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For: Kaçar B, Gaucher EA. Experimental evolution of protein-protein interaction networks. Biochem J 2013;453:311-9. [PMID: 23849056 DOI: 10.1042/BJ20130205] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Number Cited by Other Article(s)
1
D'Angelo F, Fernández-Fueyo E, Garcia PS, Shomar H, Pelosse M, Manuel RR, Büke F, Liu S, van den Broek N, Duraffourg N, de Ram C, Pabst M, Bouveret E, Gribaldo S, Py B, Ollagnier de Choudens S, Barras F, Bokinsky G. Cellular assays identify barriers impeding iron-sulfur enzyme activity in a non-native prokaryotic host. eLife 2022;11:70936. [PMID: 35244541 PMCID: PMC8896826 DOI: 10.7554/elife.70936] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Accepted: 02/03/2022] [Indexed: 11/24/2022]  Open
2
Hafsa U, Chuwdhury GS, Hasan MK, Ahsan T, Moni MA. An in silico approach towards identification of novel drug targets in Klebsiella oxytoca. INFORMATICS IN MEDICINE UNLOCKED 2022. [DOI: 10.1016/j.imu.2022.100998] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]  Open
3
Massoud TF, Paulmurugan R. Molecular Imaging of Protein–Protein Interactions and Protein Folding. Mol Imaging 2021. [DOI: 10.1016/b978-0-12-816386-3.00071-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]  Open
4
Kacar B, Guy L, Smith E, Baross J. Resurrecting ancestral genes in bacteria to interpret ancient biosignatures. PHILOSOPHICAL TRANSACTIONS. SERIES A, MATHEMATICAL, PHYSICAL, AND ENGINEERING SCIENCES 2017;375:20160352. [PMID: 29133450 PMCID: PMC5686408 DOI: 10.1098/rsta.2016.0352] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 04/17/2017] [Indexed: 05/04/2023]
5
Kacar B, Hanson‐Smith V, Adam ZR, Boekelheide N. Constraining the timing of the Great Oxidation Event within the Rubisco phylogenetic tree. GEOBIOLOGY 2017;15:628-640. [PMID: 28670785 PMCID: PMC5575542 DOI: 10.1111/gbi.12243] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2016] [Accepted: 05/09/2017] [Indexed: 05/04/2023]
6
Functional Constraints on Replacing an Essential Gene with Its Ancient and Modern Homologs. mBio 2017;8:mBio.01276-17. [PMID: 28851849 PMCID: PMC5574714 DOI: 10.1128/mbio.01276-17] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]  Open
7
Protein interaction evolution from promiscuity to specificity with reduced flexibility in an increasingly complex network. Sci Rep 2017;7:44948. [PMID: 28337996 PMCID: PMC5364480 DOI: 10.1038/srep44948] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Accepted: 02/16/2017] [Indexed: 12/27/2022]  Open
8
Kacar B, Ge X, Sanyal S, Gaucher EA. Experimental Evolution of Escherichia coli Harboring an Ancient Translation Protein. J Mol Evol 2017;84:69-84. [PMID: 28233029 PMCID: PMC5371648 DOI: 10.1007/s00239-017-9781-0] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2016] [Accepted: 01/30/2017] [Indexed: 01/20/2023]
9
Folador EL, de Carvalho PVSD, Silva WM, Ferreira RS, Silva A, Gromiha M, Ghosh P, Barh D, Azevedo V, Röttger R. In silico identification of essential proteins in Corynebacterium pseudotuberculosis based on protein-protein interaction networks. BMC SYSTEMS BIOLOGY 2016;10:103. [PMID: 27814699 PMCID: PMC5097352 DOI: 10.1186/s12918-016-0346-4] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Accepted: 10/18/2016] [Indexed: 12/27/2022]
10
Blount ZD. A case study in evolutionary contingency. STUDIES IN HISTORY AND PHILOSOPHY OF BIOLOGICAL AND BIOMEDICAL SCIENCES 2016;58:82-92. [PMID: 26787098 DOI: 10.1016/j.shpsc.2015.12.007] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Accepted: 12/11/2015] [Indexed: 06/05/2023]
11
Akinola RO, Mazandu GK, Mulder NJ. A Quantitative Approach to Analyzing Genome Reductive Evolution Using Protein-Protein Interaction Networks: A Case Study of Mycobacterium leprae. Front Genet 2016;7:39. [PMID: 27066064 PMCID: PMC4809885 DOI: 10.3389/fgene.2016.00039] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2015] [Accepted: 03/08/2016] [Indexed: 01/18/2023]  Open
12
Efficient search and responsiveness trade-offs in a Markov chain model of evolution in dynamic environments. Math Biosci 2016;276:44-58. [PMID: 26976482 DOI: 10.1016/j.mbs.2016.03.002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2015] [Revised: 11/30/2015] [Accepted: 03/04/2016] [Indexed: 11/22/2022]
13
Selective pressure against horizontally acquired prokaryotic genes as a driving force of plastid evolution. Sci Rep 2016;6:19036. [PMID: 26750147 PMCID: PMC4707469 DOI: 10.1038/srep19036] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2015] [Accepted: 12/03/2015] [Indexed: 12/24/2022]  Open
14
Dohrmann J, Puchin J, Singh R. Global multiple protein-protein interaction network alignment by combining pairwise network alignments. BMC Bioinformatics 2015;16 Suppl 13:S11. [PMID: 26423128 PMCID: PMC4597059 DOI: 10.1186/1471-2105-16-s13-s11] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]  Open
15
Ma Y, Nagamune T, Kawahara M. Split focal adhesion kinase for probing protein–protein interactions. Biochem Eng J 2014. [DOI: 10.1016/j.bej.2014.06.022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
16
Hernández-Prieto MA, Semeniuk TA, Futschik ME. Toward a systems-level understanding of gene regulatory, protein interaction, and metabolic networks in cyanobacteria. Front Genet 2014;5:191. [PMID: 25071821 PMCID: PMC4079066 DOI: 10.3389/fgene.2014.00191] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2014] [Accepted: 06/11/2014] [Indexed: 12/21/2022]  Open
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