Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data
Cellular homeostasis is regulated by signals through multiple molecular networks that include protein phosphorylation and metabolites. However, where and when the signal flows through a network and regulates homeostasis has not been explored. We have developed a reconstruction method for the signal...
| Main Authors: | , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2014-08-01
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| Series: | Cell Reports |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2211124714005907 |
| _version_ | 1818914626268561408 |
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| author | Katsuyuki Yugi Hiroyuki Kubota Yu Toyoshima Rei Noguchi Kentaro Kawata Yasunori Komori Shinsuke Uda Katsuyuki Kunida Yoko Tomizawa Yosuke Funato Hiroaki Miki Masaki Matsumoto Keiichi I. Nakayama Kasumi Kashikura Keiko Endo Kazutaka Ikeda Tomoyoshi Soga Shinya Kuroda |
| author_facet | Katsuyuki Yugi Hiroyuki Kubota Yu Toyoshima Rei Noguchi Kentaro Kawata Yasunori Komori Shinsuke Uda Katsuyuki Kunida Yoko Tomizawa Yosuke Funato Hiroaki Miki Masaki Matsumoto Keiichi I. Nakayama Kasumi Kashikura Keiko Endo Kazutaka Ikeda Tomoyoshi Soga Shinya Kuroda |
| author_sort | Katsuyuki Yugi |
| collection | DOAJ |
| description | Cellular homeostasis is regulated by signals through multiple molecular networks that include protein phosphorylation and metabolites. However, where and when the signal flows through a network and regulates homeostasis has not been explored. We have developed a reconstruction method for the signal flow based on time-course phosphoproteome and metabolome data, using multiple databases, and have applied it to acute action of insulin, an important hormone for metabolic homeostasis. An insulin signal flows through a network, through signaling pathways that involve 13 protein kinases, 26 phosphorylated metabolic enzymes, and 35 allosteric effectors, resulting in quantitative changes in 44 metabolites. Analysis of the network reveals that insulin induces phosphorylation and activation of liver-type phosphofructokinase 1, thereby controlling a key reaction in glycolysis. We thus provide a versatile method of reconstruction of signal flow through the network using phosphoproteome and metabolome data. |
| first_indexed | 2024-12-19T23:49:22Z |
| format | Article |
| id | doaj.art-5aeb92b1cd164234a5216b8ad109b25a |
| institution | Directory Open Access Journal |
| issn | 2211-1247 |
| language | English |
| last_indexed | 2024-12-19T23:49:22Z |
| publishDate | 2014-08-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj.art-5aeb92b1cd164234a5216b8ad109b25a2022-12-21T20:01:12ZengElsevierCell Reports2211-12472014-08-01841171118310.1016/j.celrep.2014.07.021Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome DataKatsuyuki Yugi0Hiroyuki Kubota1Yu Toyoshima2Rei Noguchi3Kentaro Kawata4Yasunori Komori5Shinsuke Uda6Katsuyuki Kunida7Yoko Tomizawa8Yosuke Funato9Hiroaki Miki10Masaki Matsumoto11Keiichi I. Nakayama12Kasumi Kashikura13Keiko Endo14Kazutaka Ikeda15Tomoyoshi Soga16Shinya Kuroda17Department of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Computational Biology, Graduate School of Frontier Sciences, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanDepartment of Cellular Regulation, Research Institute for Microbial Diseases, Osaka University, Suita, Osaka 565-0871, JapanDepartment of Cellular Regulation, Research Institute for Microbial Diseases, Osaka University, Suita, Osaka 565-0871, JapanDepartment of Molecular and Cellular Biology, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka, Fukuoka 812–8582, JapanDepartment of Molecular and Cellular Biology, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka, Fukuoka 812–8582, JapanInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0052, JapanInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0052, JapanInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0052, JapanInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0052, JapanDepartment of Biological Sciences, Graduate School of Science, University of Tokyo, Hongo 7-3-1, Bunkyo-ku, Tokyo 113-0033, JapanCellular homeostasis is regulated by signals through multiple molecular networks that include protein phosphorylation and metabolites. However, where and when the signal flows through a network and regulates homeostasis has not been explored. We have developed a reconstruction method for the signal flow based on time-course phosphoproteome and metabolome data, using multiple databases, and have applied it to acute action of insulin, an important hormone for metabolic homeostasis. An insulin signal flows through a network, through signaling pathways that involve 13 protein kinases, 26 phosphorylated metabolic enzymes, and 35 allosteric effectors, resulting in quantitative changes in 44 metabolites. Analysis of the network reveals that insulin induces phosphorylation and activation of liver-type phosphofructokinase 1, thereby controlling a key reaction in glycolysis. We thus provide a versatile method of reconstruction of signal flow through the network using phosphoproteome and metabolome data.http://www.sciencedirect.com/science/article/pii/S2211124714005907 |
| spellingShingle | Katsuyuki Yugi Hiroyuki Kubota Yu Toyoshima Rei Noguchi Kentaro Kawata Yasunori Komori Shinsuke Uda Katsuyuki Kunida Yoko Tomizawa Yosuke Funato Hiroaki Miki Masaki Matsumoto Keiichi I. Nakayama Kasumi Kashikura Keiko Endo Kazutaka Ikeda Tomoyoshi Soga Shinya Kuroda Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data Cell Reports |
| title | Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data |
| title_full | Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data |
| title_fullStr | Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data |
| title_full_unstemmed | Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data |
| title_short | Reconstruction of Insulin Signal Flow from Phosphoproteome and Metabolome Data |
| title_sort | reconstruction of insulin signal flow from phosphoproteome and metabolome data |
| url | http://www.sciencedirect.com/science/article/pii/S2211124714005907 |
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