Whole genome sequencing of meticillin-resistant Staphylococcus aureus

Makoto Kuroda, Toshiko Ohta, Ikuo Uchiyama, Tadashi Baba, Harumi Yuzawa, Ichizo Kobayashi, N. Kobayashi, Longzhu Cui, Akio Oguchi, Ken Ichi Aoki, Yoshimi Nagai, JianQi Lian, Teruyo Ito, Mutsumi Kanamori, Hiroyuki Matsumaru, Atsushi Maruyama, Hiroyuki Murakami, Akira Hosoyama, Yoko Mizutani-Ui, Noriko K. Takahashi & 18 others Toshihiko Sawano, Ryu Ichi Inoue, Chikara Kaito, Kazuhisa Sekimizu, Hideki Hirakawa, Satoru Kuhara, Susumu Goto, Junko Yabuzaki, Minoru Kanehisa, Atsushi Yamashita, Kenshiro Oshima, Keiko Furuya, Chie Yoshino, Tadayoshi Shiba, Masahira Hattori, Naotake Ogasawara, Hideo Hayashi, Keiichi Hiramatsu

Research output: Contribution to journalArticle

1332 Citations (Scopus)

Abstract

Background Staphylococcus aureus is one of the major causes of community-acquired and hospital-acquired infections. It produces numerous toxins including superantigens that cause unique disease entities such as toxic-shock syndrome and staphylococcal scarlet fever, and has acquired resistance to practically all antibiotics. Whole genome analysis is a necessary step towards future development of countermeasures against this organism. Methods: Whole genome sequences of two related S aureus strains (N315 and Mu50) were determined by shot-gun random sequencing. N315 is a meticillin-resistant S aureus (MRSA) strain isolated in 1982, and Mu50 is an MRSA strain with vancomycin resistance isolated in 1997. The open reading frames were identified by use of GAMBLER and GLIMMER programs, and annotation of each was done with a BLAST homology search, motif analysis, and protein localisation prediction. Findings: The Staphylococcus genome was composed of a complex mixture of genes, many of which seem to have been acquired by lateral gene transfer. Most of the antibiotic resistance genes were carried either by plasmids or by mobile genetic elements including a unique resistance island. Three classes of new pathogenicity islands were identified in the genome: a toxic-shock-syndrome toxin island family, exotoxin islands, and enterotoxin islands. In the latter two pathogenicity islands, clusters of exotoxin and enterotoxin genes were found closely linked with other gene clusters encoding putative pathogenic factors. The analysis also identified 70 candidates for new virulence factors. Interpretation: The remarkable ability of S aureus to acquire useful genes from various organisms was revealed through the observation of genome complexity and evidence of lateral gene transfer. Repeated duplication of genes encoding superantigens explains why S aureus is capable of infecting humans of diverse genetic backgrounds, eliciting severe immune reactions. Investigation of many newly identified gene products, including the 70 putative virulence factors, will greatly improve our understanding of the biology of staphylococci and the processes of infectious diseases caused by S aureus.

Original languageEnglish
Pages (from-to)1225-1240
Number of pages16
JournalLancet
Volume357
Issue number9264
DOIs
Publication statusPublished - 2001 Apr 21
Externally publishedYes

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Methicillin
Staphylococcus aureus
Islands
Genome
Genomic Islands
Exotoxins
Horizontal Gene Transfer
Superantigens
Genes
Enterotoxins
Virulence Factors
Septic Shock
Staphylococcus
Vancomycin Resistance
Interspersed Repetitive Sequences
Scarlet Fever
Amino Acid Motifs
Gene Duplication
Community Hospital
Medical Genetics

ASJC Scopus subject areas

  • Medicine(all)

Cite this

Kuroda, M., Ohta, T., Uchiyama, I., Baba, T., Yuzawa, H., Kobayashi, I., ... Hiramatsu, K. (2001). Whole genome sequencing of meticillin-resistant Staphylococcus aureus. Lancet, 357(9264), 1225-1240. https://doi.org/10.1016/S0140-6736(00)04403-2

