Clustered associated genes

Kulakov LA, S Chen, CCR Allen, Ml Larkin (2005) Web-type evolution of Rhodococcus gene clusters associated with utilization of naphthalene. Appl Environ Microbiol 71 1754-1764. 

Fused gene or gene pair analysis to estimate domain interaction Selection pressure promotes retention of gene fusion in ensuring protein domain interactions over the course of evolution. Symmetry and sequence clustering of gene sequences to detect fusion genes Functional associations of proteins [21,20]... 

Keithly JS, Langreth SG, Buttle KF, Mannella CA (2005) Electron tomographic and ultrastruc-tural analysis of the Cryptosporidium parvum relict mitochondrion, its associated membranes, and organelles. J Eukaryot Microbiol 52 132-140 LaGier MJ, Tachezy J, Stejskal F, Kutisova K, Keithly JS (2003) Mitochondrial-type iron-sulfur cluster biosynthesis genes (IscS and IscU) in the apicomplexan Cryptosporidium parvum. Microbiology 149 3519-3530... 

Step 4 Zik is calculated for each Oij equal to 1, i.e., for each gene that belongs to that cluster, representing the average of all the associated genes expression values for each experiment, e.g., for cluster 1, zik is equal to average expression ratios of all genes for which a j =1. Mathematically,... 

While most soluble cellular iron is associated with an ill-defined labile iron pool, much of the iron that is used by the cell is found in the form of specific iron cofactors especially as iron-sulfur clusters and hemes. The biosynthesis of iron-sulfur centers has only come of age within the past decade following the characterization of operons encoding cluster assembly genes by Dean and coworkers 4), In eukaryotes, homologous proteins are nuclear transcribed. While predominantly localized within the mitochondrial matrix, one group has reported cytosolic ISU (cluster assembly protein) and NFS (S-donor protein) in human cell lines (5). Alternative cytoplasmic cluster maturation proteins have also been proposed (6). Whether the cytosolic components represent an independent assembly apparatus is unclear, nevertheless, both models support a role for ISU-mediated assembly of [2Fe-2S] building blocks prior to delivery to a target protein (7-P). 

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