Molecular diversity, cultivation, and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale.
Phylogenetic analysis was used to compare 16S rRNA sequences from 19 cultured human gut strains of Roseburia and Eubacterium rectale with 356 related sequences derived from clone libraries. The cultured strains were found to represent five of the six phylotypes identified. A new oligonucleotide probe, Rrec584, and the previous group probe Rint623, when used in conjunction with a new helper oligonucleotide, each recognized an average of 7% of bacteria detected by the eubacterial probe Eub338 in feces from 10 healthy volunteers. Most of the diversity within this important group of butyrate-producing gut bacteria can apparently be retrieved through cultivation.
Aminov
Rustam I
RI
Gut Health Division, Rowett Research Institute, Greenburn Road, Bucksburn, Aberdeen AB21 9SB, United Kingdom. hjf@rri.sari.ac.uk.
Walker
Alan W
AW
Duncan
Sylvia H
SH
Harmsen
Hermie J M
HJ
Welling
Gjalt W
GW
Flint
Harry J
HJ
D001421:Bacteria, Anaerobic / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D001483:Base Sequence; D015169:Colony Count, Microbial; D004064:Digestive System / Q000382:microbiology*; D005051:Eubacterium / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D005243:Feces / Q000382:microbiology; D005798:Genes, Bacterial; D014644:Genetic Variation; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D008969:Molecular Sequence Data; D015345:Oligonucleotide Probes / Q000235:genetics; D010802:Phylogeny; D012329:RNA, Bacterial / Q000235:genetics; D012336:RNA, Ribosomal, 16S / Q000235:genetics
D015345:Oligonucleotide Probes; D012329:RNA, Bacterial; D012336:RNA, Ribosomal, 16S