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Genome Announc. 2013 Mar-Apr; 1(2): e00065-13.
Published online 2013 March 14. doi:  10.1128/genomeA.00065-13
PMCID: PMC3622968

Draft Genome Sequence of the Hypervirulent Klebsiella pneumoniae Strain hvKP1, Isolated in Buffalo, New York

Abstract

Hypervirulent variants of Klebsiella pneumoniae have been primarily reported in the Asian Pacific Rim, but they are spreading across the globe. We report the sequence of K. pneumoniae strain hvKP1, which caused liver-splenic abscesses in an otherwise healthy 24-year-old from Buffalo, NY, which will assist in determining why these variants are more pathogenic than “classic” K. pneumoniae strains.

GENOME ANNOUNCEMENT

A new hypervirulent (hypermucoviscous) variant of Klebsiella pneumoniae has emerged. First described in the Asian Pacific Rim in 1986 (1), it is now increasingly recognized in Western countries (2). Its defining clinical features are the ability to cause serious, life-threatening community-acquired infection in younger healthy hosts, including liver abscesses, pneumonia, meningitis, and endophthalmitis, and the ability to metastatically spread from the primary site of infection, which is an unusual feature for enteric Gram-negative bacilli (e.g., extraintestinal pathogenic Escherichia coli, “classic” K. pneumoniae) in a nonimmunocompromised host (3, 4). A characteristic laboratory feature is that its colonies on an agar plate are hypermucoviscous (which does not necessarily equate to being mucoid), which has been semiquantitatively defined by a positive string test. The string test is positive when a bacteriology inoculation loop or needle is able to generate a viscous string >5 mm in length by stretching bacterial colonies on an agar plate. To date, the majority of hypervirulent K. pneumoniae strains have been relatively antimicrobial susceptible. This combination of unique clinical features and a positive string test has been used to distinguish hypervirulent K. pneumoniae from “classical” K. pneumoniae. In the antibiotic era, most infections due to “classical” K. pneumoniae, particularly in developed Western countries, occur in hospitals and long-term-care facilities (5). Recently, these “classic” K. pneumoniae strains have received increased notoriety due to their propensity for acquiring antimicrobial resistance determinants (6, 7).

Here, we report the draft genome sequence of the strain hvKP1, a blood isolate from a healthy 24-year-old Vietnamese male from Buffalo, NY, who developed pyogenic liver abscess with metastatic spread to the spleen (8). The genomic DNA of strain hvKP1 was sequenced using an Illumina Genome Analyzer IIx, generating 4,524,424 mapped 65-nucleotide (nt) single-direction reads. The sequence reads were demultiplexed with Casava 1.8, and the genome was assembled into 272 contigs using CLC Genomics Workbench v4.0 (CLC bio). Gene prediction and annotation were carried out using the NCBI Prokaryotic Genome Annotation Pipeline (PGAAP). Annotation and contig sequences are available at GenBank under the accession no. AOIZ00000000 (BioProject PRJNA183508).

Although several genome sequences from “classic” K. pneumoniae strains are in the public domain, to date, only one genome sequence from a hypervirulent K. pneumoniae strain is publically available (NTUH-K2044, isolated from Taiwan, China) (9). Clearly, there has been a modification to the hypervirulent K. pneumoniae phenotype. Yet, an incompletely answered question is what are the mechanisms responsible for this change that have made this variant far more virulent than “classic” K. pneumoniae strains, from which it presumably evolved. The availability of additional genome sequences from hypervirulent K. pneumoniae strains will facilitate the elucidation of these mechanisms.

Nucleotide sequence accession number.

Annotation and contig sequences have been deposited in GenBank under the accession no. AOIZ00000000.

ACKNOWLEDGMENT

This work was supported by the National Institutes of Health grant no. 1R21AI088318-01A1 (to Thomas A. Russo).

Footnotes

Citation Russo TA, Gill SR. 2013. Draft genome sequence of the hypervirulent Klebsiella pneumoniae strain hvKP1, isolated in Buffalo, New York. Genome Announc. 1(2):e00065-13. doi:10.1128/genomeA.00065-13.

REFERENCES

1. Liu YC, Cheng DL, Lin CL. 1986. Klebsiella pneumoniae liver abscess associated with septic endophthalmitis. Arch. Intern. Med. 146:1913–1916. [PubMed]
2. Shon AS, Bajwa RP, Russo TA. 2013. Hypervirulent (hypermucoviscous) Klebsiella pneumoniae: a new and dangerous breed. Virulence 4:107–118. [PubMed]
3. Cheng DL, Liu YC, Yen MY, Liu CY, Wang RS. 1991. Septic metastatic lesions of pyogenic liver abscess. Their association with Klebsiella pneumoniae bacteremia in diabetic patients. Arch. Intern. Med. 151:1557–1559. [PubMed]
4. Wang JH, Liu YC, Lee SS, Yen MY, Chen YS, Wang JH, Wann SR, Lin HH. 1998. Primary liver abscess due to Klebsiella pneumoniae in Taiwan. Clin. Infect. Dis. 26:1434–1438. [PubMed]
5. Podschun R, Ullmann U. 1998. Klebsiella spp. as nosocomial pathogens: epidemiology, taxonomy, typing methods, and pathogenicity factors. Clin. Microbiol. Rev. 11:589–603. [PMC free article] [PubMed]
6. Moellering RC., Jr 2010. NDM-1—a cause for worldwide concern. N. Engl. J. Med. 363:2377–2379. [PubMed]
7. Snitkin ES, Zelazny AM, Thomas PJ, Stock F, NISC, Comparative Sequencing Program Group. Henderson DK, Palmore TN, Segre JA. 2012. Tracking a hospital outbreak of carbapenem-resistant Klebsiella pneumoniae with whole-genome sequencing. Sci. Transl. Med. 4:148ra116. [PMC free article] [PubMed]
8. Pomakova DK, Hsiao CB, Beanan JM, Olson R, Macdonald U, Keynan Y, Russo TA. 2011. Clinical and phenotypic differences between classic and hypervirulent Klebsiella pneumoniae: an emerging and under-recognized pathogenic variant. Eur. J. Clin. Microbiol. Infect. Dis. 6:981–989. [PubMed]
9. Wu KM, Li LH, Yan JJ, Tsao N, Liao TL, Tsai HC, Fung CP, Chen HJ, Liu YM, Wang JT, Fang CT, Chang SC, Shu HY, Liu TT, Chen YT, Shiau YR, Lauderdale TL, Su IJ, Kirby R, Tsai SF. 2009. Genome sequencing and comparative analysis of Klebsiella pneumoniae NTUH-K2044, a strain causing liver abscess and meningitis. J. Bacteriol. 191:4492–4501. [PMC free article] [PubMed]

Articles from Genome Announcements are provided here courtesy of American Society for Microbiology (ASM)