--- _id: '9895' abstract: - lang: eng text: Additional information on proteins from OG1. (CSV 30 kb) article_processing_charge: No author: - first_name: Olga M. full_name: Sigalova, Olga M. last_name: Sigalova - first_name: Andrei V. full_name: Chaplin, Andrei V. last_name: Chaplin - first_name: Olga full_name: Bochkareva, Olga id: C4558D3C-6102-11E9-A62E-F418E6697425 last_name: Bochkareva orcid: 0000-0003-1006-6639 - first_name: Pavel V. full_name: Shelyakin, Pavel V. last_name: Shelyakin - first_name: Vsevolod A. full_name: Filaretov, Vsevolod A. last_name: Filaretov - first_name: Evgeny E. full_name: Akkuratov, Evgeny E. last_name: Akkuratov - first_name: Valentina full_name: Burskaia, Valentina last_name: Burskaia - first_name: Mikhail S. full_name: Gelfand, Mikhail S. last_name: Gelfand citation: ama: Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808835.v1 apa: Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808835.v1 chicago: Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 19 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808835.v1. ieee: O. M. Sigalova et al., “Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019. ista: Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808835.v1. mla: Sigalova, Olga M., et al. Additional File 19 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808835.v1. short: O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019). date_created: 2021-08-12T07:44:52Z date_published: 2019-09-12T00:00:00Z date_updated: 2023-08-30T06:20:21Z day: '12' department: - _id: FyKo doi: 10.6084/m9.figshare.9808835.v1 main_file_link: - open_access: '1' url: https://doi.org/10.6084/m9.figshare.9808835.v1 month: '09' oa: 1 oa_version: Published Version publisher: Springer Nature related_material: record: - id: '6898' relation: used_in_publication status: public status: public title: Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2019' ... --- _id: '9896' abstract: - lang: eng text: Summary of the analysed genomes. (CSV 24 kb) article_processing_charge: No author: - first_name: Olga M. full_name: Sigalova, Olga M. last_name: Sigalova - first_name: Andrei V. full_name: Chaplin, Andrei V. last_name: Chaplin - first_name: Olga full_name: Bochkareva, Olga id: C4558D3C-6102-11E9-A62E-F418E6697425 last_name: Bochkareva orcid: 0000-0003-1006-6639 - first_name: Pavel V. full_name: Shelyakin, Pavel V. last_name: Shelyakin - first_name: Vsevolod A. full_name: Filaretov, Vsevolod A. last_name: Filaretov - first_name: Evgeny E. full_name: Akkuratov, Evgeny E. last_name: Akkuratov - first_name: Valentina full_name: Burskaia, Valentina last_name: Burskaia - first_name: Mikhail S. full_name: Gelfand, Mikhail S. last_name: Gelfand citation: ama: Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808841.v1 apa: Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808841.v1 chicago: Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 1 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808841.v1. ieee: O. M. Sigalova et al., “Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019. ista: Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808841.v1. mla: Sigalova, Olga M., et al. Additional File 1 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808841.v1. short: O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019). date_created: 2021-08-12T07:50:53Z date_published: 2019-09-02T00:00:00Z date_updated: 2023-08-30T06:20:21Z day: '02' department: - _id: FyKo doi: 10.6084/m9.figshare.9808841.v1 main_file_link: - open_access: '1' url: https://doi.org/10.6084/m9.figshare.9808841.v1 month: '09' oa: 1 oa_version: Published Version publisher: Springer Nature related_material: record: - id: '6898' relation: used_in_publication status: public status: public title: Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2019' ... --- _id: '6899' abstract: - lang: eng text: Intra-organ communication guides morphogenetic processes that are essential for an organ to carry out complex physiological functions. In the heart, the growth of the myocardium is tightly coupled to that of the endocardium, a specialized endothelial tissue that lines its interior. Several molecular pathways have been implicated in the communication between these tissues including secreted factors, components of the extracellular matrix, or proteins involved in cell-cell communication. Yet, it is unknown how the growth of the endocardium is coordinated with that of the myocardium. Here, we show that an increased expansion of the myocardial atrial chamber volume generates higher junctional forces within endocardial cells. This leads to biomechanical signaling involving VE-cadherin, triggering nuclear localization of the Hippo pathway transcriptional regulator Yap1 and endocardial proliferation. Our work suggests that the growth of the endocardium results from myocardial chamber volume expansion and ends when the tension on the tissue is relaxed. article_processing_charge: No author: - first_name: Dorothee full_name: Bornhorst, Dorothee last_name: Bornhorst - first_name: Peng full_name: Xia, Peng id: 4AB6C7D0-F248-11E8-B48F-1D18A9856A87 last_name: Xia orcid: 0000-0002-5419-7756 - first_name: Hiroyuki full_name: Nakajima, Hiroyuki last_name: Nakajima - first_name: Chaitanya full_name: Dingare, Chaitanya last_name: Dingare - first_name: Wiebke full_name: Herzog, Wiebke last_name: Herzog - first_name: Virginie full_name: Lecaudey, Virginie last_name: Lecaudey - first_name: Naoki full_name: Mochizuki, Naoki last_name: Mochizuki - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 - first_name: Deborah full_name: Yelon, Deborah last_name: Yelon - first_name: Salim full_name: Abdelilah-Seyfried, Salim last_name: Abdelilah-Seyfried citation: ama: Bornhorst D, Xia P, Nakajima H, et al. Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature communications. 2019;10(1):4113. doi:10.1038/s41467-019-12068-x apa: Bornhorst, D., Xia, P., Nakajima, H., Dingare, C., Herzog, W., Lecaudey, V., … Abdelilah-Seyfried, S. (2019). Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/s41467-019-12068-x chicago: Bornhorst, Dorothee, Peng Xia, Hiroyuki Nakajima, Chaitanya Dingare, Wiebke Herzog, Virginie Lecaudey, Naoki Mochizuki, Carl-Philipp J Heisenberg, Deborah Yelon, and Salim Abdelilah-Seyfried. “Biomechanical Signaling within the Developing Zebrafish Heart Attunes Endocardial Growth to Myocardial Chamber Dimensions.” Nature Communications. Nature Publishing Group, 2019. https://doi.org/10.1038/s41467-019-12068-x. ieee: D. Bornhorst et al., “Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions,” Nature communications, vol. 10, no. 1. Nature Publishing Group, p. 4113, 2019. ista: Bornhorst D, Xia P, Nakajima H, Dingare C, Herzog W, Lecaudey V, Mochizuki N, Heisenberg C-PJ, Yelon D, Abdelilah-Seyfried S. 2019. Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature communications. 10(1), 4113. mla: Bornhorst, Dorothee, et al. “Biomechanical Signaling within the Developing Zebrafish Heart Attunes Endocardial Growth to Myocardial Chamber Dimensions.” Nature Communications, vol. 10, no. 1, Nature Publishing Group, 2019, p. 4113, doi:10.1038/s41467-019-12068-x. short: D. Bornhorst, P. Xia, H. Nakajima, C. Dingare, W. Herzog, V. Lecaudey, N. Mochizuki, C.-P.J. Heisenberg, D. Yelon, S. Abdelilah-Seyfried, Nature Communications 10 (2019) 4113. date_created: 2019-09-22T22:00:37Z date_published: 2019-09-11T00:00:00Z date_updated: 2023-08-30T06:21:23Z day: '11' ddc: - '570' department: - _id: CaHe doi: 10.1038/s41467-019-12068-x external_id: isi: - '000485216800009' pmid: - '31511517' file: - access_level: open_access checksum: 62c2512712e16d27c1797d318d14ba9f content_type: application/pdf creator: kschuh date_created: 2019-10-01T11:18:50Z date_updated: 2020-07-14T12:47:44Z file_id: '6926' file_name: 2019_Nature_Bornhorst.pdf file_size: 3905793 relation: main_file file_date_updated: 2020-07-14T12:47:44Z has_accepted_license: '1' intvolume: ' 10' isi: 1 issue: '1' language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: '4113' pmid: 1 publication: Nature communications publication_identifier: eissn: - '20411723' publication_status: published publisher: Nature Publishing Group quality_controlled: '1' scopus_import: '1' status: public title: Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 10 year: '2019' ... --- _id: '6898' abstract: - lang: eng text: "Background\r\n\r\nChlamydia are ancient intracellular pathogens with reduced, though strikingly conserved genome. Despite their parasitic lifestyle and isolated intracellular environment, these bacteria managed to avoid accumulation of deleterious mutations leading to subsequent genome degradation characteristic for many parasitic bacteria.\r\nResults\r\n\r\nWe report pan-genomic analysis of sixteen species from genus Chlamydia including identification and functional annotation of orthologous genes, and characterization of gene gains, losses, and rearrangements. We demonstrate the overall genome stability of these bacteria as indicated by a large fraction of common genes with conserved genomic locations. On the other hand, extreme evolvability is confined to several paralogous gene families such as polymorphic membrane proteins and phospholipase D, and likely is caused by the pressure from the host immune system.\r\nConclusions\r\n\r\nThis combination of a large, conserved core genome and a small, evolvable periphery likely reflect the balance between the selective pressure towards genome reduction and the need to adapt to escape from the host immunity." article_number: '710' article_processing_charge: No author: - first_name: Olga M. full_name: Sigalova, Olga M. last_name: Sigalova - first_name: Andrei V. full_name: Chaplin, Andrei V. last_name: Chaplin - first_name: Olga full_name: Bochkareva, Olga id: C4558D3C-6102-11E9-A62E-F418E6697425 last_name: Bochkareva orcid: 0000-0003-1006-6639 - first_name: Pavel V. full_name: Shelyakin, Pavel V. last_name: Shelyakin - first_name: Vsevolod A. full_name: Filaretov, Vsevolod A. last_name: Filaretov - first_name: Evgeny E. full_name: Akkuratov, Evgeny E. last_name: Akkuratov - first_name: Valentina full_name: Burskaia, Valentina last_name: Burskaia - first_name: Mikhail S. full_name: Gelfand, Mikhail S. last_name: Gelfand citation: ama: Sigalova OM, Chaplin AV, Bochkareva O, et al. Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. 2019;20(1). doi:10.1186/s12864-019-6059-5 apa: Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. BioMed Central. https://doi.org/10.1186/s12864-019-6059-5 chicago: Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” BMC Genomics. BioMed Central, 2019. https://doi.org/10.1186/s12864-019-6059-5. ieee: O. M. Sigalova et al., “Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction,” BMC Genomics, vol. 20, no. 1. BioMed Central, 2019. ista: Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. 20(1), 710. mla: Sigalova, Olga M., et al. “Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” BMC Genomics, vol. 20, no. 1, 710, BioMed Central, 2019, doi:10.1186/s12864-019-6059-5. short: O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, BMC Genomics 20 (2019). date_created: 2019-09-22T22:00:36Z date_published: 2019-09-12T00:00:00Z date_updated: 2023-08-30T06:20:22Z day: '12' ddc: - '570' department: - _id: FyKo doi: 10.1186/s12864-019-6059-5 external_id: isi: - '000485256100001' file: - access_level: open_access checksum: b798773c5823012d31c812c9f7975da2 content_type: application/pdf creator: kschuh date_created: 2019-10-01T10:33:17Z date_updated: 2020-07-14T12:47:44Z file_id: '6924' file_name: 2019_BioMed_Sigalova.pdf file_size: 4157175 relation: main_file file_date_updated: 2020-07-14T12:47:44Z has_accepted_license: '1' intvolume: ' 20' isi: 1 issue: '1' language: - iso: eng month: '09' oa: 1 oa_version: Published Version publication: BMC Genomics publication_identifier: eissn: - '14712164' publication_status: published publisher: BioMed Central quality_controlled: '1' related_material: record: - id: '9731' relation: research_data status: public - id: '9783' relation: research_data status: public - id: '9890' relation: research_data status: public - id: '9892' relation: research_data status: public - id: '9893' relation: research_data status: public - id: '9894' relation: research_data status: public - id: '9895' relation: research_data status: public - id: '9896' relation: research_data status: public - id: '9897' relation: research_data status: public - id: '9898' relation: research_data status: public - id: '9899' relation: research_data status: public - id: '9900' relation: research_data status: public - id: '9901' relation: research_data status: public scopus_import: '1' status: public title: Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 20 year: '2019' ... --- _id: '6920' article_processing_charge: No article_type: original author: - first_name: Christina full_name: Artner, Christina id: 45DF286A-F248-11E8-B48F-1D18A9856A87 last_name: Artner - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Artner C, Benková E. Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. 2019;12(10):1312-1314. doi:10.1016/j.molp.2019.09.003 apa: Artner, C., & Benková, E. (2019). Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. Cell Press. https://doi.org/10.1016/j.molp.2019.09.003 chicago: Artner, Christina, and Eva Benková. “Ethylene and Cytokinin - Partners in Root Growth Regulation.” Molecular Plant. Cell Press, 2019. https://doi.org/10.1016/j.molp.2019.09.003. ieee: C. Artner and E. Benková, “Ethylene and cytokinin - partners in root growth regulation,” Molecular Plant, vol. 12, no. 10. Cell Press, pp. 1312–1314, 2019. ista: Artner C, Benková E. 2019. Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. 12(10), 1312–1314. mla: Artner, Christina, and Eva Benková. “Ethylene and Cytokinin - Partners in Root Growth Regulation.” Molecular Plant, vol. 12, no. 10, Cell Press, 2019, pp. 1312–14, doi:10.1016/j.molp.2019.09.003. short: C. Artner, E. Benková, Molecular Plant 12 (2019) 1312–1314. date_created: 2019-09-30T10:00:40Z date_published: 2019-10-07T00:00:00Z date_updated: 2023-08-30T06:55:02Z day: '07' department: - _id: EvBe doi: 10.1016/j.molp.2019.09.003 external_id: isi: - '000489132500002' pmid: - '31541740' intvolume: ' 12' isi: 1 issue: '10' language: - iso: eng month: '10' oa_version: None page: 1312-1314 pmid: 1 project: - _id: 2685A872-B435-11E9-9278-68D0E5697425 name: Hormonal regulation of plant adaptive responses to environmental signals publication: Molecular Plant publication_identifier: issn: - 1674-2052 - 1752-9867 publication_status: published publisher: Cell Press quality_controlled: '1' scopus_import: '1' status: public title: Ethylene and cytokinin - partners in root growth regulation type: journal_article user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8 volume: 12 year: '2019' ...