- Use of rpoB Sequences and rep-PCR for Phylogenetic Study of Anoxybacillus Species
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Kadriye Inan , Yusuf Bektas , Sabriye Canakci , Ali Osman Belduz
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J. Microbiol. 2011;49(5):782-790. Published online November 9, 2011
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DOI: https://doi.org/10.1007/s12275-011-1136-8
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This study was conducted to investigate the applicability of rpoB, which encodes the β subunit of RNA polymerase, to be used as an alternative to 16S rRNA gene sequence similarity analysis in the thermophilic genus Anoxybacillus. Partial rpoB sequences were generated for the 14 type strains of Anoxybacillus species and 6 other strains of four Anoxybacillus species. The sequences and the phylogenetic tree of rpoB were compared with those obtained from 16S rRNA gene analysis. The rpoB gene was found to provide a better resolution for Anoxybacillus species, with lower interspecies sequence similarities. The rpoB sequence similarity analysis permitted a more accurate discrimination of the species within the Anoxybacillus genus than the more commonly used 16S rRNA gene. Furthermore, rapid and reproducible repetitive extragenic palindromic fingerprinting techniques (REP-, ERIC-, and BOX-PCR) were employed for the specimens of genus Anoxybacillus. Through comparison of the three methods, it was found that the BOX-PCR method generated more informative results than REP-PCR for the studied strains; BOX-PCR profiles were more distinct for the different strains, including a higher number of bands. Rapid and reproducible repetitive extragenic palindromic fingerprinting techniques (rep-PCR) constitute a suitable molecular approach for the validation and maintenance of taxonomy within the Anoxybacillus genus. The results of this study show that rpoB and rep-PCR provide rapid and reliable methods for molecular typing of Anoxybacillus species.
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Citations
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- The ATPase Activity of The G2alt Gene Encoding an Aluminium Tolerance Protein from Anoxybacillus gonensis G2
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Fatih Saban Beris , Lina De Smet , Hakan Karaoglu , Sabriye Canakci , Jozef Van Beeumen , Ali Osman Belduz
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J. Microbiol. 2011;49(4):641-650. Published online September 2, 2011
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DOI: https://doi.org/10.1007/s12275-011-0522-6
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The G2ALT gene was cloned and sequenced from the thermophilic bacterium Anoxybacillus gonensis G2.
The gene is 666 bp long and encodes a protein 221 amino acids in length. The gene was overexpressed
in E. coli and purified to homogeneity and biochemically characterized. The enzyme has a molecular mass
of 24.5 kDa and it could be classified as a member of the family of bacterial aluminium resistance proteins
based on homology searches. When this fragment was expressed in E. coli, it endowed E. coli with Al
tolerance to 500 μM. The purified G2ALT protein is active at a broad pH range (pH 4.0-10.0) and temperature
range (25°C-80°C) with optima of 6.0 and the apparent optimal temperature of 73°C respectively.
Under optimal conditions, G2ALT exhibited a low ATPase activity with Km- and Vmax- values of 10±0.55
μM and 26.81±0.13 mg Pi released/min/mg enzyme, respectively. The ATPase activity of G2ALT requires
Mg2+ and Na+ ions, while Zn2+ and Al3+ stimulate the activity. Cd2+ and Ag+ reduced the activity and Li+,
Cu2+, and Co2+ inhibited the activity. Known inhibitors of most ATPases, like such as β-mercaptoethanol
and ouabain, also inhibited the activity of the G2ALT. These biochemical characterizations suggested that
G2ALT belongs to the PP-loop ATPase superfamily and it can be responsible for aluminium tolerance
in A. gonensis G2.
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