Polymerase Chain Reaction-Denaturing Gradient Gel Electrophoresis Analysis of Bacterial Community Structure in the Food, Intestines, and Feces of Earthworms

The bacterial communities in the food, intestines, and feces of earthworms were investigated by PCR-denaturing gradient gel electrophoresis (DGGE). In this study, PCR-DGGE was optimized by testing 6 universal primer sets for microbial 16S rRNA in 6 pure culture strains of intestinal microbes in eart...

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Published in:The journal of microbiology 2011, 49(4), , pp.544-550
Main Authors: Hong, S.W., Yonsei University, Wonju, Republic of Korea, Lee, J.S., Yonsei University, Wonju, Republic of Korea, Chung, K.S., Yonsei University, Wonju, Republic of Korea
Format: Article
Language:English
Subjects:
16S rRNA
Acinetobacter
Aeromonas popoffii
Animal Feed - microbiology
Animals
Bacteria
Bacteria - classification
Bacteria - genetics
bacterial community
Biomedical and Life Sciences
Cattle
Clostridium
Community structure
Denaturing Gradient Gel Electrophoresis
DNA
DNA, Bacterial - genetics
Ecosystem
Electrophoresis
Feces
Feces - microbiology
Food
Gel electrophoresis
Intestine
Intestines - microbiology
Life Sciences
Manures
Microbiology
Microorganisms
OLIGOCHAETA
Oligochaeta - microbiology
Phylogeny
Polymerase Chain Reaction
Primers
Pure culture
RNA, Ribosomal, 16S - genetics
rRNA 16S
Rumen
Soil microorganisms
Veillonella
Worms
생물학
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Lee, J.S., Yonsei University, Wonju, Republic of Korea
Chung, K.S., Yonsei University, Wonju, Republic of Korea
description The bacterial communities in the food, intestines, and feces of earthworms were investigated by PCR-denaturing gradient gel electrophoresis (DGGE). In this study, PCR-DGGE was optimized by testing 6 universal primer sets for microbial 16S rRNA in 6 pure culture strains of intestinal microbes in earthworms. One primer set effectively amplified 16S rRNA from bacterial populations that were found in the food, intestines, and feces of earthworms. Compared with the reference markers from the pure culture strains, the resulting DGGE profiles contained 28 unique DNA fragments. The dominant microorganisms in the food, intestines, and feces of earthworms included Rhodobacterales bacterium, Fusobacteria, Ferrimonas marina, Aeromonas popoffii, and soil bacteria. Other strains, such as Acinetobacter, Clostridium, and Veillonella, as well as rumen bacteria and uncultured bacteria also were present. These results demonstrated that PCR-DGGE analysis can be used to elucidate bacterial diversity and identify unculturable microorganisms.
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subjects 16S rRNA
Acinetobacter
Aeromonas popoffii
Animal Feed - microbiology
Animals
Bacteria
Bacteria - classification
Bacteria - genetics
bacterial community
Biomedical and Life Sciences
Cattle
Clostridium
Community structure
Denaturing Gradient Gel Electrophoresis
DNA
DNA, Bacterial - genetics
Ecosystem
Electrophoresis
Feces
Feces - microbiology
Food
Gel electrophoresis
Intestine
Intestines - microbiology
Life Sciences
Manures
Microbiology
Microorganisms
OLIGOCHAETA
Oligochaeta - microbiology
Phylogeny
Polymerase Chain Reaction
Primers
Pure culture
RNA, Ribosomal, 16S - genetics
rRNA 16S
Rumen
Soil microorganisms
Veillonella
Worms
생물학
title Polymerase Chain Reaction-Denaturing Gradient Gel Electrophoresis Analysis of Bacterial Community Structure in the Food, Intestines, and Feces of Earthworms
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