Sex Specification and Heterogeneity of Primordial Germ Cells in Mice
Publication Date
December 23, 2015
Journal
PLOS ONE
Authors
Akihiko Sakashita, Yukiko Kawabata, Yuko Jincho, Shiun Tajima, et al
Volume
10
Issue
12
Pages
e0144836
DOI
https://dx.plos.org/10.1371/journal.pone.0144836
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0144836
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/26700643
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4689518
Europe PMC
http://europepmc.org/abstract/MED/26700643
Web of Science
000367092600034
Scopus
84957538095
Mendeley
http://www.mendeley.com/research/sex-specification-heterogeneity-primordial-germ-cells-mice
Events
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Mendeley | Further Information

{"title"=>"Sex specification and heterogeneity of primordial germ cells in mice", "type"=>"journal", "authors"=>[{"first_name"=>"Akihiko", "last_name"=>"Sakashita", "scopus_author_id"=>"55646658300"}, {"first_name"=>"Yukiko", "last_name"=>"Kawabata", "scopus_author_id"=>"56526238100"}, {"first_name"=>"Yuko", "last_name"=>"Jincho", "scopus_author_id"=>"23990841600"}, {"first_name"=>"Shiun", "last_name"=>"Tajima", "scopus_author_id"=>"57102717400"}, {"first_name"=>"Soichiro", "last_name"=>"Kumamoto", "scopus_author_id"=>"57103093000"}, {"first_name"=>"Hisato", "last_name"=>"Kobayashi", "scopus_author_id"=>"55683203200"}, {"first_name"=>"Yasuhisa", "last_name"=>"Matsui", "scopus_author_id"=>"7402827392"}, {"first_name"=>"Tomohiro", "last_name"=>"Kono", "scopus_author_id"=>"7202775356"}], "year"=>2015, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"608043614", "pmid"=>"26700643", "issn"=>"19326203", "doi"=>"10.1371/journal.pone.0144836", "scopus"=>"2-s2.0-84957538095", "sgr"=>"84957538095"}, "id"=>"e428f246-ae0e-31db-a79f-f7d0e848bc26", "abstract"=>"In mice, primordial germ cells migrate into the genital ridges by embryonic day 13.5 (E13.5), where they are then subjected to a sex-specific fate with female and male primordial germ cells undergoing mitotic arrest and meiosis, respectively. However, the sex-specific basis of primordial germ cell differentiation is poorly understood. The aim of this study was to investigate the sex-specific features of mouse primordial germ cells. We performed RNA-sequencing (seq) of E13.5 female and male mouse primordial germ cells using next-generation sequencing. We identified 651 and 428 differentially expressed transcripts (>2-fold, P < 0.05) in female and male primordial germ cells, respectively. Of these, many transcription factors were identified. Gene ontology and network analysis revealed differing functions of the identified female- and male-specific genes that were associated with primordial germ cell acquisition of sex-specific properties required for differentiation into germ cells. Furthermore, DNA methylation and ChIP-seq analysis of histone modifications showed that hypomethylated gene promoter regions were bound with H3K4me3 and H3K27me3. Our global transcriptome data showed that in mice, primordial germ cells are decisively assigned to a sex-specific differentiation program by E13.5, which is necessary for the development of vital germ cells.", "link"=>"http://www.mendeley.com/research/sex-specification-heterogeneity-primordial-germ-cells-mice", "reader_count"=>29, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>2, "Researcher"=>7, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>6, "Student > Postgraduate"=>3, "Student > Master"=>2, "Other"=>1, "Student > Bachelor"=>2, "Professor"=>1, "Unspecified"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>2, "Researcher"=>7, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>6, "Student > Postgraduate"=>3, "Student > Master"=>2, "Other"=>1, "Student > Bachelor"=>2, "Professor"=>1, "Unspecified"=>1}, "reader_count_by_subject_area"=>{"Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>11, "Agricultural and Biological Sciences"=>11, "Philosophy"=>1, "Veterinary Science and Veterinary Medicine"=>2, "Social Sciences"=>1, "Unspecified"=>2}, "reader_count_by_subdiscipline"=>{"Social Sciences"=>{"Social Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>11}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>11}, "Environmental Science"=>{"Environmental Science"=>1}, "Unspecified"=>{"Unspecified"=>2}, "Philosophy"=>{"Philosophy"=>1}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>2}}, "reader_count_by_country"=>{"Spain"=>1}, "group_count"=>1}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/2613532"], "description"=>"<p><b>(A)</b> Uniform expression patterns of housekeeping and germ cell-specific genes among individual PGCs. <b>(B, C)</b> Heterogeneous expression pattern of PGC-specific and apoptosis-related genes. Expression levels are shown in log2 values. Gene symbols were ranked in the order of higher log (FC) values. Box plots show the central 75% (grey boxes), median (black lines), and range (whiskers).