PMID- 17897237
OWN - NLM
STAT- MEDLINE
DCOM- 20080414
LR  - 20070927
IS  - 1364-5072 (Print)
IS  - 1364-5072 (Linking)
VI  - 103
IP  - 4
DP  - 2007 Oct
TI  - A survey of the relative abundance of specific groups of cellulose degrading 
      bacteria in anaerobic environments using fluorescence in situ hybridization.
PG  - 1332-43
AB  - AIMS: The utility of fluorescence in situ hybridization (FISH) for detecting 
      uncultured micro-organisms in environmental samples has been shown in numerous 
      habitats. In this study a suite of three FISH probes for cellulolytic bacteria is 
      described and their efficacy is demonstrated by quantifying the relative 
      abundance of the target micro-organisms in a range of industrial biomass samples. 
      METHODS AND RESULTS: The probes were designed from data derived from an 
      artificial landfill leachate reactor study and 16S rRNA gene databases. The 
      original biomass sample proved to be well described by the three probes targeting 
      a total of 51% of the bacterial (EUBMIX targeted) cells in quantitative FISH 
      experiments. CONCLUSIONS: Three probes were developed and applied to samples from 
      a range of industrial digesters. The CSTG1244 probe, specific for organisms 
      closely related to Clostridium stercorarium, were observed in the widest range of 
      samples (7 of the 19 samples tested). The CTH216a FISH probe, specific for 
      organisms closely related to Clostridium thermocellum, described the highest 
      proportion of the bacterial population within any one sample (46% in an 
      anaerobically digested sludge sample). Finally, the BCE216a probe, specific for 
      organisms closely related to Bacteroides cellulosolvens, achieved the lowest 
      level of hybridisation of the three probes tested. SIGNIFICANCE AND IMPACT OF THE 
      STUDY: This study demonstrates that the three groups of anaerobic cellulolytic 
      micro-organisms were present in different bioreactors but at variable abundances 
      ranging from low (where other organisms would have been responsible for 
      cellulolysis) to high. We showed the potential of using group specific FISH 
      probes and quantitative FISH in environmental studies. The utility of using newly 
      designed FISH probes was demonstrated by their ability to detect and quantify the 
      target bacterial groups in samples from a range of industrial wastewater 
      digesters.
FAU - O'Sullivan, C
AU  - O'Sullivan C
AD  - Division of Environmental Engineering, The University of Queensland, Queensland, 
      Australia.
FAU - Burrell, P C
AU  - Burrell PC
FAU - Clarke, W P
AU  - Clarke WP
FAU - Blackall, L L
AU  - Blackall LL
LA  - eng
PT  - Journal Article
PT  - Review
PL  - England
TA  - J Appl Microbiol
JT  - Journal of applied microbiology
JID - 9706280
RN  - 0 (Oligonucleotide Probes)
RN  - 0 (RNA, Bacterial)
RN  - 0 (RNA, Ribosomal, 16S)
RN  - 9004-34-6 (Cellulose)
SB  - IM
MH  - Anaerobiosis/physiology
MH  - Bacteria, Anaerobic/classification/genetics/isolation & purification/*physiology
MH  - Bacterial Typing Techniques/methods
MH  - Bioreactors
MH  - Cellulose/*metabolism
MH  - Image Processing, Computer-Assisted
MH  - In Situ Hybridization, Fluorescence/methods
MH  - *Industrial Microbiology
MH  - Oligonucleotide Probes
MH  - Phylogeny
MH  - RNA, Bacterial/genetics
MH  - RNA, Ribosomal, 16S/genetics
RF  - 33
EDAT- 2007/09/28 09:00
MHDA- 2008/04/15 09:00
CRDT- 2007/09/28 09:00
PHST- 2007/09/28 09:00 [pubmed]
PHST- 2008/04/15 09:00 [medline]
PHST- 2007/09/28 09:00 [entrez]
AID - JAM3362 [pii]
AID - 10.1111/j.1365-2672.2007.03362.x [doi]
PST - ppublish
SO  - J Appl Microbiol. 2007 Oct;103(4):1332-43. doi: 10.1111/j.1365-2672.2007.03362.x.