In silico construction of the carbon fixation pathway in Synechococcus sp. WH8102

Because the carbon fixation pathway plays an essential role in the primary production and natural carbon recycling process, and because the genome of the marine cyanobacterial Synechococcus sp. WH8102 (SYNWH8102) was recently sequenced, SYNWH8102 was chosen to further our understanding of the interaction and regulation of the carbon fixation pathway at the molecular level. In this abstract, we present the predicted carbon fixation pathway in SYNWH8102 as a result of our recently developed computational protocol for inference of regulatory and signaling pathways. The results of our pathway prediction include: (a) Major components of the carbon fixation pathway reported in the literature are present in SYNWH8102. (b) Approximately, 48 new candidates are added into the network from the results of the pathway expansion step. (c) Additionally, our in-house motif finding program, CUBIC, found several motifs that are present in the promoter regions of multiple genes involved in this pathway, suggesting that these genes are transcriptionally co-regulated.