Summarized results of cultural growth and 16S rRNA gene PCR.

<p>Summarized results of cultural growth and 16S rRNA gene PCR.</p

Results of 917 bp 16S rRNA gene sequencing and consecutive 357 bp 16S rRNA gene sequencing in case of negative 917 bp 16S rRNA gene PCR results of culture-positive samples.

<p>^aComprising <i>Escherichia coli</i> (17), <i>Escherichia hermannii</i> (1), <i>Enterobacter cloacae</i> (1), <i>Klebsiella pneumoniae</i> (5), <i>Salmonella enterica</i> (11), <i>Salmonella</i> spp. (8), <i>Serratia</i> sp. (1) according to biochemical identification.</p><p>^bIncluding Gram-negative, not further identified coliform bacteria (3), Gram-negative, not further identified non-fermentative rod-shaped bacteria (1), <i>Sphingomonas paucimobilis</i> (2), <i>Streptococcus</i> Lancefield Group G (2), viridians group streptococci (1).</p><p>^cIncluding <i>Micrococcus</i> sp. (6), and <i>Rhizobium radiobacter</i> (1).</p><p>^d<i>Bacillus</i> sp. identified by PCR and sequencing.</p><p>^eBiochemically confirmed <i>Escherichia coli</i> not differentiable between <i>Escherichia coli</i> and <i>Shigella</i> sp. (4) based on 16S rRNA gene sequencing or identified as <i>Enterobacter</i> sp. (1), biochemical result <i>Serratia</i> sp. vs. sequencing result <i>Enterobacter</i> sp. (1), biochemical result <i>Klebsiella pneumoniae</i> vs. sequencing result <i>Enterobacter</i> sp. (1), biochemical result <i>Salmonella</i> sp. vs. sequencing result <i>Diaphorobacter</i> sp. (1).</p><p>^fBiochemically identification <i>Pseudomonas luteola</i> (2) vs. sequence-based identification as <i>Acinetobacter baumannii</i> (1) and <i>Acinetobacter</i> sp. (1), respectively.</p><p>^gCultural suspicion of Gram-negative, coliform bacteria (2) vs. sequence results <i>Bacillus</i> sp. (1) and <i>Microbacterium</i> sp. (1), cultural suspicion of Gram-negative, non-fermentative rod-shaped bacteria (1) vs. sequence result <i>Nesterenkonia</i> sp., biochemically identified <i>Sphingomonas paucimobilis</i> (2) vs. sequence results <i>Paenibacillus xylanilyticus</i> (1) and <i>Microbacterium oxydans</i> (1).</p><p>^hCultural suspicion of coagulase-negative staphylococci (13) vs. sequencing results <i>Bacterium</i> spp. (2), <i>Corynebacterium</i> sp. (1), <i>Diaphorobacter</i> spp. (3), <i>Haematobacter massiliensis</i> (1), <i>Kocuria</i> sp. (1), <i>Micrococcus luteus</i> (1), <i>Micrococcus</i> sp. (1), <i>Pseudomonas</i> sp. (1), <i>Sphingomonas</i> sp. (1), and <i>Staphylococcus aureus</i> (1).</p><p>ⁱCultural suspicion of <i>Corynebacterium</i> spp. (5) vs. sequencing results <i>Arthrobacter</i> spp. (2), <i>Diaphorobacter</i> spp. (2), <i>Massilia aurea</i> (1), and <i>Microbacterium</i> sp. (1).</p><p>^jCultural suspicion of <i>Micrococcus</i> spp. (3) vs. sequence results <i>Diaphorobacter</i> sp. (1), <i>Kocuria marina</i> (1), and <i>Staphylococcus</i> sp. (1).</p><p>Results of 917 bp 16S rRNA gene sequencing and consecutive 357 bp 16S rRNA gene sequencing in case of negative 917 bp 16S rRNA gene PCR results of culture-positive samples.</p

Results of 917 bp 16S rRNA gene sequencing of culture-positive samples.

