title: Characterization of Three Mycobacterium spp. with Potential Use in Bioremediation by Genome Sequencing and Comparative Genomics.
abstract: We provide the genome sequences of the type strains of the polychlorophenol-degrading Mycobacterium chlorophenolicum (DSM43826), the degrader of chlorinated aliphatics Mycobacterium chubuense (DSM44219) and Mycobacterium obuense (DSM44075) that has been tested for use in cancer immunotherapy. The genome sizes of M. chlorophenolicum, M. chubuense, and M. obuense are 6.93, 5.95, and 5.58 Mb with GC-contents of 68.4%, 69.2%, and 67.9%, respectively. Comparative genomic analysis revealed that 3,254 genes are common and we predicted approximately 250 genes acquired through horizontal gene transfer from different sources including proteobacteria. The data also showed that the biodegrading Mycobacterium spp. NBB4, also referred to as M. chubuense NBB4, is distantly related to the M. chubuense type strain and should be considered as a separate species, we suggest it to be named Mycobacterium ethylenense NBB4. Among different categories we identified genes with potential roles in: biodegradation of aromatic compounds and copper homeostasis. These are the first nonpathogenic Mycobacterium spp. found harboring genes involved in copper homeostasis. These findings would therefore provide insight into the role of this group of Mycobacterium spp. in bioremediation as well as the evolution of copper homeostasis within the Mycobacterium genus.
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden.
authors.forename: Sarbashis
authors.initials: S
authors.lastname: Das
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden.
authors.forename: B M Fredrik
authors.initials: BM
authors.lastname: Pettersson
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden.
authors.forename: Phani Rama Krishna
authors.initials: PR
authors.lastname: Behra
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden.
authors.forename: Malavika
authors.initials: M
authors.lastname: Ramesh
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden.
authors.forename: Santanu
authors.initials: S
authors.lastname: Dasgupta
authors.affiliation: School of Life Sciences, Jawaharlal Nehru University, New Delhi, India.
authors.forename: Alok
authors.initials: A
authors.lastname: Bhattacharya
authors.affiliation: Department of Cell and Molecular Biology, Uppsala University, Sweden leif.kirsebom@icm.uu.se.
authors.forename: Leif A
authors.initials: LA
authors.lastname: Kirsebom
mesh_terms: D001673:Biodegradation, Environmental; D003300:Copper / Q000378:metabolism; D022761:Gene Transfer, Horizontal; D005798:Genes, Bacterial; D016680:Genome, Bacterial; D023281:Genomics; D008969:Molecular Sequence Data; D009161:Mycobacterium / Q000145:classification / Q000235:genetics* / Q000378:metabolism; D010105:Oxygenases / Q000235:genetics; D010802:Phylogeny; D022661:RNA, Untranslated / Q000235:genetics; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA
chemical_list: D022661:RNA, Untranslated; D003300:Copper; D010105:Oxygenases
keywords: Mycobacterium; biodegradation; copper homeostasis; genome sequencing; oxygenases