Novel Candidate Genes Associated with Hippocampal Oscillations
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{"title"=>"Novel candidate genes associated with hippocampal oscillations", "type"=>"journal", "authors"=>[{"first_name"=>"Rick", "last_name"=>"Jansen", "scopus_author_id"=>"56596168300"}, {"first_name"=>"Jaap", "last_name"=>"Timmerman", "scopus_author_id"=>"12796620900"}, {"first_name"=>"Maarten", "last_name"=>"Loos", "scopus_author_id"=>"19933948200"}, {"first_name"=>"Sabine", "last_name"=>"Spijker", "scopus_author_id"=>"6602592862"}, {"first_name"=>"Arjen", "last_name"=>"van Ooyen", "scopus_author_id"=>"56207446800"}, {"first_name"=>"Arjen B.", "last_name"=>"Brussaard", "scopus_author_id"=>"7003346217"}, {"first_name"=>"Huibert D.", "last_name"=>"Mansvelder", "scopus_author_id"=>"6602241744"}, {"last_name"=>"The Neuro-Bsik Mouse Phenomics Consortium", "scopus_author_id"=>"54402645900"}, {"first_name"=>"August B.", "last_name"=>"Smit", "scopus_author_id"=>"13310353000"}, {"first_name"=>"Mathisca", "last_name"=>"de Gunst", "scopus_author_id"=>"56036388600"}, {"first_name"=>"Klaus", "last_name"=>"Linkenkaer-Hansen", "scopus_author_id"=>"6602321598"}], "year"=>2011, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"362837228", "scopus"=>"2-s2.0-80055107941", "pmid"=>"22066001", "doi"=>"10.1371/journal.pone.0026586", "sgr"=>"80055107941", "issn"=>"19326203"}, "id"=>"ef5a278b-f05d-39c0-9f2c-0f25ebba62cb", "abstract"=>"The hippocampus is critical for a wide range of emotional and cognitive behaviors. Here, we performed the first genome-wide search for genes influencing hippocampal oscillations. We measured local field potentials (LFPs) using 64-channel multi-electrode arrays in acute hippocampal slices of 29 BXD recombinant inbred mouse strains. Spontaneous activity and carbachol-induced fast network oscillations were analyzed with spectral and cross-correlation methods and the resulting traits were used for mapping quantitative trait loci (QTLs), i.e., regions on the genome that may influence hippocampal function. Using genome-wide hippocampal gene expression data, we narrowed the QTLs to eight candidate genes, including Plcb1, a phospholipase that is known to influence hippocampal oscillations. We also identified two genes coding for calcium channels, Cacna1b and Cacna1e, which mediate presynaptic transmitter release and have not been shown to regulate hippocampal network activity previously. Furthermore, we showed that the amplitude of the hippocampal oscillations is genetically correlated with hippocampal volume and several measures of novel environment exploration.", "link"=>"http://www.mendeley.com/research/novel-candidate-genes-associated-hippocampal-oscillations-1", "reader_count"=>32, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>4, "Researcher"=>11, "Student > Ph. D. Student"=>6, "Student > Postgraduate"=>1, "Student > Master"=>4, "Other"=>1, "Student > Bachelor"=>2, "Professor"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>4, "Researcher"=>11, "Student > Ph. D. Student"=>6, "Student > Postgraduate"=>1, "Student > Master"=>4, "Other"=>1, "Student > Bachelor"=>2, "Professor"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>4, "Agricultural and Biological Sciences"=>18, "Medicine and Dentistry"=>4, "Neuroscience"=>2, "Physics and Astronomy"=>1, "Psychology"=>2, "Linguistics"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>4}, "Neuroscience"=>{"Neuroscience"=>2}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Psychology"=>{"Psychology"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>18}, "Linguistics"=>{"Linguistics"=>1}, "Unspecified"=>{"Unspecified"=>4}}, "reader_count_by_country"=>{"United States"=>2, "Brazil"=>1, "Kazakhstan"=>1, "Germany"=>1}, "group_count"=>1}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/718947"], "description"=>"<p>Scatter plots of (A) amplitude 1–45 Hz versus hippocampus volume, and (B) peak amplitude versus locomotion in novel open field. More detailed analysis of locomotion revealed a negative correlation with the duration of progression segments (C), but a positive correlation with the duration of lingering segments (D). The black dots represent BXD strain means. IDs refer to the GeneNetwork database.