<p>^aComprising <i>Escherichia coli</i> (17), <i>Escherichia hermannii</i> (1), <i>Enterobacter cloacae</i> (1), <i>Klebsiella pneumoniae</i> (5), <i>Salmonella enterica</i> (11), <i>Salmonella</i> spp. (8), <i>Serratia</i> sp. (1) according to biochemical identification.</p><p>^bIncluding Gram-negative, not further identified coliform bacteria (3), Gram-negative, not further identified non-fermentative rod-shaped bacteria (1), <i>Sphingomonas paucimobilis</i> (2), <i>Streptococcus</i> Lancefield Group G (2), viridians group streptococci (1)</p><p>^cIncluding <i>Micrococcus</i> spp. (6), and <i>Rhizobium radiobacter</i> (1).</p><p>^d<i>Bacillus</i> sp. identified by PCR and sequencing.</p><p>^eBiochemically confirmed <i>Escherichia coli</i> not differentiable between <i>Escherichia coli</i> and <i>Shigella</i> spp. (4), biochemical result <i>Serratia</i> sp. vs. sequencing result <i>Enterobacter</i> sp. (1), biochemical result <i>Klebsiella pneumoniae</i> vs. sequencing result <i>Enterobacter</i> sp. (1).</p><p>^fBiochemically identification <i>Pseudomonas luteola</i> (2) vs. sequence-based identification as <i>Acinetobacter baumannii</i> (1) and <i>Acinetobacter</i> sp. (1), respectively.</p><p>^gCultural suspicion of Gram-negative, coliform bacteria (2) vs. sequence results <i>Bacillus</i> sp. (1) and <i>Microbacterium</i> sp. (1), biochemically identified <i>Sphingomonas paucimobilis</i> (2) vs. sequence results <i>Paenibacillus xylanilyticus</i> (1) and <i>Microbacterium oxydans</i> (1).</p><p>^hCultural suspicion of coagulase-negative staphylococci (5) vs. sequencing results <i>Bacterium</i> spp. (2), <i>Micrococcus luteus</i> (1), <i>Sphingomonas</i> sp. (1), and <i>Staphylococcus aureus</i> (1).</p><p>ⁱCultural suspicion of <i>Corynebacterium</i> spp. (3) vs. sequencing results <i>Arthrobacter</i> spp. (2) and <i>Microbacterium</i> sp. (1).</p><p>Results of 917 bp 16S rRNA gene sequencing of culture-positive samples.</p

Results of the 917 bp 16S rRNA gene PCR and the 357 bp 16S rRNA gene PCR from culture-negative samples.

<p>^aComprising <i>Escherichia coli</i> (4), <i>E</i>. <i>coli</i>/<i>Shigella</i> spp. (2), <i>Escherichia</i> sp. (1), <i>Enterobacter</i> spp. (9), <i>Ewingella americana</i> (2), <i>Ewingella</i> spp. (3), <i>Klebsiella pneumoniae</i> (1), <i>Salmonella enterica</i> (9), <i>Salmonella</i> spp. (2), <i>Serratia</i> spp. (5), <i>Yersinia</i> spp. (3).</p><p>^bComprising potential contaminations during sample acquisition, bacteria which might be associated with transient bacteremia, and sequences with too poor quality for identifications even on genus level, i.e., <i>Bacillus</i> sp. (1), <i>Micrococcus</i> sp. (1), <i>Mycobacterium</i> sp. (1), <i>Staphylococcus epidermidis</i> (2), <i>Staphylococcus</i> spp. (4), <i>Streptococcus gallolyticus</i> ssp. <i>pasteurianus</i> (1), non-interpretable results due to poor sequence quality (40).</p><p>^cComprising <i>Alicycliphilus</i> sp. (1), Alphaproteobacterium (4), <i>Bacillus halodurans</i> (1), <i>Bacterium</i> sp. (1), <i>Balneomonas</i> sp. (1), <i>Bradyrhizobium</i> spp. (5), <i>Caulobacter</i> spp. (26), <i>Cloacibacterium normanense</i> (2), cocci (not further defined) (1), <i>Diaphorobacter</i> spp. (155), Flexibacteriaceae (1), <i>Janibacter</i> sp. (1), <i>Luteimonas</i> sp. (1), multiply superimposing sequences (45), <i>Riemerella</i> sp. (1), <i>Sporichtya</i> sp. (1), <i>Thermonema</i> sp. (1).</p><p>^dIn addition to this one detection of <i>S</i>. <i>pneumoniae</i> DNA, <i>sodA</i> sequencing identified <i>S</i>. <i>pneumoniae</i> DNA in one additional culture-negative sample, in which 16S rRNA gene sequencing did not allow for an identification even on genus level due to poor sequence quality.</p><p>^eConfirmed by <i>sodA</i> sequencing.</p><p>Results of the 917 bp 16S rRNA gene PCR and the 357 bp 16S rRNA gene PCR from culture-negative samples.</p