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Enantioselective Utilization of D-Amino Acids by Deep-Sea Microorganisms.

Kubota T, Kobayashi T, Nunoura T, Maruyama F, Deguchi S - Front Microbiol (2016)

Bottom Line: Microorganisms that utilize various D-amino acids (DAAs) were successfully isolated from deep-sea sediments.In contrast, the Nautella strains isolated from shallow-sea grew only with L-Val.No significant differences were found among the strains in the genome sequences including genes possibly related to DAA metabolisms.

View Article: PubMed Central - PubMed

Affiliation: Research and Development Center for Marine Biosciences, Japan Agency for Marine-Earth Science and Technology Yokosuka, Japan.

ABSTRACT
Microorganisms that utilize various D-amino acids (DAAs) were successfully isolated from deep-sea sediments. The isolates were phylogenetically assigned to Alphaproteobacteria, Gammmaproteobacteria, and Bacilli. Some of the isolates exhibited high enantioselective degradation activities to various DAAs. In particular, the Alphaproteobacteria Nautella sp. strain A04V exhibited robust growth in minimal medium supplemented with D-Val as a sole carbon and nitrogen source, whereas its growth was poor on minimal medium supplemented with L-Val instead of D-Val. Its growth was facilitated most when racemic mixtures of valine were used. In contrast, the Nautella strains isolated from shallow-sea grew only with L-Val. No significant differences were found among the strains in the genome sequences including genes possibly related to DAA metabolisms.

No MeSH data available.


Related in: MedlinePlus

Deamination of D-amino acids to α-keto acids using the resting cells of strains isolated from deep-sea sediments as catalysts. Neutral D-amino acids (A,B) and ionic D-amino acids (C) were used as substrates. Reactions were performed at 30°C for 1 h. Bars indicate the degradation activities of each isolate. Black, gray, and white colors indicate phylogenetic affiliations, i.e., Alphaproteobacteria, Gammaproteobacteria, and Bacilli, respectively. Numbers indicate the identifiers of isolates as shown in Figure 1.
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Figure 2: Deamination of D-amino acids to α-keto acids using the resting cells of strains isolated from deep-sea sediments as catalysts. Neutral D-amino acids (A,B) and ionic D-amino acids (C) were used as substrates. Reactions were performed at 30°C for 1 h. Bars indicate the degradation activities of each isolate. Black, gray, and white colors indicate phylogenetic affiliations, i.e., Alphaproteobacteria, Gammaproteobacteria, and Bacilli, respectively. Numbers indicate the identifiers of isolates as shown in Figure 1.

Mentions: The DAA degradation activities of the isolates were examined using a spectrometric method with resting cells (Figure 2). The alphaproteobacterial strains, i.e., Nautella sp. strain A04V and A04F (numbers 2 and 4 in Figure 2, respectively), and Paracoccus sp. strain A18Fa and A30V (numbers 13 and 14 in Figure 2, respectively), showed high DAA degradation activities compared with the others. Interestingly, the strains A04V, A04F, and A18Fa degraded various DAAs, but in most cases, did not degrade their L-counterparts in this reaction condition (Figure 3). The resting cells of the alphaproteobacterial isolates degraded not only the branched-chain and aromatic DAAs that were supplemented to the culture media for enrichment and isolation, but also D-Met and D-Pro as well as basic DAAs, i.e., D-Lys, D-Arg, and D-His. The isolates with no or weak DAA degradation activities showed poor growth on the glucose-deficient DBM or DAM. We also evaluated the amino acid racemase activities in resting cells according to the method described by Asano and Endo (1988), but did not observe significant activity except for alanine.


Enantioselective Utilization of D-Amino Acids by Deep-Sea Microorganisms.

Kubota T, Kobayashi T, Nunoura T, Maruyama F, Deguchi S - Front Microbiol (2016)

Deamination of D-amino acids to α-keto acids using the resting cells of strains isolated from deep-sea sediments as catalysts. Neutral D-amino acids (A,B) and ionic D-amino acids (C) were used as substrates. Reactions were performed at 30°C for 1 h. Bars indicate the degradation activities of each isolate. Black, gray, and white colors indicate phylogenetic affiliations, i.e., Alphaproteobacteria, Gammaproteobacteria, and Bacilli, respectively. Numbers indicate the identifiers of isolates as shown in Figure 1.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4836201&req=5

Figure 2: Deamination of D-amino acids to α-keto acids using the resting cells of strains isolated from deep-sea sediments as catalysts. Neutral D-amino acids (A,B) and ionic D-amino acids (C) were used as substrates. Reactions were performed at 30°C for 1 h. Bars indicate the degradation activities of each isolate. Black, gray, and white colors indicate phylogenetic affiliations, i.e., Alphaproteobacteria, Gammaproteobacteria, and Bacilli, respectively. Numbers indicate the identifiers of isolates as shown in Figure 1.
Mentions: The DAA degradation activities of the isolates were examined using a spectrometric method with resting cells (Figure 2). The alphaproteobacterial strains, i.e., Nautella sp. strain A04V and A04F (numbers 2 and 4 in Figure 2, respectively), and Paracoccus sp. strain A18Fa and A30V (numbers 13 and 14 in Figure 2, respectively), showed high DAA degradation activities compared with the others. Interestingly, the strains A04V, A04F, and A18Fa degraded various DAAs, but in most cases, did not degrade their L-counterparts in this reaction condition (Figure 3). The resting cells of the alphaproteobacterial isolates degraded not only the branched-chain and aromatic DAAs that were supplemented to the culture media for enrichment and isolation, but also D-Met and D-Pro as well as basic DAAs, i.e., D-Lys, D-Arg, and D-His. The isolates with no or weak DAA degradation activities showed poor growth on the glucose-deficient DBM or DAM. We also evaluated the amino acid racemase activities in resting cells according to the method described by Asano and Endo (1988), but did not observe significant activity except for alanine.

Bottom Line: Microorganisms that utilize various D-amino acids (DAAs) were successfully isolated from deep-sea sediments.In contrast, the Nautella strains isolated from shallow-sea grew only with L-Val.No significant differences were found among the strains in the genome sequences including genes possibly related to DAA metabolisms.

View Article: PubMed Central - PubMed

Affiliation: Research and Development Center for Marine Biosciences, Japan Agency for Marine-Earth Science and Technology Yokosuka, Japan.

ABSTRACT
Microorganisms that utilize various D-amino acids (DAAs) were successfully isolated from deep-sea sediments. The isolates were phylogenetically assigned to Alphaproteobacteria, Gammmaproteobacteria, and Bacilli. Some of the isolates exhibited high enantioselective degradation activities to various DAAs. In particular, the Alphaproteobacteria Nautella sp. strain A04V exhibited robust growth in minimal medium supplemented with D-Val as a sole carbon and nitrogen source, whereas its growth was poor on minimal medium supplemented with L-Val instead of D-Val. Its growth was facilitated most when racemic mixtures of valine were used. In contrast, the Nautella strains isolated from shallow-sea grew only with L-Val. No significant differences were found among the strains in the genome sequences including genes possibly related to DAA metabolisms.

No MeSH data available.


Related in: MedlinePlus