mitotic gynogenetic families. RESULTS: From a single meiotic gynogenetic family consisting of 79 progeny, 42 million sequencing reads (Illumina, trimmed to 148 bases) resolved 6866 unique RAD-tags. The 340 male-informative SNP markers that were identified confirmed the lack of paternal contribution. A gene-centromere map was constructed based on 804 female-informative SNPs in 24 linkage groups (2n = 48) with a total length of 1251.02 cM (initial LG assignment was based on the seabass genome assembly, dicLab v1). Chromosome arm structure could be clearly discerned from the pattern of heterozygosity in each linkage group in 18 out of 24 LGs: the other six showed anomalies that appeared to be related to issues in the genome assembly. CONCLUSION: Genome-wide screening enabled substantive verification of the production of the gynogenetic family used in this study. The large number of telomeric and subtelomeric markers with high heterozygosity values in the meiotic gynogenetic family indicate that such markers could be used to clearly distinguish between meiotic and mitotic gynogenetics. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-017-3826-z) contains supplementary material, which is available to authorized users.
format Online
Article
Text
id pubmed-5463376
institution National Center for Biotechnology Information
language English
publishDate 2017
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-54633762017-06-08 Gene-centromere mapping in meiotic gynogenetic European seabass Oral, Münevver Colléter, Julie Bekaert, Michaël Taggart, John B Palaiokostas, Christos McAndrew, Brendan J. Vandeputte, Marc Chatain, Béatrice Kuhl, Heiner Reinhardt, Richard Peruzzi, Stefano Penman, David J BMC Genomics Research Article BACKGROUND: Fully isogenic lines in fish can be developed using “mitotic” gynogenesis (suppression of first zygotic mitosis following inactivation of the sperm genome). However, genome-wide verification of the steps in this process has seldom been applied. We used ddRADseq to generate SNP markers in a meiotic gynogenetic family of European seabass (Dicentrarchus labrax): (i) to verify the lack of paternal contribution in a meiotic gynogenetic family; (ii) to generate a gene-centromere map from this family; (iii) to identify telomeric markers that could distinguish mitotic gynogenetics from meiotic gynogenetics, which sometimes arise spontaneously in mitotic gynogenetic families. RESULTS: From a single meiotic gynogenetic family consisting of 79 progeny, 42 million sequencing reads (Illumina, trimmed to 148 bases) resolved 6866 unique RAD-tags. The 340 male-informative SNP markers that were identified confirmed the lack of paternal contribution. A gene-centromere map was constructed based on 804 female-informative SNPs in 24 linkage groups (2n = 48) with a total length of 1251.02 cM (initial LG assignment was based on the seabass genome assembly, dicLab v1). Chromosome arm structure could be clearly discerned from the pattern of heterozygosity in each linkage group in 18 out of 24 LGs: the other six showed anomalies that appeared to be related to issues in the genome assembly. CONCLUSION: Genome-wide screening enabled substantive verification of the production of the gynogenetic family used in this study. The large number of telomeric and subtelomeric markers with high heterozygosity values in the meiotic gynogenetic family indicate that such markers could be used to clearly distinguish between meiotic and mitotic gynogenetics. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-017-3826-z) contains supplementary material, which is available to authorized users. BioMed Central 2017-06-07 /pmc/articles/PMC5463376/ /pubmed/28592235 http://dx.doi.org/10.1186/s12864-017-3826-z Text en © The Author(s). 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Oral, Münevver
Colléter, Julie
Bekaert, Michaël
Taggart, John B
Palaiokostas, Christos
McAndrew, Brendan J.
Vandeputte, Marc
Chatain, Béatrice
Kuhl, Heiner
Reinhardt, Richard
Peruzzi, Stefano
Penman, David J
Gene-centromere mapping in meiotic gynogenetic European seabass
title Gene-centromere mapping in meiotic gynogenetic European seabass
title_full Gene-centromere mapping in meiotic gynogenetic European seabass
title_fullStr Gene-centromere mapping in meiotic gynogenetic European seabass
title_full_unstemmed Gene-centromere mapping in meiotic gynogenetic European seabass
title_short Gene-centromere mapping in meiotic gynogenetic European seabass
title_sort gene-centromere mapping in meiotic gynogenetic european seabass
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5463376/
https://www.ncbi.nlm.nih.gov/pubmed/28592235
http://dx.doi.org/10.1186/s12864-017-3826-z
work_keys_str_mv AT oralmunevver genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT colleterjulie genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT bekaertmichael genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT taggartjohnb genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT palaiokostaschristos genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT mcandrewbrendanj genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT vandeputtemarc genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT chatainbeatrice genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT kuhlheiner genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT reinhardtrichard genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT peruzzistefano genecentromeremappinginmeioticgynogeneticeuropeanseabass
AT penmandavidj genecentromeremappinginmeioticgynogeneticeuropeanseabass