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Sebé-Pedrós A, Ballaré C, Parra-Acero H, Chiva C, Tena JJ, Sabidó E, Gómez-Skarmeta JL, Di Croce L, Ruiz-Trillo I. The Dynamic Regulatory Genome of Capsaspora and the Origin of Animal Multicellularity. Cell 2016; 165:1224-1237. [PMID: 27114036 PMCID: PMC4877666 DOI: 10.1016/j.cell.2016.03.034] [Citation(s) in RCA: 108] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2015] [Revised: 02/03/2016] [Accepted: 03/18/2016] [Indexed: 12/16/2022]
Abstract
The unicellular ancestor of animals had a complex repertoire of genes linked to multicellular processes. This suggests that changes in the regulatory genome, rather than in gene innovation, were key to the origin of animals. Here, we carry out multiple functional genomic assays in Capsaspora owczarzaki, the unicellular relative of animals with the largest known gene repertoire for transcriptional regulation. We show that changing chromatin states, differential lincRNA expression, and dynamic cis-regulatory sites are associated with life cycle transitions in Capsaspora. Moreover, we demonstrate conservation of animal developmental transcription-factor networks and extensive network interconnection in this premetazoan organism. In contrast, however, Capsaspora lacks animal promoter types, and its regulatory sites are small, proximal, and lack signatures of animal enhancers. Overall, our results indicate that the emergence of animal multicellularity was linked to a major shift in genome cis-regulatory complexity, most notably the appearance of distal enhancer regulation.
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Affiliation(s)
- Arnau Sebé-Pedrós
- Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra), Passeig Marítim de la Barceloneta 37-49, 08003 Barcelona, Spain.
| | - Cecilia Ballaré
- Center for Genomic Regulation, Doctor Aiguader 88, 08003 Barcelona, Spain; Universitat Pompeu Fabra (UPF), Doctor Aiguader 88, 08003 Barcelona, Spain
| | - Helena Parra-Acero
- Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra), Passeig Marítim de la Barceloneta 37-49, 08003 Barcelona, Spain
| | - Cristina Chiva
- Center for Genomic Regulation, Doctor Aiguader 88, 08003 Barcelona, Spain; Universitat Pompeu Fabra (UPF), Doctor Aiguader 88, 08003 Barcelona, Spain
| | - Juan J Tena
- Centro Andaluz de Biología del Desarrollo (CABD), CSIC-Universidad Pablo de Olavide-Junta de Andalucía, Carretera de Utrera Km1, 41013 Sevilla, Spain
| | - Eduard Sabidó
- Center for Genomic Regulation, Doctor Aiguader 88, 08003 Barcelona, Spain; Universitat Pompeu Fabra (UPF), Doctor Aiguader 88, 08003 Barcelona, Spain
| | - José Luis Gómez-Skarmeta
- Centro Andaluz de Biología del Desarrollo (CABD), CSIC-Universidad Pablo de Olavide-Junta de Andalucía, Carretera de Utrera Km1, 41013 Sevilla, Spain
| | - Luciano Di Croce
- Center for Genomic Regulation, Doctor Aiguader 88, 08003 Barcelona, Spain; Universitat Pompeu Fabra (UPF), Doctor Aiguader 88, 08003 Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats, Pg Lluis Companys 23, 08010 Barcelona, Spain
| | - Iñaki Ruiz-Trillo
- Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra), Passeig Marítim de la Barceloneta 37-49, 08003 Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats, Pg Lluis Companys 23, 08010 Barcelona, Spain; Departament de Genètica, Universitat de Barcelona, 08028 Barcelona, Spain.
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152
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Gehring KB, Heufelder K, Feige J, Bauer P, Dyck Y, Ehrhardt L, Kühnemund J, Bergmann A, Göbel J, Isecke M, Eisenhardt D. Involvement of phosphorylated Apis mellifera CREB in gating a honeybee's behavioral response to an external stimulus. Learn Mem 2016; 23:195-207. [PMID: 27084927 PMCID: PMC4836635 DOI: 10.1101/lm.040964.115] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Accepted: 02/23/2016] [Indexed: 11/24/2022]
Abstract
The transcription factor cAMP-response element-binding protein (CREB) is involved in neuronal plasticity. Phosphorylation activates CREB and an increased level of phosphorylated CREB is regarded as an indicator of CREB-dependent transcriptional activation. In honeybees(Apis mellifera)we recently demonstrated a particular high abundance of the phosphorylated honeybee CREB homolog (pAmCREB) in the central brain and in a subpopulation of mushroom body neurons. We hypothesize that these high pAmCREB levels are related to learning and memory formation. Here, we tested this hypothesis by analyzing brain pAmCREB levels in classically conditioned bees and bees experiencing unpaired presentations of conditioned stimulus (CS) and unconditioned stimulus (US). We demonstrate that both behavioral protocols display differences in memory formation but do not alter the level of pAmCREB in bee brains directly after training. Nevertheless, we report that bees responding to the CS during unpaired stimulus presentations exhibit higher levels of pAmCREB than nonresponding bees. In addition, Trichostatin A, a histone deacetylase inhibitor that is thought to enhance histone acetylation by CREB-binding protein, increases the bees' CS responsiveness. We conclude that pAmCREB is involved in gating a bee's behavioral response driven by an external stimulus.
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Affiliation(s)
- Katrin B Gehring
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Karin Heufelder
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Janina Feige
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Paul Bauer
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Yan Dyck
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Lea Ehrhardt
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Johannes Kühnemund
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Anja Bergmann
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Josefine Göbel
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Marlene Isecke
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
| | - Dorothea Eisenhardt
- Freie Universität Berlin, Institut für Biologie - Neurobiologie, D-14195 Berlin, Germany
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153
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Abstract
Many exciting studies have begun to elucidate the genetics of the morphological and physiological diversity of ants, but as yet few studies have investigated the genetics of ant behavior directly. Ant genomes are marked by extreme rates of gene turnover, especially in gene families related to olfactory communication, such as the synthesis of cuticular hydrocarbons and the perception of environmental semiochemicals. Transcriptomic and epigenetic differences are apparent between reproductive and sterile females, males and females, and workers that differ in body size. Quantitative genetic approaches suggest heritability of task performance, and population genetic studies indicate a genetic association with reproductive status in some species. Gene expression is associated with behavior including foraging, response to queens attempting to join a colony, circadian patterns of task performance, and age-related changes of task. Ant behavioral genetics needs further investigation of the feedback between individual-level physiological changes and socially mediated responses to environmental conditions.
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Affiliation(s)
- D A Friedman
- Department of Biology, Stanford University, Stanford, California 94305-5020;
| | - D M Gordon
- Department of Biology, Stanford University, Stanford, California 94305-5020;
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