title: Draft genome sequence of Rhodomicrobium udaipurense JA643T with special reference to hopanoid biosynthesis.
abstract: Hopanoids are present in vast amounts as integral components of bacteria and plants with their primary function to strengthen rigidity of the plasma membrane. To establish their roles more precisely, we conducted sequencing of the whole genome of Rhodomicrobium udaipurense JA643(T) isolated from a fresh water stream of Udaipur in Himachal Pradesh, India, by using the Illumina HiSeq pair end chemistry of 2 × 100 bp platform. Determined genome showed a high degree of similarity to the genome of R. vannielii ATCC17100(T) and the 13.7 million reads generated a sequence of 3,649,277 bp possessing 3,611 putative genes. The genomic data were subsequently investigated with respect to genes involved in various features. 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. Also, through extensive functional annotation, 18 genes involved in the biosynthesis of hopanoids are predicted, namely those responsible for the synthesis of diploptene, diplopterol, adenosylhopane, ribosylhopane, aminobacteriohopanetriol, glycosyl group containing hopanoids and unsaturated hopanoids. 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.
authors.affiliation: Department of Plant Sciences, School of Life Sciences, University of Hyderabad, P.O. Central University, Hyderabad 500 046, India.
authors.forename: L
authors.initials: L
authors.lastname: Tushar
authors.affiliation: Bacterial Discovery Laboratory, Centre for Environment, IST, JNT University, Hyderabad, Kukatpally, Hyderabad 500 085, India.
authors.forename: Ch
authors.initials: Ch
authors.lastname: Sasikala
authors.affiliation: Department of Plant Sciences, School of Life Sciences, University of Hyderabad, P.O. Central University, Hyderabad 500 046, India cvr449@yahoo.com.
authors.forename: Ch V
authors.initials: ChV
authors.lastname: Ramana
mesh_terms: D002462:Cell Membrane / Q000235:genetics / Q000378:metabolism; D016680:Genome, Bacterial / Q000502:physiology*; D059014:High-Throughput Nucleotide Sequencing; D058977:Molecular Sequence Annotation; D020623:Rhodomicrobium / Q000235:genetics / Q000378:metabolism; D014315:Triterpenes / Q000378:metabolism*
chemical_list: D014315:Triterpenes
keywords: Illumina Hiseq; Rhodomicrobium udaipurense JA643T; genome sequence; hopanoid biosynthesis pathway