Random sequence analysis of genomic DNA of a hyperthermophile: Aquifex pyrophilus

In-Geol Choi, Sang Suk Kim, Jae Ryeon Ryu, Ye Sun Han, Won Gi Bang, Sung Hou Kim, Yeon Gyu Yu

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

Aquifex pyrophilus is one of the hyperthermophilic bacteria that can grow at temperatures up to 95°C. To obtain information about its genomic structure, random sequencing was performed on plasmid libraries containing 0.5-2 kb genomic DNA fragments of A. pyrophilus. Comparison of the obtained sequence tags with known proteins revealed that 123 tags showed strong similarity to previously identified proteins in the PIR or Genebank databases. These included three proteases, two amino acid racemases, and three enzymes utilizing oxygen as substrate. Although the GC ratio of the genome is about 40%, the codon usage of A. pyrophilus showed biased occurrence of G and C at the third position of codons, especially those for amino acids such as asparagine, aspartic acid, cysteine, glutamine, glutamic acid, histidine, lysine, and tyrosine. A higher ratio of positively charged amino acids in A. pyrophilus proteins as compared with proteins from mesophiles suggested that Aquifex proteins might contain increased ion-pair interaction that could help to maintain heat stability.

Original languageEnglish
Pages (from-to)125-134
Number of pages10
JournalExtremophiles
Volume1
Issue number3
Publication statusPublished - 1997 Dec 1
Externally publishedYes

Fingerprint

DNA Sequence Analysis
Proteins
Codon
Amino Acid Isomerases
Amino Acids
Asparagine
Glutamine
Histidine
Aspartic Acid
Lysine
Cysteine
Tyrosine
Glutamic Acid
Plasmids
Peptide Hydrolases
Hot Temperature
Genome
Databases
Ions
Oxygen

Keywords

  • Aquifex pyrophilus
  • Hyperthermophile Genome sequence
  • Oxidase
  • Protease
  • Racemase

ASJC Scopus subject areas

  • Applied Microbiology and Biotechnology
  • Microbiology

Cite this

Choi, I-G., Kim, S. S., Ryu, J. R., Han, Y. S., Bang, W. G., Kim, S. H., & Yu, Y. G. (1997). Random sequence analysis of genomic DNA of a hyperthermophile: Aquifex pyrophilus. Extremophiles, 1(3), 125-134.

Random sequence analysis of genomic DNA of a hyperthermophile : Aquifex pyrophilus. / Choi, In-Geol; Kim, Sang Suk; Ryu, Jae Ryeon; Han, Ye Sun; Bang, Won Gi; Kim, Sung Hou; Yu, Yeon Gyu.

In: Extremophiles, Vol. 1, No. 3, 01.12.1997, p. 125-134.

Research output: Contribution to journalArticle

Choi, I-G, Kim, SS, Ryu, JR, Han, YS, Bang, WG, Kim, SH & Yu, YG 1997, 'Random sequence analysis of genomic DNA of a hyperthermophile: Aquifex pyrophilus', Extremophiles, vol. 1, no. 3, pp. 125-134.
Choi I-G, Kim SS, Ryu JR, Han YS, Bang WG, Kim SH et al. Random sequence analysis of genomic DNA of a hyperthermophile: Aquifex pyrophilus. Extremophiles. 1997 Dec 1;1(3):125-134.
Choi, In-Geol ; Kim, Sang Suk ; Ryu, Jae Ryeon ; Han, Ye Sun ; Bang, Won Gi ; Kim, Sung Hou ; Yu, Yeon Gyu. / Random sequence analysis of genomic DNA of a hyperthermophile : Aquifex pyrophilus. In: Extremophiles. 1997 ; Vol. 1, No. 3. pp. 125-134.
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