Characterization of the dynamics of initial bacterial colonization of nonconserved forage in the bovine rumen: Dynamics of rumen bacterial colonization of fresh forage

Edwards, Joan E.; Huws, Sharon A.; Kim, Eun Joong; Kingston-Smith, Alison H.

doi:10.1111/j.1574-6941.2007.00392.x

Cited by 103Ruminant Nutrition and Digestive PhysiologyAnaerobic Digestion and Biogas ProductionGut microbiota and health

Characterization of the dynamics of initial bacterial colonization of nonconserved forage in the bovine rumen: Dynamics of rumen bacterial colonization of fresh forage

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Edwards, Joan E., Huws, Sharon A., Kim, Eun Joong, Kingston-Smith, Alison H.·2007·FEMS Microbiology Ecology

DOI 10.1111/j.1574-6941.2007.00392.x

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Abstract

Microbial colonization is central to ruminal degradation of dietary material yet little is known about the dynamics of this process. The aim of this study was to characterize the initial stages of bacterial colonization of forage, and to assess the impact that different postsample processing and analysis methods had on the results obtained. Bacterial 16S rRNA gene-based analysis of damaged, nonconserved perennial ryegrass, incubated in sacco in the bovine rumen, required the development and validation of new quantitative PCR and denaturing gradient gel electrophoresis (DGGE) primers. Analysis with previously available primer sets was compromised due to dominant amplification of forage-derived chloroplast 16S rRNA genes. DGGE analysis of incubated samples demonstrated that a diverse and consistent population of ruminal bacteria colonized rapidly. Postsampling methodologies did not affect overall population profiles whereas the washing method appeared to influence bacterial numbers. However, regardless of processing methodology, bacterial numbers increased rapidly within 5 min, stabilizing after 15 min of incubation. These findings reveal for the first time the dynamics of bacterial colonization of forage within the rumen.

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V3 primers were non-specific to bacteria and could amplify plant chloroplastic DNA as well as archaeal 16S rDNA and protozoal 18S rDNA sequences.
“Huws et al. (2007) and Edwards et al. (2007), however showed that the V3 primers were non-specific to bacteria and could amplify plant chloroplastic DNA as well as archaeal 16S rDNA and protozoal 18S rDNA sequences.”
From Addressing global ruminant agricultural challenges through understanding the rumen microbiome: past, present, and future (2018) · cites this paper as Edwards et al., 2007
Amplification of plant chloroplast sequences is a substantial issue for samples from animals fed fresh forage, often masking microbial sequences.
“The amplification of plant chloroplast sequences is a substantial issue for samples taken from animals fed fresh forage (these are often assigned taxonomically as cyanobacteria), with an abundance of intact chloroplast DNA being present in the rumen, and often masks microbial sequences (Edwards et al., 2007).”
From Addressing global ruminant agricultural challenges through understanding the rumen microbiome: past, present, and future (2018) · cites this paper as Edwards et al., 2007
Edwards et al. (2007) developed a V6-V8 primer pair that reduces amplification of chloroplastic DNA.
“Edwards et al. (2007) also developed a primer pair based on the V6-V8 region which reduce the amplification of chloroplastic DNA.”
From Addressing global ruminant agricultural challenges through understanding the rumen microbiome: past, present, and future (2018) · cites this paper as Edwards et al., 2007
Differences among studies in DNA extraction, primers, cycling parameters, and downstream computational analysis result in conflicting data.
“Differences among studies exist with respect to DNA extraction, primers and cycling parameters, as well as downstream computational analysis, resulting in conflicting data (Yu and Morrisson, 2004a,b; Edwards et al., 2007; Huws et al., 2007; Kim et al., 2011; Ishaq and Wright, 2014; Vaidya et al., 2018).”
From Addressing global ruminant agricultural challenges through understanding the rumen microbiome: past, present, and future (2018) · cites this paper as Edwards et al., 2007

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Authors: Edwards, J. E., Huws, S. A., Kim, E. J., & Kingston-Smith, A. H.
Affiliations: Aberystwyth University (GB)
Corresponding author: Edwards, Joan E.
ORCID: Edwards, Joan E.
Huws, Sharon A.
Kim, Eun Joong
Venue: FEMS Microbiology Ecology
Publisher: Oxford University Press (OUP)
Published: 2007-12
Volume: 62
Issue: 3
Pages: 323-335
ISSN: 0168-6496 (ISSN-L)
1574-6941
DOI: 10.1111/j.1574-6941.2007.00392.x
OpenAlex: W2169502967
Cited by: 103
References: 56
Citations by year: 2026: 4 · 2025: 2 · 2024: 3 · 2023: 4 · 2022: 4 · 2021: 6 · 2020: 3 · 2019: 4 · 2018: 4 · 2017: 9 · 2016: 8 · 2015: 9 · 2014: 7 · 2013: 9 · 2012: 8
FWCI: 8.21
Type: journal article
Language: en
Open access: bronze
doi.org
Locations: FEMS Microbiology Ecology (publishedVersion)
PubMed (publishedVersion)
Research Portal (Queen's University Belfast) (submittedVersion)
Funders: Directorate for Biological Sciences
Biotechnology and Biological Sciences Research Council (BBS/E/G/00003008)
Topics: Life Sciences › Agricultural and Biological Sciences › Agronomy and Crop Science › Ruminant Nutrition and Digestive Physiology
Physical Sciences › Engineering › Building and Construction › Anaerobic Digestion and Biogas Production
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Keywords: forage degradation, perennial ryegrass, rumen bacteria, 16S rRNA gene, bacterial population dynamics, cattle
MeSH terms: Animals, Bacteria, Cattle, DNA, Bacterial, DNA, Ribosomal, Electrophoresis, Polyacrylamide Gel, Lolium, Molecular Sequence Data, RNA, Ribosomal, 16S, Rumen, Polymerase Chain Reaction, DNA Primers, Plastids, Genes, rRNA

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Characterization of the dynamics of initial bacterial colonization of nonconserved forage in the bovine rumen: Dynamics of rumen bacterial colonization of fresh forage

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