{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,9]],"date-time":"2025-11-09T03:30:15Z","timestamp":1762659015927},"reference-count":42,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2008,9,22]],"date-time":"2008-09-22T00:00:00Z","timestamp":1222041600000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Syst Biol"],"published-print":{"date-parts":[[2008,12]]},"DOI":"10.1186\/1752-0509-2-82","type":"journal-article","created":{"date-parts":[[2008,9,26]],"date-time":"2008-09-26T18:16:55Z","timestamp":1222453015000},"source":"Crossref","is-referenced-by-count":13,"title":["Origin of structural difference in metabolic networks with respect to temperature"],"prefix":"10.1186","volume":"2","author":[{"given":"Kazuhiro","family":"Takemoto","sequence":"first","affiliation":[]},{"given":"Tatsuya","family":"Akutsu","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2008,9,22]]},"reference":[{"key":"239_CR1","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1128\/mr.51.2.221-271.1987","volume":"51","author":"CR Woese","year":"1987","unstructured":"Woese CR: Bacterial evolution. Microbial Rev. 1987, 51: 221-271.","journal-title":"Microbial Rev"},{"key":"239_CR2","doi-asserted-by":"publisher","first-page":"531","DOI":"10.1016\/0092-8674(91)90082-A","volume":"65","author":"NR Pace","year":"1991","unstructured":"Pace NR: Origin of life \u2013 Facing up to the physical setting. Cell. 1991, 65: 531-533. 10.1016\/0092-8674(91)90082-A","journal-title":"Cell"},{"key":"239_CR3","doi-asserted-by":"publisher","first-page":"404","DOI":"10.1038\/382404a0","volume":"382","author":"EG Nisbet","year":"1996","unstructured":"Nisbet EG, Fowler CMR: Some liked it hot. Nature. 1996, 382: 404-405. 10.1038\/382404a0.","journal-title":"Nature"},{"key":"239_CR4","doi-asserted-by":"publisher","first-page":"276","DOI":"10.1093\/bioinformatics\/btg403","volume":"20","author":"SL Huang","year":"2004","unstructured":"Huang SL, Wu LC, Laing HK, Pan KT, Horng JT: PGTdb: a database providing growth temperatures of prokaryotes. Bioinformatics. 2004, 20: 276-278. 10.1093\/bioinformatics\/btg403","journal-title":"Bioinformatics"},{"key":"239_CR5","doi-asserted-by":"publisher","first-page":"117","DOI":"10.1186\/gb-2004-5-10-117","volume":"5","author":"DA Hickey","year":"2004","unstructured":"Hickey DA, Singer GAC: Genomic and proteomic adaptations to growth at high temperature. Genome Biol. 2004, 5: 117- 10.1186\/gb-2004-5-10-117","journal-title":"Genome Biol"},{"key":"239_CR6","doi-asserted-by":"publisher","first-page":"D480","DOI":"10.1093\/nar\/gkm882","volume":"36","author":"M Kanehisa","year":"2008","unstructured":"Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, Itoh M, Katayama T, Kawashima S, Okuda S, Tokimatsu T: KEGG for linking genomes to life and the environment. Nucleic Acids Res. 2008, 36: D480-D484. 10.1093\/nar\/gkm882","journal-title":"Nucleic Acids Res"},{"key":"239_CR7","doi-asserted-by":"publisher","first-page":"47","DOI":"10.1103\/RevModPhys.74.47","volume":"74","author":"R Albert","year":"2002","unstructured":"Albert R, Barab\u00e1si A-L: Statistical mechanics of complex networks. Rev Mod Phys. 2002, 74: 47-97. 10.1103\/RevModPhys.74.47.","journal-title":"Rev Mod Phys"},{"key":"239_CR8","doi-asserted-by":"publisher","first-page":"4947","DOI":"10.1242\/jcs.02714","volume":"118","author":"R Albert","year":"2005","unstructured":"Albert R: Scale-free networks in cell biology. J Cell Sci. 2005, 118: 4947-4957. 10.1242\/jcs.02714","journal-title":"J Cell Sci"},{"key":"239_CR9","doi-asserted-by":"publisher","first-page":"651","DOI":"10.1038\/35036627","volume":"407","author":"H Jeong","year":"2000","unstructured":"Jeong H, Tombor B, Albert R, Oltvai ZN, Barab\u00e1si A-L: The large-scale organization of metabolic networks. Nature. 2000, 407: 651-654. 