</p>", "links"=>[], "tags"=>["carbachol-induced", "oscillations", "shows", "correlations", "hippocampal", "locomotion"], "article_id"=>389293, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g005", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Amplitude_of_carbachol_induced_oscillations_shows_prominent_genetic_correlations_with_hippocampal_volume_and_locomotion_traits_/389293", "title"=>"Amplitude of carbachol-induced oscillations shows prominent genetic correlations with hippocampal volume and locomotion traits.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:34:53"}
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Here, we performed the first genome-wide search for genes influencing hippocampal oscillations. We measured local field potentials (LFPs) using 64-channel multi-electrode arrays in acute hippocampal slices of 29 BXD recombinant inbred mouse strains. Spontaneous activity and carbachol-induced fast network oscillations were analyzed with spectral and cross-correlation methods and the resulting traits were used for mapping quantitative trait loci (QTLs), i.e., regions on the genome that may influence hippocampal function. Using genome-wide hippocampal gene expression data, we narrowed the QTLs to eight candidate genes, including <em>Plcb1</em>, a phospholipase that is known to influence hippocampal oscillations. We also identified two genes coding for calcium channels, <em>Cacna1b</em> and <em>Cacna1e</em>, which mediate presynaptic transmitter release and have not been shown to regulate hippocampal network activity previously. Furthermore, we showed that the amplitude of the hippocampal oscillations is genetically correlated with hippocampal volume and several measures of novel environment exploration.</p> </div>", "links"=>[], "tags"=>["genes", "hippocampal", "oscillations"], "article_id"=>131881, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0026586.s001", "https://dx.doi.org/10.1371/journal.pone.0026586.s002", "https://dx.doi.org/10.1371/journal.pone.0026586.s003", "https://dx.doi.org/10.1371/journal.pone.0026586.s004", "https://dx.doi.org/10.1371/journal.pone.0026586.s005", "https://dx.doi.org/10.1371/journal.pone.0026586.s006", "https://dx.doi.org/10.1371/journal.pone.0026586.s007", "https://dx.doi.org/10.1371/journal.pone.0026586.s008", "https://dx.doi.org/10.1371/journal.pone.0026586.s009", "https://dx.doi.org/10.1371/journal.pone.0026586.s010", "https://dx.doi.org/10.1371/journal.pone.0026586.s011", "https://dx.doi.org/10.1371/journal.pone.0026586.s012", "https://dx.doi.org/10.1371/journal.pone.0026586.s013", "https://dx.doi.org/10.1371/journal.pone.0026586.s014", "https://dx.doi.org/10.1371/journal.pone.0026586.s015", "https://dx.doi.org/10.1371/journal.pone.0026586.s016", "https://dx.doi.org/10.1371/journal.pone.0026586.s017", "https://dx.doi.org/10.1371/journal.pone.0026586.s018", "https://dx.doi.org/10.1371/journal.pone.0026586.s019", "https://dx.doi.org/10.1371/journal.pone.0026586.s020", "https://dx.doi.org/10.1371/journal.pone.0026586.s021", "https://dx.doi.org/10.1371/journal.pone.0026586.s022", "https://dx.doi.org/10.1371/journal.pone.0026586.s023", "https://dx.doi.org/10.1371/journal.pone.0026586.s024", "https://dx.doi.org/10.1371/journal.pone.0026586.s025", "https://dx.doi.org/10.1371/journal.pone.0026586.s026", "https://dx.doi.org/10.1371/journal.pone.0026586.s027", "https://dx.doi.org/10.1371/journal.pone.0026586.s028", "https://dx.doi.org/10.1371/journal.pone.0026586.s029", "https://dx.doi.org/10.1371/journal.pone.0026586.s030", "https://dx.doi.org/10.1371/journal.pone.0026586.s031", "https://dx.doi.org/10.1371/journal.pone.0026586.s032", "https://dx.doi.org/10.1371/journal.pone.0026586.s033", "https://dx.doi.org/10.1371/journal.pone.0026586.s034", "https://dx.doi.org/10.1371/journal.pone.0026586.s035", "https://dx.doi.org/10.1371/journal.pone.0026586.s036", "https://dx.doi.org/10.1371/journal.pone.0026586.s037", "https://dx.doi.org/10.1371/journal.pone.0026586.s038", "https://dx.doi.org/10.1371/journal.pone.0026586.s039", "https://dx.doi.org/10.1371/journal.pone.0026586.s040", "https://dx.doi.org/10.1371/journal.pone.0026586.s041", "https://dx.doi.org/10.1371/journal.pone.0026586.s042", "https://dx.doi.org/10.1371/journal.pone.0026586.s043"], "stats"=>{"downloads"=>5, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Novel_Candidate_Genes_Associated_with_Hippocampal_Oscillations/131881", "title"=>"Novel