Whole genome sequencing of meticillin-resistant Staphylococcus aureus. / Kuroda, Makoto; Ohta, Toshiko; Uchiyama, Ikuo; Baba, Tadashi; Yuzawa, Harumi; Kobayashi, Ichizo; Kobayashi, N.; Cui, Longzhu; Oguchi, Akio; Aoki, Ken Ichi; Nagai, Yoshimi; Lian, JianQi; Ito, Teruyo; Kanamori, Mutsumi; Matsumaru, Hiroyuki; Maruyama, Atsushi; Murakami, Hiroyuki; Hosoyama, Akira; Mizutani-Ui, Yoko; Takahashi, Noriko K.; Sawano, Toshihiko; Inoue, Ryu Ichi; Kaito, Chikara; Sekimizu, Kazuhisa; Hirakawa, Hideki; Kuhara, Satoru; Goto, Susumu; Yabuzaki, Junko; Kanehisa, Minoru; Yamashita, Atsushi; Oshima, Kenshiro; Furuya, Keiko; Yoshino, Chie; Shiba, Tadayoshi; Hattori, Masahira; Ogasawara, Naotake; Hayashi, Hideo; Hiramatsu, Keiichi.

In: Lancet, Vol. 357, No. 9264, 21.04.2001, p. 1225-1240.

Research output: Contribution to journalArticle

Kuroda, M, Ohta, T, Uchiyama, I, Baba, T, Yuzawa, H, Kobayashi, I, Kobayashi, N, Cui, L, Oguchi, A, Aoki, KI, Nagai, Y, Lian, J, Ito, T, Kanamori, M, Matsumaru, H, Maruyama, A, Murakami, H, Hosoyama, A, Mizutani-Ui, Y, Takahashi, NK, Sawano, T, Inoue, RI, Kaito, C, Sekimizu, K, Hirakawa, H, Kuhara, S, Goto, S, Yabuzaki, J, Kanehisa, M, Yamashita, A, Oshima, K, Furuya, K, Yoshino, C, Shiba, T, Hattori, M, Ogasawara, N, Hayashi, H & Hiramatsu, K 2001, 'Whole genome sequencing of meticillin-resistant Staphylococcus aureus', Lancet, vol. 357, no. 9264, pp. 1225-1240. https://doi.org/10.1016/S0140-6736(00)04403-2
Kuroda M, Ohta T, Uchiyama I, Baba T, Yuzawa H, Kobayashi I et al. Whole genome sequencing of meticillin-resistant Staphylococcus aureus. Lancet. 2001 Apr 21;357(9264):1225-1240. https://doi.org/10.1016/S0140-6736(00)04403-2
Kuroda, Makoto ; Ohta, Toshiko ; Uchiyama, Ikuo ; Baba, Tadashi ; Yuzawa, Harumi ; Kobayashi, Ichizo ; Kobayashi, N. ; Cui, Longzhu ; Oguchi, Akio ; Aoki, Ken Ichi ; Nagai, Yoshimi ; Lian, JianQi ; Ito, Teruyo ; Kanamori, Mutsumi ; Matsumaru, Hiroyuki ; Maruyama, Atsushi ; Murakami, Hiroyuki ; Hosoyama, Akira ; Mizutani-Ui, Yoko ; Takahashi, Noriko K. ; Sawano, Toshihiko ; Inoue, Ryu Ichi ; Kaito, Chikara ; Sekimizu, Kazuhisa ; Hirakawa, Hideki ; Kuhara, Satoru ; Goto, Susumu ; Yabuzaki, Junko ; Kanehisa, Minoru ; Yamashita, Atsushi ; Oshima, Kenshiro ; Furuya, Keiko ; Yoshino, Chie ; Shiba, Tadayoshi ; Hattori, Masahira ; Ogasawara, Naotake ; Hayashi, Hideo ; Hiramatsu, Keiichi. / Whole genome sequencing of meticillin-resistant Staphylococcus aureus. In: Lancet. 2001 ; Vol. 357, No. 9264. pp. 1225-1240.
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abstract = "Background Staphylococcus aureus is one of the major causes of community-acquired and hospital-acquired infections. It produces numerous toxins including superantigens that cause unique disease entities such as toxic-shock syndrome and staphylococcal scarlet fever, and has acquired resistance to practically all antibiotics. Whole genome analysis is a necessary step towards future development of countermeasures against this organism. Methods: Whole genome sequences of two related S aureus strains (N315 and Mu50) were determined by shot-gun random sequencing. N315 is a meticillin-resistant S aureus (MRSA) strain isolated in 1982, and Mu50 is an MRSA strain with vancomycin resistance isolated in 1997. The open reading frames were identified by use of GAMBLER and GLIMMER programs, and annotation of each was done with a BLAST homology search, motif analysis, and protein localisation prediction. Findings: The Staphylococcus genome was composed of a complex mixture of genes, many of which seem to have been acquired by lateral gene transfer. Most of the antibiotic resistance genes were carried either by plasmids or by mobile genetic elements including a unique resistance island. Three classes of new pathogenicity islands were identified in the genome: a toxic-shock-syndrome toxin island family, exotoxin islands, and enterotoxin islands. In the latter two pathogenicity islands, clusters of exotoxin and enterotoxin genes were found closely linked with other gene clusters encoding putative pathogenic factors. The analysis also identified 70 candidates for new virulence factors. Interpretation: The remarkable ability of S aureus to acquire useful genes from various organisms was revealed through the observation of genome complexity and evidence of lateral gene transfer. Repeated duplication of genes encoding superantigens explains why S aureus is capable of infecting humans of diverse genetic backgrounds, eliciting severe immune reactions. Investigation of many newly identified gene products, including the 70 putative virulence factors, will greatly improve our understanding of the biology of staphylococci and the processes of infectious diseases caused by S aureus.",
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T1 - Whole genome sequencing of meticillin-resistant Staphylococcus aureus

