Figure 7

A speculative model for buffering against perturbation of deoxynucleoside triphosphate (dNTP) synthesis, based on interconnected genetic modules found to interact with HU. The growth inhibitory effects of HU are shown in red. Modules - sets of related genes with similar selectivity and/or strength of interactions - are indicated by green numbers (see below). Connections between modules are based on the literature about the respective genes (see Results and Discussion sections). The proposed metabolic regulation of de novo dNTP synthesis is indicated by bold module connections, based on recent discovery of a 'high-flux backbone' in E. coli [60]. Dashed lines represent related, but more speculative connections. Interaction index values, measuring the strength of interaction for all genes listed below are given in Additional data files 11, 12. Selectivity can be visualized in Figures 4-6 and Additional data file 6. 1, Mitochondrial function, SSQ1, ATP5, TOM37, RML2; 2, retrograde signaling, RTG1, RTG2, RTG3, MKS1; 3, threonine synthesis, AAT2, HOM3, HOM2, HOM6, THR1, THR4; 4, permease trafficking, LST4, LST7; 5, adenosine metabolism, ADO1, ADK1, APT1; 6, cell-cycle checkpoint, MRC1, RAD24, RAD17, DDC1, RAD9; 7, homologous recombination MRE11, RAD52, XRS2, RAD50, RAD51, RAD54, RAD55, RAD57; 8, single-strand DNA repair TOP3, SGS1, MUS81, MMS4, HPR5; (9) sister chromatic cohesion, CTF4, CTF8, DCC1; 10, microtubule associated, PAC10, YKE2, BIM1, KAR3, CIK1; 11, protein secretion VPS15, VPS33, VPS34, VPS45, VPS9, VPS3, VPS16, PEP7, PEP12, CHC1, CLC1, END3, VID22, VID31/DEF1; 12, membrane biosynthesis, ERG3, SCS7.