Candidate Genes Associated with Hippocampal Oscillations", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2011-10-31 00:31:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/718639"], "description"=>"<p>(A) Recordings from hippocampal slices in ACSF show that mouse strains differ in the amplitude of local field potential (LFP) fluctuations, as illustrated by representative traces recorded in strains with the lowest (BXD11) and highest (BXD65) amplitudes in this condition. (B) Also during carbachol-induced oscillations, we observed marked amplitude differences amongst strains; BXD51 mice had the highest, and BXD75 mice the lowest amplitudes. Depicted signals are broadband (5–40 Hz) from CA3 stratum pyramidale.</p>", "links"=>[], "tags"=>["strains"], "article_id"=>388995, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_BXD_mouse_strains_have_different_local_field_potential_amplitudes_/388995", "title"=>"BXD mouse strains have different local field potential amplitudes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:29:55"}
  • {"files"=>["https://ndownloader.figshare.com/files/718820"], "description"=>"<p>The 198 traits (columns) for each of the 29 mouse strains (rows) were clustered according to their genetic correlation. (A) A threshold of 0.45 has been introduced to mark the major clusters in the dendrogram. (B) The mean trait value is represented in color code for each strain after normalization across strains, i.e., for every column the mean equals zero and the variance equals one. The clustering in (A) largely corresponds to six classes of traits as indicated by the color-coding in (C), i.e., the peak frequency and peak amplitude for the carbachol (CCH) condition, and the broad-band amplitude (1–45 Hz) and the inter-regional correlations for both conditions. We based the QTL mapping on the mean of the traits within these six classes (see labeling below the cluster diagram).</p>", "links"=>[], "tags"=>["genetically", "correlated", "correspond", "conditions", "properties"], "article_id"=>389167, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g004", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Clusters_of_genetically_correlated_traits_correspond_to_distinct_experimental_conditions_and_properties_of_oscillations_/389167", "title"=>"Clusters of genetically correlated traits correspond to distinct experimental conditions and properties of oscillations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:32:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/718707"], "description"=>"<p>(A) The mean and SEM of peak amplitude in the CA1 stratum pyramidale for each of the 29 BXD strains. The heritability indicates that the peak amplitude is sensitive to genetic variation of the BXD strains. (B–D) Scatter plots of trait means per BXD strain of peak amplitude in CA1 stratum pyramidale versus (B) the integrated amplitude at 4–7 Hz during the ACSF condition in CA3 stratum pyramidale, (C) the integrated amplitude at 13–25 Hz in CA1 stratum pyramidale, and (D) the peak amplitude in CA3 stratum pyramidale. The correlation of the strain means is an estimate of the genetic correlation, which ranged from low (B) to high (D), indicating different and similar underlying genes, respectively.</p>", "links"=>[], "tags"=>["properties", "hippocampal"], "article_id"=>389053, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Different_properties_of_hippocampal_network_activity_in_vitro_depend_on_different_genes_/389053", "title"=>"Different properties of hippocampal network activity <i>in vitro</i> depend on different genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:30:53"}
