TABLE 1.

Specificity tests with the group-specific primers

SpeciesStrainReactions with the following group-specific primersb:
g-Bfracg-Prevodg-Bifideg-Ccocf
Bacteroides fragilisNCTC 9343T+
Bacteroides ovatusJCM 5824T+
Bacteroides thetaiotaomicronJCM 5827T+
Bacteroides uniformisJCM 5828T+
Bacteroides vulgatusATCC 8482T+
Bacteroides distasonisJCM 5825T
Bacteroides putredenisATCC 29800T
Prevotella buccaeDSM 20615+
Prevotella intermediaJCM 7365T+
Prevotella melaninogenicaJCM 6321+
Prevotella oralisJCM 6330+
Bifidobacterium adolescentisATCC 15703T+
Bifidobacterium angulatumATCC 27535T+
Bifidobacterium bifidumATCC 29521T+
Bifidobacterium breveATCC 15700T+
Bifidobacterium catenulatumATCC 27539T+
Bifidobacterium pseudocatenulatumJCM 1200T+
Bifidobacterium longumATCC 15707T+
Bifidobacterium infantisATCC 15697T+
Clostridium clostridioformeaJCM 1291T+
Clostridium coccoidesaJCM 1395T+
Clostridium nexileaDSM 1787T+
Clostridium oroticumaJCM 1429T+
Clostridium sphenoidesaJCM 1415T+
Ruminococcus gnavusaATCC 29149T+
Ruminococcus lactarisaATCC 29176T+
Ruminococcus productusaATCC 27340T+
Clostridium baratiiJCM 1385T
Clostridium celatumJCM 1394T
Clostridium perfringensJCM 1290T
Clostridium sporogenesJCM 1416T
Clostridium limosumJCM 1427T
Clostridium bifermentansJCM 1386T
Clostridium glycolicumJCM 1401T
Clostridium sordelliiJCM 3814T
Fusobacterium variumATCC 8501T
Fusobacterium gonidiaformansATCC 25563T
Fusobacterium prausnitziiATCC 27766T
Escherichia coliATCC 11775T
Enterococcus faecalisATCC 19433T
Enterococcus faeciumATCC 19434T
Porphyromonas asaccharolyticaATCC 25260T
Porphyromonas gingivalisJCM 8525
Collinsella aerofaciensATCC 25986T
Eubacterium biformeATCC 27806T
Propionibacterium acnesATCC 6919T
Lactobacillus acidophilusATCC 4356T
Peptostreptococcus prevotiiATCC 9321T
  • a These species belong to the C. coccoides group.

  • b +, positive; −, negative.

  • c In addition, positive PCR results were obtained for Bacteroides heparinolytica ATCC 35895T, Bacteroides caccae ATCC 43185T, and Bacteroides stercoris ATCC 43183T.

  • d In addition, positive PCR results were obtained for Prevotella buccalis DSM 20616T, Prevotella corporis JCM 8529T, Prevotella denticola JCM 8528T, Prevotella loescheii JCM 8530T, Prevotella oris JCM 8540T, Prevotella ruminicola JCM 8958T, and Prevotella veroralis JCM 6290T.

  • e In addition, positive PCR results were obtained for Bifidobacterium angulatum ATCC 27535T, Bifidobacterium animalis ATCC 25527T, Bifidobacterium asteroides ATCC 25910T, Bifidobacterium boum JCM 1211T, Bifidobacterium choerinun ATCC 27686T, Bifidobacterium coryneforme ATCC 25911T, Bifidobacterium cunniculi ATCC 27916T, Bifidobacterium dentium ATCC 27534T, Bifidobacterium denticolens DSM 10105T, Bifidobacterium gallinarum JCM 6291T, Bifidobacterium indicum ATCC 25912T, Bifidobacterium inopinatum DSM 10107T, Bifidobacterium lactis DSM 10140T, Bifidobacterium magnum JCM 1218T, Bifidobacterium merycicum JCM 8219T, Bifidobacterium minimum ATCC 27538T, Bifidobacterium pseudolongum subsp. globosum ATCC 25864T, Bifidobacterium pseudolongum subsp. pseudolongum JCM 1205T, Bifidobacterium pullorum JCM 1214T, Bifidobacterium ruminantium JCM 8222T, Bifidobacterium saeculare DSM 6531T, Bifidobacterium subtile DSM 20096T, Bifidobacterium thermophilum ATCC 25866T, and Gardnerella vaginalis DSM 4944T.

  • f In addition, positive PCR results were obtained for Clostridium aminovalericum DSM 1283T, Clostridium symbiosum JCM 1297T, Ruminococcus hansenii ATCC 27752T, Ruminococcus hydrogenotrophicus DSM 10507T, Ruminococcus schinkii DSM 10518T, and Ruminococcus torques ATCC 27756T.