[{"year":"2023","has_accepted_license":"1","_id":"14077","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":13,"publication_identifier":{"issn":["2160-1836"]},"citation":{"ama":"Puixeu Sala G, Macon A, Vicoso B. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. 2023;13(8). doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>","short":"G. Puixeu Sala, A. Macon, B. Vicoso, G3: Genes, Genomes, Genetics 13 (2023).","mla":"Puixeu Sala, Gemma, et al. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>.","ista":"Puixeu Sala G, Macon A, Vicoso B. 2023. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. G3: Genes, Genomes, Genetics. 13(8).","ieee":"G. Puixeu Sala, A. Macon, and B. Vicoso, “Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster,” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8. Oxford University Press, 2023.","chicago":"Puixeu Sala, Gemma, Ariana Macon, and Beatriz Vicoso. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>.","apa":"Puixeu Sala, G., Macon, A., &#38; Vicoso, B. (2023). Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>"},"external_id":{"isi":["001002997200001"]},"article_type":"original","issue":"8","status":"public","acknowledgement":"We thank members of the Vicoso Group for comments on the manuscript, the Scientific Computing Unit at ISTA for technical support, and 2 anonymous reviewers for useful feedback. GP is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (DOC 25817) and received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant (agreement no. 665385).","oa":1,"oa_version":"Published Version","date_created":"2023-08-18T06:52:14Z","ec_funded":1,"publisher":"Oxford University Press","department":[{"_id":"BeVi"},{"_id":"NiBa"},{"_id":"GradSch"}],"title":"Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster","publication":"G3: Genes, Genomes, Genetics","abstract":[{"lang":"eng","text":"The regulatory architecture of gene expression is known to differ substantially between sexes in Drosophila, but most studies performed\r\nso far used whole-body data and only single crosses, which may have limited their scope to detect patterns that are robust across tissues\r\nand biological replicates. Here, we use allele-specific gene expression of parental and reciprocal hybrid crosses between 6 Drosophila\r\nmelanogaster inbred lines to quantify cis- and trans-regulatory variation in heads and gonads of both sexes separately across 3 replicate\r\ncrosses. Our results suggest that female and male heads, as well as ovaries, have a similar regulatory architecture. On the other hand,\r\ntestes display more and substantially different cis-regulatory effects, suggesting that sex differences in the regulatory architecture that\r\nhave been previously observed may largely derive from testis-specific effects. We also examine the difference in cis-regulatory variation\r\nof genes across different levels of sex bias in gonads and heads. Consistent with the idea that intersex correlations constrain expression\r\nand can lead to sexual antagonism, we find more cis variation in unbiased and moderately biased genes in heads. In ovaries, reduced cis\r\nvariation is observed for male-biased genes, suggesting that cis variants acting on these genes in males do not lead to changes in ovary\r\nexpression. Finally, we examine the dominance patterns of gene expression and find that sex- and tissue-specific patterns of inheritance\r\nas well as trans-regulatory variation are highly variable across biological crosses, although these were performed in highly controlled\r\nexperimental conditions. This highlights the importance of using various genetic backgrounds to infer generalizable patterns."}],"publication_status":"published","file":[{"file_id":"14498","date_updated":"2023-11-07T09:00:19Z","file_name":"2023_G3_Puixeu.pdf","checksum":"c62e29fc7c5efbf8356f4c60cab4a2d1","file_size":845642,"creator":"dernst","access_level":"open_access","relation":"main_file","success":1,"date_created":"2023-11-07T09:00:19Z","content_type":"application/pdf"}],"intvolume":"        13","language":[{"iso":"eng"}],"project":[{"grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A","grant_number":"25817","name":"Sexual conflict: resolution, constraints and biomedical implications"}],"isi":1,"month":"08","day":"01","ddc":["570"],"acknowledged_ssus":[{"_id":"ScienComp"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2023-11-07T09:00:19Z","quality_controlled":"1","scopus_import":"1","keyword":["Genetics (clinical)","Genetics","Molecular Biology"],"date_updated":"2023-12-13T12:15:37Z","related_material":{"record":[{"id":"12933","relation":"research_data","status":"public"},{"status":"public","relation":"dissertation_contains","id":"14058"}]},"doi":"10.1093/g3journal/jkad121","article_processing_charge":"Yes","date_published":"2023-08-01T00:00:00Z","author":[{"last_name":"Puixeu