</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628062, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g005", "stats"=>{"downloads"=>1, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Expression_patterns_of_representative_genes_in_individual_PGCs_/1628062", "title"=>"Expression patterns of representative genes in individual PGCs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613528"], "description"=>"<p><b>(A)</b> Pie charts showing the composition and quantity of each reference gene type in the UCSC Genome Browser for each RNA-seq dataset. <b>(B)</b> Comparative analysis of reference gene expression levels in each RNA-seq dataset. The left side-scatter plots display the relationship between each gene expression pattern. The right side numbers are the Pearson’s correlation coefficients. <b>(C)</b> PGC-specific gene expression patterns (11) in each RNA-seq dataset. Expression levels are shown in log2 values.</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628058, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g001", "stats"=>{"downloads"=>1, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_RNA_seq_transcriptional_profiling_of_female_and_male_PGCs_/1628058", "title"=>"RNA-seq transcriptional profiling of female and male PGCs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613529"], "description"=>"<p><b>(A)</b> Top: scatter plot of female and male PGC samples. The green lines indicate a 2-FC in the average expression levels between the 2 samples. Bottom: volcano plot of differentially expressed genes in female and male PGC samples. Red spheres indicate statistically significant genes. FSGs (651) and MSGs (428). <b>(B)</b> Top 20 differentially expressed genes in female- and male-specific PGCs. Expression levels are shown in log2 values. The genes are ranked in the order of decreasing log FC values. <b>(C)</b> Pie chart showing the composition and quantity of each reference gene type in the UCSC Genome Browser and Ingenuity Pathway analysis tool for FSGs and MSGs.</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628059, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g002", "stats"=>{"downloads"=>2, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Identification_of_female_and_male_PGC_specific_expressed_genes_/1628059", "title"=>"Identification of female and male PGC-specific-expressed genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613530"], "description"=>"<p><b>(A)</b> GO enrichment analysis of FSGs and MSGs. The most highly enriched biological processes based on their respective gene counts are shown (Fisher’s exact test: cut-off < 0.1). <b>(B)</b> Pathway analysis of all transcript lists in female and male PGCs. The lists indicate enriched pathways observed among female and male transcripts, as determined using DAVID (Fisher’s exact test: cut-off <0.1). Sex-specific pathways are highlighted in pink and blue, which denote female- and male-specific, respectively.</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628060, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g003", "stats"=>{"downloads"=>2, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Biological_significance_of_female_and_male_specific_PGC_expressed_genes_/1628060", "title"=>"Biological significance of female and male-specific PGC-expressed genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613531"], "description"=>"<p><b>(A)</b> Average methylation levels of TSS and the shore values (±5 kb of the TSS) in female- and male-specific PGC-expressed genes. Our previous methylation data of PGCs were obtained from the DDBJ database [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0144836#pone.0144836.ref012\" target=\"_blank\">12</a>]. <b>(B)</b> Occupancy of H3K4me3- and H3K27me3-bound TSS and TTS shore regions (±5 kb of the TSS and TTS) in female- and male-specific PGC-expressed genes. <b>(C)</b> Proportion of genes showing histone-modification patterns. The number of genes classified into each histone-modification pattern is shown. <b>(D)</b> Three typical histone-modification patterns. The red regions indicate ChIP/input enrichment-peak regions that were calculated using the DROMPA peak-calling program.