10.1038\/35036627","journal-title":"Nature"},{"key":"239_CR10","doi-asserted-by":"publisher","first-page":"440","DOI":"10.1038\/30918","volume":"393","author":"DJ Watts","year":"1998","unstructured":"Watts DJ, Strogatz SH: Collective dynamics of 'small-world' networks. Nature. 1998, 393: 440-442. 10.1038\/30918","journal-title":"Nature"},{"key":"239_CR11","doi-asserted-by":"publisher","first-page":"1803","DOI":"10.1098\/rspb.2001.1711","volume":"268","author":"A Wagner","year":"2001","unstructured":"Wagner A, Fell DA: The small world inside large metabolic networks. Proc R Soc Lond B. 2001, 268: 1803-1810. 10.1098\/rspb.2001.1711.","journal-title":"Proc R Soc Lond B"},{"key":"239_CR12","doi-asserted-by":"publisher","first-page":"1551","DOI":"10.1126\/science.1073374","volume":"297","author":"E Ravasz","year":"2000","unstructured":"Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barab\u00e1si A-L: Hierarchical organization of modularity in metabolic networks. Science. 2000, 297: 1551-1555. 10.1126\/science.1073374.","journal-title":"Science"},{"key":"239_CR13","volume-title":"Random Graphs","author":"B Bollobas","year":"1985","unstructured":"Bollobas B: Random Graphs. 1985, London: Achademic Press"},{"key":"239_CR14","volume-title":"Evolution of Networks: From Biological Nets to the Internet and WWW","author":"JFF Mendes","year":"2003","unstructured":"Mendes JFF, Dorogovtsev SN: Evolution of Networks: From Biological Nets to the Internet and WWW. 2003, New York: Oxford Press"},{"key":"239_CR15","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1038\/nrg1272","volume":"5","author":"A-L Barab\u00e1si","year":"2004","unstructured":"Barab\u00e1si A-L, Oltvai ZN: Network biology: Understanding the cell's functional organization. Nat Rev Genet. 2004, 5: 101-113. 10.1038\/nrg1272","journal-title":"Nat Rev Genet"},{"key":"239_CR16","doi-asserted-by":"publisher","first-page":"C47","DOI":"10.1038\/35011540","volume":"402","author":"LH Hartwell","year":"1999","unstructured":"Hartwell LH, Hopfield JJ, Leibler S, Murray AW: From molecular to modular cell biology. Nature. 1999, 402: C47-C52. 10.1038\/35011540","journal-title":"Nature"},{"key":"239_CR17","doi-asserted-by":"publisher","first-page":"026112","DOI":"10.1103\/PhysRevE.67.026112","volume":"67","author":"E Ravasz","year":"2003","unstructured":"Ravasz E, Barab\u00e1si A-L: Hierarchical organization in complex networks. Phys Rev E. 2003, 67: 026112-10.1103\/PhysRevE.67.026112.","journal-title":"Phys Rev E"},{"key":"239_CR18","doi-asserted-by":"publisher","first-page":"303","DOI":"10.1186\/1471-2105-8-303","volume":"8","author":"K Takemoto","year":"2007","unstructured":"Takemoto K, Nacher JC, Akutsu T: Correlation between structure and temperature in prokaryotic metabolic networks. BMC Bioinformatics. 2007, 8: 303- 10.1186\/1471-2105-8-303","journal-title":"BMC Bioinformatics"},{"key":"239_CR19","doi-asserted-by":"publisher","first-page":"2501","DOI":"10.1093\/nar\/30.11.2501","volume":"30","author":"H Wang","year":"2002","unstructured":"Wang H, Hickey DA: Evidence for strong selective constraint acting on the nucleotide composition of 16S ribosomal RNA genes. Nucleic Acids Res. 2002, 30: 2501-2507. 10.1093\/nar\/30.11.2501","journal-title":"Nucleic Acids Res"},{"key":"239_CR20","doi-asserted-by":"publisher","first-page":"1507","DOI":"10.1534\/genetics.104.026344","volume":"167","author":"R Friedman","year":"2004","unstructured":"Friedman R, Drake JW, Hughes AL: Genome-wide patterns of nucleotide substitution reveal stringent functional constraints on the protein sequences of thermophiles. Genetics. 2004, 167: 1507-1512. 10.1534\/genetics.104.026344","journal-title":"Genetics"},{"key":"239_CR21","doi-asserted-by":"publisher","first-page":"153","DOI":"10.1073\/pnas.31.6.153","volume":"31","author":"NH Horowitz","year":"1945","unstructured":"Horowitz NH: On the evolution of biosynthesis. Proc Natl Acad Sci USA. 1945, 31: 153-157. 