Occurrence of free D-amino acids and aspartate racemases in hyperthermophilic archaea

Journal of Bacteriology

Volumn 181, Issue 20, 1999, Pages 6560-6563

  Matsumoto, Megumi ^a   Homma, Hiroshi ^a   Long, Zhiqun ^a   Imai, Kazuhiro ^a   Iida, Toshii ^b   Maruyama, Tadashi ^b   Aikawa, Yuko ^c   Endo, Isao ^c   Yohda, Masafumi ^d  

^a UNIVERSITY OF TOKYO   (Japan)

^b MARINE BIOTECHNOLOGY INSTITUTE   (Japan)

^c INST OF PHYS AND CHEMICAL RESEARCH   (Japan)

^d TOKYO UNIVERSITY OF AGRICULTURE AND TECHNOLOGY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ALANINE; ASPARTIC ACID; DEXTRO AMINO ACID; LEUCINE; LYSINE; PHENYLALANINE; RACEMASE;

ARCHAEBACTERIUM; ARTICLE; ENANTIOMER; ENZYME ACTIVITY; ENZYME ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RACEMIC MIXTURE; THERMOCOCCUS; THERMOPHILIC BACTERIUM;

ARCHAEA; BACTERIA (MICROORGANISMS); THERMOCOCCUS;

EID: 0032692877     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.181.20.6560-6563.1999     Document Type: Article

References (28)