Sala","orcid":"0000-0001-8330-1754","first_name":"Gemma","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","full_name":"Puixeu Sala, Gemma"},{"id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","full_name":"Macon, Ariana","last_name":"Macon","first_name":"Ariana"},{"full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306"}]},{"quality_controlled":"1","article_processing_charge":"No","doi":"10.1534/g3.119.400654","date_updated":"2021-01-12T08:14:07Z","author":[{"first_name":"Jesse","last_name":"Cohn","full_name":"Cohn, Jesse"},{"full_name":"Dwivedi, Vivek","last_name":"Dwivedi","first_name":"Vivek"},{"first_name":"Giulio","last_name":"Valperga","full_name":"Valperga, Giulio"},{"first_name":"Nicole","last_name":"Zarate","full_name":"Zarate, Nicole"},{"first_name":"Mario","orcid":"0000-0001-8347-0443","last_name":"de Bono","full_name":"de Bono, Mario","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"H. Robert","last_name":"Horvitz","full_name":"Horvitz, H. Robert"},{"full_name":"Pierce, Jonathan T.","last_name":"Pierce","first_name":"Jonathan T."}],"date_published":"2019-11-01T00:00:00Z","publication_status":"published","intvolume":"         9","month":"11","language":[{"iso":"eng"}],"day":"01","pmid":1,"date_created":"2020-02-28T10:44:27Z","oa_version":"Published Version","publisher":"Genetics Society of America","publication":"G3: Genes, Genomes, Genetics","title":"Activity-dependent regulation of the proapoptotic BH3-only gene egl-1 in a living neuron pair in Caenorhabditis elegans","extern":"1","abstract":[{"text":"The BH3-only family of proteins is key for initiating apoptosis in a variety of contexts, and may also contribute to non-apoptotic cellular processes. Historically, the nematode Caenorhabditis elegans has provided a powerful system for studying and identifying conserved regulators of BH3-only proteins. In C. elegans, the BH3-only protein egl-1 is expressed during development to cell-autonomously trigger most developmental cell deaths. Here we provide evidence that egl-1 is also transcribed after development in the sensory neuron pair URX without inducing apoptosis. We used genetic screening and epistasis analysis to determine that its transcription is regulated in URX by neuronal activity and/or in parallel by orthologs of Protein Kinase G and the Salt-Inducible Kinase family. Because several BH3-only family proteins are also expressed in the adult nervous system of mammals, we suggest that studying egl-1 expression in URX may shed light on mechanisms that regulate conserved family members in higher organisms.","lang":"eng"}],"year":"2019","_id":"7547","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":9,"page":"3703-3714","publication_identifier":{"issn":["2160-1836"]},"citation":{"apa":"Cohn, J., Dwivedi, V., Valperga, G., Zarate, N., de Bono, M., Horvitz, H. R., &#38; Pierce, J. T. (2019). Activity-dependent regulation of the proapoptotic BH3-only gene egl-1 in a living neuron pair in Caenorhabditis elegans. <i>G3: Genes, Genomes, Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/g3.119.400654\">https://doi.org/10.1534/g3.119.400654</a>","chicago":"Cohn, Jesse, Vivek Dwivedi, Giulio Valperga, Nicole Zarate, Mario de Bono, H. Robert Horvitz, and Jonathan T. Pierce. “Activity-Dependent Regulation of the Proapoptotic BH3-Only Gene Egl-1 in a Living Neuron Pair in Caenorhabditis Elegans.” <i>G3: Genes, Genomes, Genetics</i>. Genetics Society of America, 2019. <a href=\"https://doi.org/10.1534/g3.119.400654\">https://doi.org/10.1534/g3.119.400654</a>.","ieee":"J. Cohn <i>et al.</i>, “Activity-dependent regulation of the proapoptotic BH3-only gene egl-1 in a living neuron pair in Caenorhabditis elegans,” <i>G3: Genes, Genomes, Genetics</i>, vol. 9, no. 11. Genetics Society of America, pp. 3703–3714, 2019.","ista":"Cohn J, Dwivedi V, Valperga G, Zarate N, de Bono M, Horvitz HR, Pierce JT. 2019. Activity-dependent regulation of the proapoptotic BH3-only gene egl-1 in a living neuron pair in Caenorhabditis elegans. G3: Genes, Genomes, Genetics. 9(11), 3703–3714.","mla":"Cohn, Jesse, et al. “Activity-Dependent Regulation of the Proapoptotic BH3-Only Gene Egl-1 in a Living Neuron Pair in Caenorhabditis Elegans.” <i>G3: Genes, Genomes, Genetics</i>, vol. 9, no. 11, Genetics Society of America, 2019, pp. 3703–14, doi:<a href=\"https://doi.org/10.1534/g3.119.400654\">10.1534/g3.119.400654</a>.","short":"J. Cohn, V. Dwivedi, G. Valperga, N. Zarate, M. de Bono, H.R. Horvitz, J.T. Pierce, G3: Genes, Genomes, Genetics 9 (2019) 3703–3714.","ama":"Cohn J, Dwivedi V, Valperga G, et al. Activity-dependent regulation of the proapoptotic BH3-only gene egl-1 in a living neuron pair in Caenorhabditis elegans. <i>G3: Genes, Genomes, Genetics</i>. 2019;9(11):3703-3714. doi:<a href=\"https://doi.org/10.1534/g3.119.400654\">10.1534/g3.119.400654</a>"},"issue":"11","article_type":"original","external_id":{"pmid":["31519744"]},"status":"public"}]