Two Genome Sequences of Klebsiella pneumoniae Strains with Sequence Type 23 and Capsular Serotype K1

GENOME ANNOUNCEMENT

Klebsiella pneumoniae is a Gram-negative, rod-shaped bacterium that causes community- and hospital-acquired infections (1, 2). Worldwide, community-acquired primary liver abscess caused by invasive K. pneumoniae with serotype K1 has emerged. In Taiwan, approximately 12% of patients with K. pneumoniae liver abscess appeared with a metastatic brain abscess or pyogenic meningitis (3). This unique epidemic of K. pneumoniae–caused meningitis has become a public health concern in Taiwan (4).

K. pneumoniae ED2 or ED23 strains were isolated, respectively, from bacteremic patients with liver abscesses and patients with liver abscesses and meningitis. Both strains were of multilocus sequence type 23 with a K1 capsular serotype.

Total DNA was extracted from both strains by a mini-QIAamp DNA isolation kit (Qiagen, Germany). The entire genomic sequence was determined using PacBio technologies (Pacific Biosciences, USA). Continuous long reads with a 20-kb average insert size were generated, and read processing and de-novo assembly were performed using the HGAP program version 3 (bioinformatics analysis served by Yourgene Biotech, Inc., New Taipei, Taiwan). A comparison of the ED2 and ED23 whole-genome sequences was performed using the MUMmer program version 3.22 (5).

The assembled genome sizes were 5,412,960 bp with a G+C composition of 57.4% for strain ED2 and 5,374,626 bp with a G+C composition of 57.6% for strain ED23. Strain ED23 harbored a plasmid of 212,770 bp with a G+C composition of 50.1%. The similarity in the chromosomal DNA sequences of both strains was 99.93%. In total, there were 21 sites with gaps appearing between mutually consistent alignments, 11 sites appearing in sequence rearrangement, and 7 sites with inserted duplication.