  • {"files"=>["https://ndownloader.figshare.com/files/719038"], "description"=>"<p>The LRS scores (<i>y</i>-axis) quantify the relation between genomic markers (<i>x</i>-axis) and six traits. Integrated amplitude between 1 and 45 Hz at the ACSF (A) and carbachol (CCH) condition (C), peak amplitude (D) and frequency (F) at the carbachol condition, inter-regional correlation at the ACSF (B) and carbachol condition (E). The red horizontal lines indicate the threshold for significance (<i>p</i> = 0.05), whereas the grey lines indicate suggestive significance (<i>p</i> = 0.63). For the traits depicted here, we selected the 18 QTLs above the suggestive significance level and correlated the hippocampal traits with expression data of genes within these QTLs.</p>", "links"=>[], "tags"=>["hippocampal", "peaks", "19"], "article_id"=>389390, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g006", "stats"=>{"downloads"=>1, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_QTL_mapping_of_six_hippocampal_activity_traits_peaks_at_19_different_locations_/389390", "title"=>"QTL mapping of six hippocampal activity traits peaks at 19 different locations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:36:30"}
  • {"files"=>["https://ndownloader.figshare.com/files/718526"], "description"=>"<p>(A) The 8-by-8 multi-electrode array covering a slice of the mouse hippocampus. Black dots are electrodes and the spacing is 200 µm. For every slice, a photograph was taken to classify the electrode location into one of the nine hippocampal subregions shown in (B). (C) Time-frequency representation of a signal in CA3 stratum pyramidale for the complete experimental recording. (D) Examples of broadband (1–45 Hz) local field potential (LFP) traces in the ACSF (<i>blue</i>) and carbachol (<i>red</i>) condition. (E) Amplitude spectra of representative signals in each condition. (F) Box-plot summaries of peak frequencies of carbachol-induces oscillations, measured at different temperatures. The frequency approaches the gamma-frequency range (>30 Hz) at physiological temperature.</p>", "links"=>[], "tags"=>["potentials", "recorded", "hippocampal", "slices", "multi-electrode", "arrays", "acsf"], "article_id"=>388874, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Local_field_potentials_were_recorded_in_hippocampal_slices_with_multi_electrode_arrays_during_ACSF_and_during_application_of_carbachol_/388874", "title"=>"Local field potentials were recorded in hippocampal slices with multi-electrode arrays during ACSF and during application of carbachol.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-31 02:27:54"}
  • {"files"=>["https://ndownloader.figshare.com/files/719145"], "description"=>"<p>Each row contains the information belonging to one candidate gene. Indicated are the hippocampal activity trait associated with the gene, the location of the QTL (chr = chromosome, location in Megabases) that harbors the gene found, the LRS score of the QTL, the gene symbol, the correlation between trait and level of expression of the gene, and finally the <i>p</i>-value from the correlation, computed with a permutation test.</p>", "links"=>[], "tags"=>["revealed", "genes", "influencing", "hippocampal"], "article_id"=>389491, "categories"=>["Biological Sciences", "Mental Health", "Neuroscience", "Genetics"], "users"=>["Rick Jansen", "Jaap Timmerman", "Maarten Loos", "Sabine Spijker", "Arjen van Ooyen", "Arjen B. Brussaard", "Huibert D. Mansvelder", "August B. Smit", "Mathisca de Gunst", "Klaus Linkenkaer-Hansen"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0026586.t001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_QTL_mapping_and_correlation_with_gene_expression_revealed_eight_candidate_genes_for_influencing_hippocampal_activity_/389491", "title"=>"QTL mapping and correlation with gene expression revealed eight candidate genes for influencing hippocampal activity.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-10-31 02:38:11"}

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