10.1073\/pnas.31.6.153","journal-title":"Proc Natl Acad Sci USA"},{"key":"239_CR22","doi-asserted-by":"publisher","first-page":"661","DOI":"10.1038\/nature02636","volume":"42","author":"B Papp","year":"2004","unstructured":"Papp B, P\u00e1l C, Hurst LD: Metabolic network analysis of the causes and evolution of enzyme dispensability. Nature. 2004, 42: 661-664. 10.1038\/nature02636.","journal-title":"Nature"},{"key":"239_CR23","doi-asserted-by":"publisher","first-page":"R26","DOI":"10.1186\/gb-2007-8-2-r26","volume":"8","author":"JJ D\u00edaz-Mej\u00eda","year":"2007","unstructured":"D\u00edaz-Mej\u00eda JJ, P\u00e9rez-Rueda E, Segovia L: A network perspective on the evolution of metabolism by gene duplication. Genome Biol. 2007, 8: R26- 10.1186\/gb-2007-8-2-r26","journal-title":"Genome Biol"},{"key":"239_CR24","doi-asserted-by":"publisher","first-page":"1372","DOI":"10.1038\/ng1686","volume":"37","author":"C P\u00e1l","year":"2005","unstructured":"P\u00e1l C, Papp B, Lercher MJ: Adaptive evolution of bacterial metabolic networks by horizontal gene transfer. Nat Genet. 2005, 37: 1372-1375. 10.1038\/ng1686","journal-title":"Nat Genet"},{"key":"239_CR25","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-86659-3","volume-title":"Evolution by gene duplication","author":"S Ohno","year":"1970","unstructured":"Ohno S: Evolution by gene duplication. 1970, New York: Springer-Verlag"},{"key":"239_CR26","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1016\/S0022-5193(85)80291-5","volume":"112","author":"M Syvanen","year":"1985","unstructured":"Syvanen M: Cross-species gene transfer; Implications for a new theory of evolution. J Theor Biol. 1985, 112: 333-343. 10.1016\/S0022-5193(85)80291-5","journal-title":"J Theor Biol"},{"key":"239_CR27","doi-asserted-by":"publisher","first-page":"323","DOI":"10.1080\/00107510500052444","volume":"46","author":"MEJ Newman","year":"2005","unstructured":"Newman MEJ: Power laws, Pareto distributions and Zipf's law. Contemporary Phys. 2005, 46: 323-351. 10.1080\/00107510500052444.","journal-title":"Contemporary Phys"},{"key":"239_CR28","doi-asserted-by":"publisher","first-page":"027103","DOI":"10.1103\/PhysRevE.71.027103","volume":"71","author":"M Catanzaro","year":"2005","unstructured":"Catanzaro M, Bogu\u00f1\u00e1 , Pastro-Satorras R: Generating of uncorrelated random scale-free networks. Phys Rev E. 2005, 71: 027103-10.1103\/PhysRevE.71.027103.","journal-title":"Phys Rev E"},{"key":"239_CR29","doi-asserted-by":"publisher","first-page":"026118","DOI":"10.1103\/PhysRevE.64.026118","volume":"64","author":"MEJ Newman","year":"2001","unstructured":"Newman MEJ, Strogatz SH, Watts DJ: Random graphs with arbitrary degree distributions and their applications. Phys Rev E. 2001, 64: 026118-10.1103\/PhysRevE.64.026118.","journal-title":"Phys Rev E"},{"key":"239_CR30","doi-asserted-by":"publisher","first-page":"036109","DOI":"10.1103\/PhysRevE.72.036109","volume":"72","author":"H-J Kim","year":"2005","unstructured":"Kim H-J, Kim JM: Cyclic topology in complex networks. Phys Rev E. 2005, 72: 036109-10.1103\/PhysRevE.72.036109.","journal-title":"Phys Rev E"},{"key":"239_CR31","doi-asserted-by":"publisher","first-page":"159","DOI":"10.1186\/1471-2164-6-159","volume":"6","author":"S Light","year":"2005","unstructured":"Light S, Kraulis P, Elofsson A: Preferential attachment in the evolution of metabolic networks. BMC Genomics. 2005, 6: 159- 10.1186\/1471-2164-6-159","journal-title":"BMC Genomics"},{"key":"239_CR32","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1159\/000067642","volume":"1","author":"A V\u00e1zquez","year":"2002","unstructured":"V\u00e1zquez A, Flammini A, Maritan A, Vespignani A: Modeling of protein interaction networks. Complex Us. 2002, 1: 38-44.","journal-title":"Complex Us"},{"key":"239_CR33","doi-asserted-by":"publisher","first-page":"199","DOI":"10.1016\/S0022-5193(03)00028-6","volume":"222","author":"R Pastor-Satorras","year":"2003","unstructured":"Pastor-Satorras R, Smith E, Sol\u00e9 RV: Evolving protein interaction networks through gene duplication. J Theor Biol. 2003, 222: 199-210. 