By Jacques van Helden, Ariane Toussaint, Denis Thieffry

Network-based representations became pervasive in so much fields in biology. Bacterial Molecular Networks: equipment and Protocols presents authoritative descriptions of assorted experimental and computational equipment permitting the characterization and research of molecular interplay networks, with a spotlight on micro organism. Divided into 3 handy sections, this quantity offers wide assurance of varied experimental and in silico ways aiming on the characterization of community parts, addresses the presentation of computational methods to investigate the topology of molecular networks, and extra introduces various equipment and instruments allowing scientists to generate qualitative or quantitative dynamical versions of molecular techniques in micro organism. Written within the hugely winning Methods in Molecular Biology™ sequence structure, chapters contain introductions to their respective themes, lists of the required fabrics and reagents, step by step, simply reproducible protocols, and notes on troubleshooting and heading off recognized pitfalls.

Authoritative and obtainable, Bacterial Molecular Networks: equipment and Protocols is meant basically for post-graduate scholars and researchers operating within the box of experimental and computational microbiology and offers a mixture of updated experiences in addition to precise protocols written by way of the builders of bioinformatics assets, reminiscent of databases and software program tools.

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High-throughput Bacterial Interactomes Although bacteria, essentially due to the relative small size and low complexity of their genomes, appear as the organisms of choice for systems biology projects, only few and still partial interactomes have been deciphered (Table 1). Two among the techniques described above have been used: affinity purification and the classical yeast two-hybrid methodology. 1. Affinity Purification Studies Using the technique developed by Court’s laboratory (11) and the SPA approach (12), Emili’s and Greenblat’s groups constructed a collection of E.

2004) Sequential Peptide 2 Bacterial Interactomes: From Interactions to Networks Affinity (SPA) system for the identification of mammalian and bacterial protein complexes. J Proteome Res, 3:463–468. 13. Gully D, Bouveret E. (2006) A protein network for phospholipid synthesis uncovered by a variant of the tandem affinity purification method in Escherichia coli. Proteomics, 6:282–293. 14. Gully D, Moinier D, Loiseau L, Bouveret E. (2003) New partners of acyl carrier protein detected in Escherichia coli by tandem affinity purification.

46. Tarassov K, Messier V, Landry CR, Radinovic S, Serna Molina MM, Shames I, Malitskaya Y, Vogel J, Bussey H, Michnick SW. (2008) An in vivo map of the yeast protein interactome. Science, 320:1465–1470. 47. Kerppola TK. (2008) Bimolecular fluorescence complementation (BiFC) analysis as a probe of protein interactions in living cells. Annu Rev Biophys, 37:465–487. 48. Magliery TJ, Wilson CG, Pan W, Mishler D, Ghosh I, Hamilton AD, Regan L. (2005) Detecting protein–protein interactions with a green fluorescent protein fragment reassembly trap: scope and mechanism.

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Bacterial Molecular Networks: Methods and Protocols by Jacques van Helden, Ariane Toussaint, Denis Thieffry
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