AU - Kuroda, Makoto

AU - Ohta, Toshiko

AU - Uchiyama, Ikuo

AU - Baba, Tadashi

AU - Yuzawa, Harumi

AU - Kobayashi, Ichizo

AU - Kobayashi, N.

AU - Cui, Longzhu

AU - Oguchi, Akio

AU - Aoki, Ken Ichi

AU - Nagai, Yoshimi

AU - Lian, JianQi

AU - Ito, Teruyo

AU - Kanamori, Mutsumi

AU - Matsumaru, Hiroyuki

AU - Maruyama, Atsushi

AU - Murakami, Hiroyuki

AU - Hosoyama, Akira

AU - Mizutani-Ui, Yoko

AU - Takahashi, Noriko K.

AU - Sawano, Toshihiko

AU - Inoue, Ryu Ichi

AU - Kaito, Chikara

AU - Sekimizu, Kazuhisa

AU - Hirakawa, Hideki

AU - Kuhara, Satoru

AU - Goto, Susumu

AU - Yabuzaki, Junko

AU - Kanehisa, Minoru

AU - Yamashita, Atsushi

AU - Oshima, Kenshiro

AU - Furuya, Keiko

AU - Yoshino, Chie

AU - Shiba, Tadayoshi

AU - Hattori, Masahira

AU - Ogasawara, Naotake

AU - Hayashi, Hideo

AU - Hiramatsu, Keiichi

PY - 2001/4/21

Y1 - 2001/4/21

N2 - Background Staphylococcus aureus is one of the major causes of community-acquired and hospital-acquired infections. It produces numerous toxins including superantigens that cause unique disease entities such as toxic-shock syndrome and staphylococcal scarlet fever, and has acquired resistance to practically all antibiotics. Whole genome analysis is a necessary step towards future development of countermeasures against this organism. Methods: Whole genome sequences of two related S aureus strains (N315 and Mu50) were determined by shot-gun random sequencing. N315 is a meticillin-resistant S aureus (MRSA) strain isolated in 1982, and Mu50 is an MRSA strain with vancomycin resistance isolated in 1997. The open reading frames were identified by use of GAMBLER and GLIMMER programs, and annotation of each was done with a BLAST homology search, motif analysis, and protein localisation prediction. Findings: The Staphylococcus genome was composed of a complex mixture of genes, many of which seem to have been acquired by lateral gene transfer. Most of the antibiotic resistance genes were carried either by plasmids or by mobile genetic elements including a unique resistance island. Three classes of new pathogenicity islands were identified in the genome: a toxic-shock-syndrome toxin island family, exotoxin islands, and enterotoxin islands. In the latter two pathogenicity islands, clusters of exotoxin and enterotoxin genes were found closely linked with other gene clusters encoding putative pathogenic factors. The analysis also identified 70 candidates for new virulence factors. Interpretation: The remarkable ability of S aureus to acquire useful genes from various organisms was revealed through the observation of genome complexity and evidence of lateral gene transfer. Repeated duplication of genes encoding superantigens explains why S aureus is capable of infecting humans of diverse genetic backgrounds, eliciting severe immune reactions. Investigation of many newly identified gene products, including the 70 putative virulence factors, will greatly improve our understanding of the biology of staphylococci and the processes of infectious diseases caused by S aureus.

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