</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628061, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g004", "stats"=>{"downloads"=>1, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_DNA_methylation_and_histone_modifications_in_female_and_male_specific_PGC_expressed_genes_/1628061", "title"=>"DNA methylation and histone modifications in female- and male-specific PGC-expressed genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613551", "https://ndownloader.figshare.com/files/2613552", "https://ndownloader.figshare.com/files/2613553", "https://ndownloader.figshare.com/files/2613554", "https://ndownloader.figshare.com/files/2613555", "https://ndownloader.figshare.com/files/2613556", "https://ndownloader.figshare.com/files/2613557", "https://ndownloader.figshare.com/files/2613558", "https://ndownloader.figshare.com/files/2613559", "https://ndownloader.figshare.com/files/2613560"], "description"=>"<div><p>In mice, primordial germ cells migrate into the genital ridges by embryonic day 13.5 (E13.5), where they are then subjected to a sex-specific fate with female and male primordial germ cells undergoing mitotic arrest and meiosis, respectively. However, the sex-specific basis of primordial germ cell differentiation is poorly understood. The aim of this study was to investigate the sex-specific features of mouse primordial germ cells. We performed RNA-sequencing (seq) of E13.5 female and male mouse primordial germ cells using next-generation sequencing. We identified 651 and 428 differentially expressed transcripts (>2-fold, P < 0.05) in female and male primordial germ cells, respectively. Of these, many transcription factors were identified. Gene ontology and network analysis revealed differing functions of the identified female- and male-specific genes that were associated with primordial germ cell acquisition of sex-specific properties required for differentiation into germ cells. Furthermore, DNA methylation and ChIP-seq analysis of histone modifications showed that hypomethylated gene promoter regions were bound with H3K4me3 and H3K27me3. Our global transcriptome data showed that in mice, primordial germ cells are decisively assigned to a sex-specific differentiation program by E13.5, which is necessary for the development of vital germ cells.</p></div>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628078, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0144836.s001", "https://dx.doi.org/10.1371/journal.pone.0144836.s002", "https://dx.doi.org/10.1371/journal.pone.0144836.s003", "https://dx.doi.org/10.1371/journal.pone.0144836.s004", "https://dx.doi.org/10.1371/journal.pone.0144836.s005", "https://dx.doi.org/10.1371/journal.pone.0144836.s006", "https://dx.doi.org/10.1371/journal.pone.0144836.s007", "https://dx.doi.org/10.1371/journal.pone.0144836.s008", "https://dx.doi.org/10.1371/journal.pone.0144836.s009", "https://dx.doi.org/10.1371/journal.pone.0144836.s010"], "stats"=>{"downloads"=>11, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Sex_Specification_and_Heterogeneity_of_Primordial_Germ_Cells_in_Mice_/1628078", "title"=>"Sex Specification and Heterogeneity of Primordial Germ Cells in Mice", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2016-01-05 14:51:45"}
  • {"files"=>["https://ndownloader.figshare.com/files/2613533"], "description"=>"<p><b>(A)</b> Bi-dimensional <b>PCA</b> of E13.5 female and male single-PGC gene expression patterns. The first principal component (PC1) captures 4.93% of the gene expression variability and the second principal component (PC2) captures 4.25%. The red and blue spheres represent single female (n = 67) and male (n = 77) PGCs, respectively. <b>(B)</b> Hierarchical clustering analysis of transcriptome data sets (FSG: 651, MSG: 428) of female and male single PGCs. <b>(C)</b> Heat map of the relative expression of apoptotic process-related genes (n = 15). <b>(D)</b> Heat map of the relative expression of meiotic and mitotic cell cycle-related genes (n = 26). <b>(E)</b> Relation between apoptosis and meiotic and mitotic cell cycle in female PGCs. The numbers indicate the number of PGCs.</p>", "links"=>[], "tags"=>["Primordial Germ Cells", "Germ Cell Differentiation", "Germ cells", "hypomethylated gene promoter regions", "H 3K", "dna", "germ cell acquisition"], "article_id"=>1628063, "categories"=>["Uncategorised"], "users"=>["Akihiko Sakashita", "Yukiko Kawabata", "Yuko Jincho", "Shiun Tajima", "Soichiro Kumamoto", "Hisato Kobayashi", "Yasuhisa Matsui", "Tomohiro Kono"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0144836.g006", "stats"=>{"downloads"=>1, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Single_cell_transcriptome_analysis_of_E13_5_female_and_male_PGCs_/1628063", "title"=>"Single-cell transcriptome analysis of E13.5 female and male PGCs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2016-01-05 14:51:43"}

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{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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