PCR DGGE and RT-PCR DGGE show diversity and short-term temporal stability in the Clostridium coccoides–Eubacterium rectale group in the human intestinal microbiota

Johanna Maukonen (Corresponding Author), Jaana Mättö, Reetta Satokari, Hans Söderlund, Tiina Mattila-Sandholm, Maria Saarela

Research output: Contribution to journalArticleScientificpeer-review

50 Citations (Scopus)

Abstract

As the Clostridium coccoides–Eubacterium rectale (Erec; clostridial phylogenetic cluster XIVa) group is one of the major groups of the human intestinal microbiota, DNA- and RNA-based population analysis techniques (denaturing gradient gel electrophoresis; DGGE) were developed and applied to assess the diversity and temporal stability (6 months–2 years) of this faecal clostridial microbiota in 12 healthy adults. The stability of the Erec group was compared with the stability of the predominant bacterial microbiota, which was also assessed with PCR-DGGE. In addition, the Erec group was quantified with a hybridization-based method. According to our results, the Erec group was diverse in each subject, but interindividual uniqueness was not as clear as that of the predominant bacteria. The Erec group was found to be temporally as stable as the predominant bacteria. Over 200 clones obtained from two samples proved the developed method to be specific. However, the amount of bacteria belonging to the Erec group was not related to the diversity of that same bacterial group. In conclusion, the newly developed DGGE method proved to be a valuable and specific tool for the direct assessment of the stability of the Erec group, demonstrating diversity in addition to short-term stability in most of the subjects studied.
Original languageEnglish
Pages (from-to)517-528
Number of pages12
JournalFEMS Microbiology Ecology
Volume58
Issue number3
DOIs
Publication statusPublished - 2006
MoE publication typeA1 Journal article-refereed

Fingerprint

Clostridium
Microbiota
Bacteria
Polymerase Chain Reaction
bacterium
Denaturing Gradient Gel Electrophoresis
RNA
clone
electrokinesis
gel
Clone Cells
phylogenetics
DNA
Population
Gastrointestinal Microbiome
method

Keywords

  • clostridia
  • Erec
  • PCR-DGGE
  • RT-PCR-DGGE
  • faeces

Cite this

Maukonen, Johanna ; Mättö, Jaana ; Satokari, Reetta ; Söderlund, Hans ; Mattila-Sandholm, Tiina ; Saarela, Maria. / PCR DGGE and RT-PCR DGGE show diversity and short-term temporal stability in the Clostridium coccoides–Eubacterium rectale group in the human intestinal microbiota. In: FEMS Microbiology Ecology. 2006 ; Vol. 58, No. 3. pp. 517-528.
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abstract = "As the Clostridium coccoides–Eubacterium rectale (Erec; clostridial phylogenetic cluster XIVa) group is one of the major groups of the human intestinal microbiota, DNA- and RNA-based population analysis techniques (denaturing gradient gel electrophoresis; DGGE) were developed and applied to assess the diversity and temporal stability (6 months–2 years) of this faecal clostridial microbiota in 12 healthy adults. The stability of the Erec group was compared with the stability of the predominant bacterial microbiota, which was also assessed with PCR-DGGE. In addition, the Erec group was quantified with a hybridization-based method. According to our results, the Erec group was diverse in each subject, but interindividual uniqueness was not as clear as that of the predominant bacteria. The Erec group was found to be temporally as stable as the predominant bacteria. Over 200 clones obtained from two samples proved the developed method to be specific. However, the amount of bacteria belonging to the Erec group was not related to the diversity of that same bacterial group. In conclusion, the newly developed DGGE method proved to be a valuable and specific tool for the direct assessment of the stability of the Erec group, demonstrating diversity in addition to short-term stability in most of the subjects studied.",
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PCR DGGE and RT-PCR DGGE show diversity and short-term temporal stability in the Clostridium coccoides–Eubacterium rectale group in the human intestinal microbiota. / Maukonen, Johanna (Corresponding Author); Mättö, Jaana; Satokari, Reetta; Söderlund, Hans; Mattila-Sandholm, Tiina; Saarela, Maria.

In: FEMS Microbiology Ecology, Vol. 58, No. 3, 2006, p. 517-528.

Research output: Contribution to journalArticleScientificpeer-review

TY - JOUR

T1 - PCR DGGE and RT-PCR DGGE show diversity and short-term temporal stability in the Clostridium coccoides–Eubacterium rectale group in the human intestinal microbiota

AU - Maukonen, Johanna

AU - Mättö, Jaana

AU - Satokari, Reetta

AU - Söderlund, Hans

AU - Mattila-Sandholm, Tiina

AU - Saarela, Maria

PY - 2006

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N2 - As the Clostridium coccoides–Eubacterium rectale (Erec; clostridial phylogenetic cluster XIVa) group is one of the major groups of the human intestinal microbiota, DNA- and RNA-based population analysis techniques (denaturing gradient gel electrophoresis; DGGE) were developed and applied to assess the diversity and temporal stability (6 months–2 years) of this faecal clostridial microbiota in 12 healthy adults. The stability of the Erec group was compared with the stability of the predominant bacterial microbiota, which was also assessed with PCR-DGGE. In addition, the Erec group was quantified with a hybridization-based method. According to our results, the Erec group was diverse in each subject, but interindividual uniqueness was not as clear as that of the predominant bacteria. The Erec group was found to be temporally as stable as the predominant bacteria. Over 200 clones obtained from two samples proved the developed method to be specific. However, the amount of bacteria belonging to the Erec group was not related to the diversity of that same bacterial group. In conclusion, the newly developed DGGE method proved to be a valuable and specific tool for the direct assessment of the stability of the Erec group, demonstrating diversity in addition to short-term stability in most of the subjects studied.

AB - As the Clostridium coccoides–Eubacterium rectale (Erec; clostridial phylogenetic cluster XIVa) group is one of the major groups of the human intestinal microbiota, DNA- and RNA-based population analysis techniques (denaturing gradient gel electrophoresis; DGGE) were developed and applied to assess the diversity and temporal stability (6 months–2 years) of this faecal clostridial microbiota in 12 healthy adults. The stability of the Erec group was compared with the stability of the predominant bacterial microbiota, which was also assessed with PCR-DGGE. In addition, the Erec group was quantified with a hybridization-based method. According to our results, the Erec group was diverse in each subject, but interindividual uniqueness was not as clear as that of the predominant bacteria. The Erec group was found to be temporally as stable as the predominant bacteria. Over 200 clones obtained from two samples proved the developed method to be specific. However, the amount of bacteria belonging to the Erec group was not related to the diversity of that same bacterial group. In conclusion, the newly developed DGGE method proved to be a valuable and specific tool for the direct assessment of the stability of the Erec group, demonstrating diversity in addition to short-term stability in most of the subjects studied.

KW - clostridia

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KW - faeces

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DO - 10.1111/j.1574-6941.2006.00179.x

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