Draft genome sequence of Rhodomicrobium udaipurense JA643T with special reference to hopanoid biosynthesis.
Bottom Line: The machinery required for the degradation of aromatic compounds and resistance to solvents as well as all that required for photosynthesis are present in this organism.The hopanoid biosynthetic pathway was then inferred based on the genes identified and through experimental validation of individual hopanoid molecules.The genome data of R. udaipurense JA643(T) will be useful in understanding the functional features of hopanoids in this bacterium.
Affiliation: Department of Plant Sciences, School of Life Sciences, University of Hyderabad, P.O. Central University, Hyderabad 500 046, India.Show MeSH
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Mentions: Eight genes involved in the hopanoid biosynthesis were located on contig no. 3 between 36,000 and 45,850 bp including ispH which encodes for 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, an enzyme involved in the MEP pathway. These genes encode radical SAM protein (hpnH), adenosine nucleosidase (hpnG), squalene hopene cyclase (shc/hpnF), squalene-associated, FAD-dependent desaturase (hpnE/crtI), squalene synthase (hpnD and hpnC) and glycosyltransferase family protein (hpnB). Ten additional genes involved in hopanoid biosynthesis were scattered in the genome. The region having hopanoid biosynthetic genes and their upstream and downstream regions are shown in Fig. 1. The fragmented organization of the genes indicates the complex regulatory network of hopanoid biosynthesis. Squalene (I), hop-22(29)-ene (II), diplopterol (III), tetrahymanol (IV), 2-methyldiploptetrol (VI), adenosylhopane (VII), bacteriohopanetetrol (XI), aminobacteriohopanetetrol (XII), N-tryptophanyl aminobacteriohopanetetrol (XV) were identified through GC–MS analysis (Fig. 2), and their structures are given in Supplementary Fig. S3.Figure 2.
Affiliation: Department of Plant Sciences, School of Life Sciences, University of Hyderabad, P.O. Central University, Hyderabad 500 046, India.