1. Bada, J. L. 1985. Racemization of amino acids, p. 399-414. In G. C. Barrett (ed.), Chemistry and biochemistry of amino acids. Chapman and Hall, New York, N.Y.
2. Bult, C. J., O. White, G. J. Olsen, L. Zhou, R. D. Fleischmann, G. G. Sutton, J. A. Blake, L. M. FitzGerald, R. A. Clayton, J. D. Gocayne, A. R. Kerlavage, B. A. Dougherty, J. F. Tomb, M. D. Adams, C. I. Reich, R. Overbeek, E. F. Kirkness. K. G. Weinstock, J. M. Merrick, et al. 1996. Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii. Science 273:1058-1073.
3. Dunlop, D. S., A. Neidle, D. McHale, D. M. Dunlop, and A. Lajtha. 1986. The presence of free D-aspartic acid in rodents and man. Biochem. Biophys. Res. Commun. 141:27-32.
4. Goodfriend, G. A. 1992. Rapid racemization of aspartic acid in mollusc shells and potential for dating over recent centuries. Nature 357:399-401.
5. Goodfriend, G. A., and R. R. Meyer. 1991. A comparative study of the kinetics of amino acid racemization/epimerization in fossil and modern mollusk shells. Geochim. Cosmochim. Acta 55:3355-3367.
6. Hamase, K., H. Homma, Y. Takigiwa, T. Fukushima, T. Santa, and K. Imai. 1997. Regional distribution and postnatal changes of D-amino acids in rat brain. Biochim. Biophys. Acta 1334:214-222.
7. Hashimoto, A., T. Nishikawa, T. Hayashi, N. Fujii, K. Harada, T. Oka, and K. Takahashi. 1992. The presence of free D-serine in rat brain. FEBS Lett. 296:33-36.
8. Hoaki, T., M. Nishijima, M. Kato, K. Adachi, S. Mizobuchi, N. Hanzawa, and T. Maruyama. 1994. Growth requirements of hyperthermophilic sulfur-dependent heterotrophic archaea isolated from a shallow submarine geothermal system with reference to their essential amino acids. Appl. Environ. Microbiol. 60:2898-2904.
9. Iida, T., T. Hoaki, K. Kamino, K. Inatomi, Y. Kamagata, and T. Maruyama. 1996. Vacuolar-type ATPase in a hyperthermophilic archaeum, Thermococeus sp. KI. Biochem. Biophys. Res. Commun. 229:559-564.
10. Jannasch, H. W., C. O. Wirsen, S. J. Molyneaux, and T. A. Langworthy. 1988. Extremely thermophilic fermentative archaebacteria of the genus Desulfurococcus from deep-sea hydrothermal vents. Appl. Environ. Microbiol. 54: 1203-1209.
11. Jannasch, H. W., C. O. Wirsen, S. J. Molyneaux, and T. A. Langworthy. 1992. Comparative physiological studies on hyperthermophilic archaea isolated from deep-sea hot vents with emphasis on Pyrococcus strain GB-D. Appl. Environ. Microbiol. 58:3472-3481.
12. Kandler, O. 1994. Cell wall biochemistry in Archaea and its physical implications. J. Biol. Phys. 20:165-169.
13. Kandler, O., and H. Konig. 1998. Cell walls polymers in Archaea (Archae-bacteria). Cell Mol. Life Sci. 54:305-308.
14. Kandler, O., and H. Konig. 1978. Chemical composition of the peptidogly-can-free cell walls of methanogenic bacteria. Arch. Microbiol. 118:141-152.
15. Kawarabayasi, Y., M. Sawada, H. Horikawa, Y. Haikawa, Y. Hino, S. Yamamoto, M. Sekine, S. Baba, H. Kosugi, A. Hosoyama, Y. Nagai, M. Sakai, K. Ogura, R. Otsuka, H. Nakazawa, M. Takamiya, Y. Ohfuku, T. Funahashi, T. Tanaka, Y. Kudoh, J. Yamazaki, et al. 1998. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3. DNA Res. 5:55-76.
16. Kawarabayasi, Y., M. Sawada, H. Horikawa, Y. Haikawa, Y. Hino, S. Yamamoto, M. Sekine, S. Baba, H. Kosugi, A. Hosoyama, Y. Nagai, M. Sakai, K. Ogura, R. Otsuka, H. Nakazawa, M. Takamiya, Y. Ohfuku, T. Funahashi, T. Tanaka, Y. Kudoh, J. Yamazaki, et al. 1998. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3. DNA Res. 5(Suppl.):147-155.
17. Klenk, H. P., R. A. Clayton, J. F. Tomb, O. White, K. E. Nelson, K. A. Ketchum, R. J. Dodson, M. Gwinn, E. K. Hickey, J. D. Peterson, D. L. Richardson, A. R. Kerlavage, D. E. Graham, N. C. Kyrpides, R. D. Fleischmann, J. Quackenbush, N. H. Lee, G. G. Sutton, S. Gill, et al. 1997. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus. Nature 390:364-370.
18. Maruyama, T. Unpublished data.
19. Nagata, Y., T. Fujiwara, K. Kawaguchi-Nagata, Y. Fukumori, and T. Yamanaka. 1998. Occurrence of peptidyl D-amino acids in soluble fractions of several eubacteria, archaea and eukaryotes. Biochim. Biophys. Acta 1379: 76-82.
20. Smith, D. R., L. A. Doucette-Stamm, C. Deloughery, H. Lee, J. Dubois, T. Aldredge, R. Bashirzadeh, D. Blakely, R. Cook, K. Gilbert, D. Harrison, L. Hoang, P. Keagle, W. Lumm, B. Pothier, D. Qiu, R. Spadafora, R. Vicaire, Y. Wang, J. Wierzbowski, R Gibson, N. Jiwani, A. Caruso, D. Bush, H. Safer, D. Patwell, S. Prabhakar, S. McDougall, G. Shimer, A. Goyal, S. Pietrokovski, G. M. Church, C. J. Daniels, J.-I. Mao, P. Rice, J. Nölling, and J. N. Reeve. 1997. Complete genome sequence of Methanobacterium thermoautotrophicum ΓH: functional analysis and comparative genomics. J. Bacteriol. 179:7135-7155.
21. Stüdier, F. W., A. H. Rosenberg, J. J. Dunn, and J. W. Dubendorff. 1990. Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol. 185:60-89.
22. Takeshita, S., M. Sato, M. Toba, W. Masahashi, and T. Hashimoto-Gotoh. 1987. High-copy-number and low-copy-number plasmid vectors for lacZ alpha-complementation and chloramphenicol- or kanamycin-resistance selection. Gene 61:63-74.
23. Uo, T., T. Yoshimura, S. Shimizu, and N. Esaki. 1998. Occurrence of pyridoxal 5′-phosphate-dependent serine racemase in silkworm, Bombyx mori. Biochem. Biophys. Res. Commun. 246:31-34.
24. Walsh, C. T. 1989. Enzymes in the D-alanine branch of bacterial cell wall peptidoglycan assembly. J. Biol. Chem. 264:2393-2396.
25. Wolosker, H., K. N. Sheth, M. Takahashi, J. P. Mothet, R. O. Brady, Jr., C. D. Ferris, and S. H. Snyder. 1999. Purification of serine racemase: biosynthesis of the neuromodulator D-serine. Proc. Natl. Acad. Sci. USA 96: 721-725.
26. Yamauchi, T., S. Y. Choi, H. Okada, M. Yohda, H. Kumagai, N. Esaki, and K. Soda. 1992. Properties of aspartate racemase, a pyridoxal 5′-phosphate-independent amino acid racemase. J. Biol. Chem. 267:18361-18364.
27. Yohda, M., H. Okada, and H. Kumagai. 1991. Molecular cloning and nucleotide sequencing of the aspartate racemase gene from lactic acid bacteria Streptococcus themophilus. Biochim. Biophys. Acta 1089:234-240.
28. Yohda, M., I. Endo, Y. Abe, T. Ohta, T. Iida, T. Maruyama, and Y. Kagawa. 1996. Gene for aspartate racemase from the sulfur-dependent hyperthermophilic archaeum, Desulfurococcus strain SY. J. Biol. Chem. 271:22017-22021.