10.1016\/S0022-5193(03)00028-6","journal-title":"J Theor Biol"},{"key":"239_CR34","doi-asserted-by":"publisher","first-page":"046116","DOI":"10.1103\/PhysRevE.72.046116","volume":"72","author":"K Takemoto","year":"2005","unstructured":"Takemoto K, Oosawa C: Evolving networks by merging cliques. Phys Rev E. 2005, 72: 046116-10.1103\/PhysRevE.72.046116.","journal-title":"Phys Rev E"},{"key":"239_CR35","doi-asserted-by":"crossref","DOI":"10.1201\/9781420011432","volume-title":"An Introduction to Systems Biology: Design Principles of Biological circuits","author":"U Alon","year":"2006","unstructured":"Alon U: An Introduction to Systems Biology: Design Principles of Biological circuits. 2006, Chapman & Hall\/CRC"},{"key":"239_CR36","first-page":"885","volume-title":"Proceedings of the 13th International Symposium on Artificial Life and Robotics: 31 January \u2013 2 February 2008; Beppu","author":"C Oosawa","year":"2008","unstructured":"Oosawa C, Takemoto K, Savageau MA: Feedback and feedforward loops have opposite effects on dynamics of transcriptional regulatory model networks. Proceedings of the 13th International Symposium on Artificial Life and Robotics: 31 January \u2013 2 February 2008; Beppu. 2008, 885-890. Masanori Sugisaka: ISAROB"},{"key":"239_CR37","doi-asserted-by":"publisher","first-page":"169","DOI":"10.1186\/1471-2148-7-169","volume":"7","author":"M Parter","year":"2007","unstructured":"Parter M, Kashtan N, Alon U: Environmental variability and modularity of bacterial metabolic networks. BMC Evol Biol. 2007, 7: 169- 10.1186\/1471-2148-7-169","journal-title":"BMC Evol Biol"},{"key":"239_CR38","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1016\/S0378-4371(99)00291-5","volume":"272","author":"A-L Barab\u00e1si","year":"1999","unstructured":"Barab\u00e1si A-L, Albert R, Jeong H: Mean-field theory for scale-free random networks. Physica A. 1999, 272: 173-187. 10.1016\/S0378-4371(99)00291-5.","journal-title":"Physica A"},{"key":"239_CR39","doi-asserted-by":"publisher","first-page":"056102","DOI":"10.1103\/PhysRevE.67.056102","volume":"67","author":"G Szab\u00f3","year":"2003","unstructured":"Szab\u00f3 G, Alava M, Kert\u00e9sz J: Structural transitions in scale-free networks. Phys Rev E. 2003, 67: 056102-10.1103\/PhysRevE.67.056102.","journal-title":"Phys Rev E"},{"key":"239_CR40","doi-asserted-by":"publisher","first-page":"036127","DOI":"10.1103\/PhysRevE.71.036127","volume":"71","author":"A Barrat","year":"2005","unstructured":"Barrat A, Pastor-Satorras R: Rate equation approach for correlations in growing network models. Phys Rev E. 2005, 71: 036127-10.1103\/PhysRevE.71.036127.","journal-title":"Phys Rev E"},{"key":"239_CR41","doi-asserted-by":"publisher","first-page":"80","DOI":"10.1016\/j.physa.2004.04.110","volume":"341","author":"J Saram\u00e4ki","year":"2004","unstructured":"Saram\u00e4ki J, Kaski K: Scale-free networks generated by random walkers. Physica A. 2004, 341: 80-86. 10.1016\/j.physa.2004.04.110.","journal-title":"Physica A"},{"key":"239_CR42","unstructured":"KEGG organisms. http:\/\/www.genome.jp\/kegg\/catalog\/org_list.html"}],"container-title":["BMC Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1752-0509-2-82.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1752-0509-2-82\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1752-0509-2-82.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,17]],"date-time":"2021-09-17T10:33:22Z","timestamp":1631874802000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcsystbiol.biomedcentral.com\/articles\/10.1186\/1752-0509-2-82"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,9,22]]},"references-count":42,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["239"],"URL":"https:\/\/doi.org\/10.1186\/1752-0509-2-82","relation":{},"ISSN":["1752-0509"],"issn-type":[{"value":"1752-0509","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,9,22]]},"article-number":"82"}}