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Table 3 The Streptococcus and Enterococcus species alignment of 16S–23S rRNA region to GenBanka, b

From: Development of a reference data set for assigning Streptococcus and Enterococcus species based on next generation sequencing of the 16S–23S rRNA region

Species

NGS of 16S -23S rRNA region BLAST GenBank 1st ID

Score

NGS of 16S - 23S rRNA region BLAST GenBank 2nd ID

Score

Difference between 1st and 2nd ID

Streptococcus anginosus

Streptococcus anginosus

4410/4411 (99.9%)

Streptococcus intermedius

4287/4419 (97.0%)

2.9%

Streptococcus australis

Streptococcus australis

4159/4270 (97.4%)

Streptococcus oralis

4204/4255 (98.8%)

1.4%

Streptococcus canis

Streptococcus canis

4296/4301 (99.9%)

Streptococcus dysgalactiae

4206/4303 (97.8%)

2.%

Streptococcus constellatus

Streptococcus constellatus

4324/4340 (99.6%)

Streptococcus cremoris

Streptococcus cremoris

4317/4317 (100%)

Lactococcus garvieae

4043/4391 (92.1%)

7.9%

Streptococcus criceti

Streptococcus criceti

4649/4649 (100%)

Streptococcus durans

Streptococcus durans

4359/4366 (99.8%)

Enterococcus hirae

4330/4368 (99.1%)

0.7%

Streptococcus dysgalactiae

Streptococcus dysgalactiae

4300/4301 (99.9%)

Streptococcus canis

4201/4303 (97.6%)

2.3%

Streptococcus equi

Streptococcus equi

4429/4429 (100%)

Streptococcus gallolyticus

Streptococcus gallolyticus

4278/4284 (99.9%)

Streptococcus pasteurianus

4259/4286 (99.4%)

0.5%

Streptococcus gordonii

Streptococcus gordonii

4265/4267 (99.9%)

Streptococcus sanguinis

4161/4291 (97.0%)

2.9%

Streptococcus infantarius

Streptococcus infantarius

4282/4284 (99.9%)

Streptococcus equinus

4284/4284 (100%)

0.1%

Streptococcus intermedius

Streptococcus intermedius

4284/4291 (99.8%)

Streptococcus gordonii

4138/4302 (96.2%)

3.6%

Streptococcus mitis

Streptococcus mitis

4247/4259 (99.7%)

Streptococcus pneumoniae

4238/4259 (99.5%)

0.2%

Streptococcus mutans

Streptococcus mutans

4408/4408 (100%)

Streptococcus oligofermentans

Streptococcus oligofermentans

4263/4263 (100%)

Streptococcus sanguinis

4145/4285 (96.7%)

3.3%

Streptococcus oralis

Streptococcus oralis

4251/4259 (99.8%)

Streptococcus pneumoniae

4237/4257 (99.5%)

0.3%

Streptococcus parasanguinis

Streptococcus parasanguinis

4227/4261 (99.2%)

Streptococcus sanguinis

4137/4273 (97.6%)

1.6%

Streptococcus pasteurianus

Streptococcus pasteurianus

4283/4284 (99.9%)

Streptococcus gallolyticus

4258/4286 (99.4%)

0.5%

Streptococcus pluranimalium

Streptococcus pluranimalium

4295/4304 (99.8%)

Streptococcus halotolerans

4163/4316 (96.5%)

3.3%

Streptococcus pneumoniae

Streptococcus pneumoniae

4255/4258 (99.9%)

Streptococcus pseudopneumoniae

4238/4259 (99.5%)

0.4%

Streptococcus porcinus

Streptococcus porcinus

4558/4558 (100%)

Streptococcus pseudopneumoniae

Streptococcus pseudopneumoniae

4245/4261 (99.6%)

Streptococcus pneumoniae

4243/4260 (99.6%)

0.0%

Streptococcus pseudoporcinus

Streptococcus pseudoporcinus

4498/4498 (100%)

Streptococcus pyogenes

Streptococcus pyogenes

4435/4436 (99.9%)

Streptococcus suis

4199/4457 (94.2%)

5.7%

Streptococcus salivarius

Streptococcus salivarius

4283/4283 (100%)

Streptococcus vestibularis

4270/4283 (99.7%)

0.3%

Streptococcus sanguinis

Streptococcus sanguinis

4254/4275 (99.5%)

Streptococcus gordonii

4162/4292 (97.0%)

2.5%

Streptococcus sobrinus

Streptococcus sobrinus

4412/4424 (99.7%)

Streptococcus suis

Streptococcus suis

4420/4420 (100%)

Streptococcus tigurinus

Streptococcus oralis subsp. tigurinus

4223/4261 (99.1%)

Streptococcus oralis

4221/4261 (99.1%)

0.0%

Streptococcus uberis

Streptococcus uberis

4352/4352 (100%)

Streptococcus iniae

4197/4358 (96.3%)

3.7%

Streptococcus urinalis

Streptococcus urinalis

4291/4292 (99.9%)

Streptococcus agalactiae

4136/4305 (96.1%)

3.8%

Enterococcus casseliflavus

Enterococcus casseliflavus

4263/4266 (99.9%)

Enterococcus gallinarum

4256/4266 (99.8%)

0.1%

Enterococcus cecorum

Enterococcus cecorum

4214/4224 (99.8%)

Lactobacillus plantarum

3754/4277 (88.0%)

11.8%

Enterococcus durans

Enterococcus durans

4311/4313 (99.9%)

Enterococcus silesiacus

4083/4342 (94.0%)

5.9%

Enterococcus faecium

Enterococcus faecium

4377/4381 (99.9%)

Enterococcus hirae

4321/4387 (98.5%)

1.4%

Enterococcus faecalis

Enterococcus faecalis

4258/4262 (99.9%)

Enterococcus wangshanyuanii

4122/4270 (96.5%)

3.4%

Enterococcus hirae

Enterococcus hirae

4359/4367 (99.8%)

Enterococcus durans

4330/4368 (99.1%)

0.7%

  1. aFor species not included in a Table (Streptococcus acidominimus, Streptococcus adjacens, Streptococcus cristatus, Streptococcus difficilis, Streptococcus downei, Streptococcus equinus, Streptococcus infantis, Streptococcus ovis, Streptococcus saccharolyticus, Streptococcus sinensis, Enterococcus avium, Enterococcus porcinus, Enterococcus raffinosus), there are no reference genomes available. bSpecies for which the NGS-based approach did not allow the proper identification based on previously described criteria are indicated in bold