Journal of Microbiology

Journal Article

Comparative genomic analysis of pyrene-degrading Mycobacterium species: Genomic islands and ring-hydroxylating dioxygenases involved in pyrene degradation: Dae-Wi Kim , Kihyun Lee , Do-Hoon Lee , Chang-Jun Cha; J. Microbiol. 2018;56(11):798-804. Published online October 24, 2018; DOI: https://doi.org/10.1007/s12275-018-8372-0

Abstract: The genome sequences of two pyrene-degrading bacterial strains of Mycobacterium spp. PYR10 and PYR15, isolated from the estuarine wetland of the Han river, South Korea, were determined using the PacBio RS II sequencing platform. The complete genome of strain PYR15 was 6,037,017 bp in length with a GC content of 66.5%, and contained 5,933 protein- coding genes. The genome of strain PYR10 was 5,999,427 bp in length with a GC content of 67.7%, and contained 5,767 protein-coding genes. Based on the average nucleotide identity values, these strains were designated as M. gilvum PYR10 and M. pallens PYR15. A genomic comparison of these pyrene-degrading Mycobacterium strains with pyrene- non-degrading strains revealed that the genomes of pyrene-degrading strains possessed similar repertoires of ringhydroxylating dioxygenases (RHDs), including the pyrenehydroxylating dioxygenases encoded by nidA and nidA3, which could be readily distinguished from those of pyrenenon- degraders. Furthermore, genomic islands, containing catabolic gene clusters, were shared only among the pyrenedegrading Mycobacterium strains and these gene clusters contained RHD genes, including nidAB and nidA3B3. Our genome data should facilitate further studies on the evolution of the polycyclic aromatic hydrocarbon-degradation pathways in the genus Mycobacterium.

Biodegradation of aromatic hydrocarbons by several white-rot fungi: Song , Hong Gyu; J. Microbiol. 1997;35(1):66-71.

Abstract: To investigate the biodegrading capability of several white-rot fungi isolated in Korea, biodegradation of BTX (benzene, toluene, xylene), phenanthrene and pyrene were tested in fungal cultures. Phanerochaete chrysosporium removed 20-30% of BTX mixture during 21 days of incubation in serum bottle. Coriolus versicolor KR-11W and Irpex lacteus mineralized 10.02 and 8.26% of totla phenanthrene, respectively, which were higher than in other studies with P. chrysosporium. These two strains also showed high mineralization rates (9.2-10.1%) for 4-ring pyrene. I. lacteus metabolized most of the added pyrene and 23.29% was incorporate dinto fungal biomass. Almost 50% of the pyrene was converted to polar metabolites and recovered from aqueous phase of culture. These results indicated that some white- rot fungi have higher biodegradability than P. chrysosporium and could be used in bioremediation of aromatic hydrocarbon contaminants in soil.

Phylogenetic Analysis of Mycobacterium sp. C2-3 Degrading Polycyclic Aromatic Hydrocarbons: Il-Gyu Lee , Suk-Kyun Han , You-Seak Go , Tae-Young Ahn; J. Microbiol. 2001;39(4):326-330.

Abstract: Mycobacterium sp. C2-3 was isolated from petroleum-contaminated soil around an oil reservoir and identified by analysis of its 16S rRNA gene sequence. Strain C2-3 was able to use fluorene, phenanthrene, fluoranthene and pyrene as sole sources of carbon and energy, yet unable to degrade naphthalene. The strain was also able to use n-alkanes, such as hexadecane and heptadecane, and phenanthrene and pyrene, in particular, were degraded rapidly. The phylogenetic data suggested that the isolate C2-3 is a thermosensitive, fast-growing strain of Mycobacterium sp.

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