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Genome-guided insight into the methylotrophy of Paracoccus aminophilus JCM 7686.

Dziewit L, Czarnecki J, Prochwicz E, Wibberg D, Schlüter A, Pühler A, Bartosik D - Front Microbiol (2015)

Bottom Line: Paracoccus aminophilus JCM 7686 (Alphaproteobacteria) is a facultative, heterotrophic methylotroph capable of utilizing a wide range of C1 compounds as sole carbon and energy sources.Many of these genes are located in different extrachromosomal replicons and are not present in the genomes of most members of the genus Paracoccus, which strongly suggests that they have been horizontally acquired.Interestingly, related clusters form compact methylotrophy islands within the genomes of Paracoccus sp.

View Article: PubMed Central - PubMed

Affiliation: Department of Bacterial Genetics, Institute of Microbiology, Faculty of Biology, University of Warsaw Warsaw, Poland.

ABSTRACT
Paracoccus aminophilus JCM 7686 (Alphaproteobacteria) is a facultative, heterotrophic methylotroph capable of utilizing a wide range of C1 compounds as sole carbon and energy sources. Analysis of the JCM 7686 genome revealed the presence of genes involved in the oxidation of methanol, methylamine, dimethylamine, trimethylamine, N,N-dimethylformamide, and formamide, as well as the serine cycle, which appears to be the only C1 assimilatory pathway in this strain. Many of these genes are located in different extrachromosomal replicons and are not present in the genomes of most members of the genus Paracoccus, which strongly suggests that they have been horizontally acquired. When compared with Paracoccus denitrificans Pd1222 (type strain of the genus Paracoccus), P. aminophilus JCM 7686 has many additional methylotrophic capabilities (oxidation of dimethylamine, trimethylamine, N,N-dimethylformamide, the serine cycle), which are determined by the presence of three separate gene clusters. Interestingly, related clusters form compact methylotrophy islands within the genomes of Paracoccus sp. N5 and many marine bacteria of the Roseobacter clade.

No MeSH data available.


Related in: MedlinePlus

Effect of the xoxF mutation on growth of P. aminophilus JCM 7686 on methanol (A) and L-arabinose (B). wt, wild type; xoxF, xoxF insertional mutant; xoxF compl., xoxF insertional mutant complemented with a copy of the xoxF gene cloned in pBBR1MCS-3. The values are means of three replicates, and the error bars indicate the standard deviations.
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Figure 3: Effect of the xoxF mutation on growth of P. aminophilus JCM 7686 on methanol (A) and L-arabinose (B). wt, wild type; xoxF, xoxF insertional mutant; xoxF compl., xoxF insertional mutant complemented with a copy of the xoxF gene cloned in pBBR1MCS-3. The values are means of three replicates, and the error bars indicate the standard deviations.

Mentions: To evaluate the role of the identified xoxF gene in methanol utilization, its mutational analysis was performed. This revealed that a strain with disrupted xoxF was unable to grow in minimal medium with methanol as the sole source of carbon. The wild-type phenotype was restored when the xoxF gene cloned in vector pBBR1MCS-3 was introduced into the mutant cells (Figure 3). This confirmed that XoxF is the enzyme responsible for methanol oxidation in P. aminophilus JCM 7686.


Genome-guided insight into the methylotrophy of Paracoccus aminophilus JCM 7686.

Dziewit L, Czarnecki J, Prochwicz E, Wibberg D, Schlüter A, Pühler A, Bartosik D - Front Microbiol (2015)

Effect of the xoxF mutation on growth of P. aminophilus JCM 7686 on methanol (A) and L-arabinose (B). wt, wild type; xoxF, xoxF insertional mutant; xoxF compl., xoxF insertional mutant complemented with a copy of the xoxF gene cloned in pBBR1MCS-3. The values are means of three replicates, and the error bars indicate the standard deviations.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4543880&req=5

Figure 3: Effect of the xoxF mutation on growth of P. aminophilus JCM 7686 on methanol (A) and L-arabinose (B). wt, wild type; xoxF, xoxF insertional mutant; xoxF compl., xoxF insertional mutant complemented with a copy of the xoxF gene cloned in pBBR1MCS-3. The values are means of three replicates, and the error bars indicate the standard deviations.
Mentions: To evaluate the role of the identified xoxF gene in methanol utilization, its mutational analysis was performed. This revealed that a strain with disrupted xoxF was unable to grow in minimal medium with methanol as the sole source of carbon. The wild-type phenotype was restored when the xoxF gene cloned in vector pBBR1MCS-3 was introduced into the mutant cells (Figure 3). This confirmed that XoxF is the enzyme responsible for methanol oxidation in P. aminophilus JCM 7686.

Bottom Line: Paracoccus aminophilus JCM 7686 (Alphaproteobacteria) is a facultative, heterotrophic methylotroph capable of utilizing a wide range of C1 compounds as sole carbon and energy sources.Many of these genes are located in different extrachromosomal replicons and are not present in the genomes of most members of the genus Paracoccus, which strongly suggests that they have been horizontally acquired.Interestingly, related clusters form compact methylotrophy islands within the genomes of Paracoccus sp.

View Article: PubMed Central - PubMed

Affiliation: Department of Bacterial Genetics, Institute of Microbiology, Faculty of Biology, University of Warsaw Warsaw, Poland.

ABSTRACT
Paracoccus aminophilus JCM 7686 (Alphaproteobacteria) is a facultative, heterotrophic methylotroph capable of utilizing a wide range of C1 compounds as sole carbon and energy sources. Analysis of the JCM 7686 genome revealed the presence of genes involved in the oxidation of methanol, methylamine, dimethylamine, trimethylamine, N,N-dimethylformamide, and formamide, as well as the serine cycle, which appears to be the only C1 assimilatory pathway in this strain. Many of these genes are located in different extrachromosomal replicons and are not present in the genomes of most members of the genus Paracoccus, which strongly suggests that they have been horizontally acquired. When compared with Paracoccus denitrificans Pd1222 (type strain of the genus Paracoccus), P. aminophilus JCM 7686 has many additional methylotrophic capabilities (oxidation of dimethylamine, trimethylamine, N,N-dimethylformamide, the serine cycle), which are determined by the presence of three separate gene clusters. Interestingly, related clusters form compact methylotrophy islands within the genomes of Paracoccus sp. N5 and many marine bacteria of the Roseobacter clade.

No MeSH data available.


Related in: MedlinePlus