publication . Article . Other literature type . 2018

Comparison of Rumen and Manure Microbiomes and Implications for the Inoculation of Anaerobic Digesters

Ozbayram, Emine; Ince, Orhan; Ince, Bahar; Harms, Hauke; Kleinsteuber, Sabine;
Open Access
  • Published: 01 Feb 2018 Journal: Microorganisms, volume 6, page 15 (eissn: 2076-2607, Copyright policy)
  • Publisher: MDPI AG
Abstract
Cattle manure is frequently used as an inoculum for the start-up of agricultural biogas plants or as a co-substrate in the anaerobic digestion of lignocellulosic feedstock. Ruminal microbiota are considered to be effective plant fiber degraders, but the microbes contained in manure do not necessarily reflect the rumen microbiome. The aim of this study was to compare the microbial community composition of cow rumen and manure with respect to plant fiber-digesting microbes. Bacterial and methanogenic communities of rumen and manure samples were examined by 454 amplicon sequencing of bacterial 16S rRNA genes and mcrA genes, respectively. Rumen fluid samples were do...
Subjects
Medical Subject Headings: animal structuresfood and beverages
free text keywords: Food science, Bacteroidaceae, biology.organism_classification, biology, Bioaugmentation, Microbial population biology, Rumen, Anaerobic digestion, Prevotellaceae, Manure, Biogas, Communication, ruminant microbiome, plant fiber fermentation, hydrolytic bacteria, methanogenic archaea, mcrA gene, 16S rRNA gene, 454 amplicon sequencing, Biology (General), QH301-705.5
46 references, page 1 of 4

Thornton, P.K.. Livestock production: Recent trends, future prospects. Philos. Trans. R. Soc. Lond. Ser. B Biol. Sci.. 2010; 365: 2853-2867 [OpenAIRE] [PubMed] [DOI]

Denman, S.E., McSweeney, C.S.. Development of a real-time PCR assay for monitoring anaerobic fungal and cellulolytic bacterial populations within the rumen. FEMS Microbiol. Ecol.. 2006; 58: 572-582 [OpenAIRE] [PubMed] [DOI]

Zened, A., Combes, S., Cauquil, L., Mariette, J., Klopp, C., Bouchez, O., Troegeler-Meynadier, A., Enjalbert, F.. Microbial ecology of the rumen evaluated by 454 GS FLX pyrosequencing is affected by starch and oil supplementation of diets. FEMS Microbiol. Ecol.. 2013; 83: 504-514 [OpenAIRE] [PubMed] [DOI]

Henderson, G., Cox, F., Ganesh, S., Jonker, A., Young, W., Janssen, P.H.. Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range. Sci. Rep.. 2015; 5: 14567 [OpenAIRE] [PubMed] [DOI]

Khiaosa-Ard, R., Zebeli, Q.. Cattle’s variation in rumen ecology and metabolism and its contributions to feed efficiency. Livest. Sci.. 2014; 162: 66-75 [OpenAIRE] [DOI]

Bayané, A., Guiot, S.R.. Animal digestive strategies versus anaerobic digestion bioprocesses for biogas production from lignocellulosic biomass. Rev. Environ. Sci. Biotechnol.. 2011; 10: 43-62 [OpenAIRE] [DOI]

Hu, Z.H., Yu, H.Q.. Application of rumen microorganisms for enhanced anaerobic fermentation of corn stover. Process Biochem.. 2005; 40: 2371-2377 [OpenAIRE] [DOI]

Alrawi, R.A., Ahmad, A., Ismail, N., Kadir, M.O.A.. Anaerobic co-digestion of palm oil mill effluent with rumen fluid as a co-substrate. Desalination. 2011; 269: 50-57 [OpenAIRE] [DOI]

Jin, W., Cheng, Y.F., Mao, S.Y., Zhu, W.Y.. Discovery of a novel rumen methanogen in the anaerobic fungal culture and its distribution in the rumen as revealed by real-time PCR. BMC Microbiol.. 2014; 14 [OpenAIRE] [PubMed] [DOI]

Angelidaki, I., Ellegaard, L.. Codigestion of manure and organic wastes in centralized biogas plants: Status and future trends. Appl. Biochem. Biotechnol.. 2003; 109: 95-105 [OpenAIRE] [PubMed] [DOI]

Janke, L., Leite, A.F., Nikolausz, M., Radetski, C.M., Nelles, M., Stinner, W.. Comparison of start-up strategies and process performance during semi-continuous anaerobic digestion of sugarcane filter cake co-digested with bagasse. Waste Manag.. 2016; 48: 199-208 [OpenAIRE] [PubMed] [DOI]

Goberna, M., Gadermaier, M., Franke-Whittle, I.H., García, C., Wett, B., Insam, H.. Start-up strategies in manure-fed biogas reactors: Process parameters and methanogenic communities. Biomass Bioenergy. 2015; 75: 46-56 [OpenAIRE] [DOI]

Kong, Y., Teather, R., Forster, R.. Composition, spatial distribution, and diversity of the bacterial communities in the rumen of cows fed different forages. FEMS Microbiol. Ecol.. 2010; 74: 612-622 [OpenAIRE] [PubMed] [DOI]

Kittelmann, S., Janssen, P.H.. Characterization of rumen ciliate community composition in domestic sheep, deer, and cattle, feeding on varying diets, by means of PCR-DGGE and clone libraries. FEMS Microbiol. Ecol.. 2011; 75: 468-481 [OpenAIRE] [PubMed] [DOI]

Kim, M., Morrison, M., Yu, Z.. Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol. Ecol.. 2011; 76: 49-63 [OpenAIRE] [PubMed] [DOI]

46 references, page 1 of 4
Abstract
Cattle manure is frequently used as an inoculum for the start-up of agricultural biogas plants or as a co-substrate in the anaerobic digestion of lignocellulosic feedstock. Ruminal microbiota are considered to be effective plant fiber degraders, but the microbes contained in manure do not necessarily reflect the rumen microbiome. The aim of this study was to compare the microbial community composition of cow rumen and manure with respect to plant fiber-digesting microbes. Bacterial and methanogenic communities of rumen and manure samples were examined by 454 amplicon sequencing of bacterial 16S rRNA genes and mcrA genes, respectively. Rumen fluid samples were do...
Subjects
Medical Subject Headings: animal structuresfood and beverages
free text keywords: Food science, Bacteroidaceae, biology.organism_classification, biology, Bioaugmentation, Microbial population biology, Rumen, Anaerobic digestion, Prevotellaceae, Manure, Biogas, Communication, ruminant microbiome, plant fiber fermentation, hydrolytic bacteria, methanogenic archaea, mcrA gene, 16S rRNA gene, 454 amplicon sequencing, Biology (General), QH301-705.5
46 references, page 1 of 4

Thornton, P.K.. Livestock production: Recent trends, future prospects. Philos. Trans. R. Soc. Lond. Ser. B Biol. Sci.. 2010; 365: 2853-2867 [OpenAIRE] [PubMed] [DOI]

Denman, S.E., McSweeney, C.S.. Development of a real-time PCR assay for monitoring anaerobic fungal and cellulolytic bacterial populations within the rumen. FEMS Microbiol. Ecol.. 2006; 58: 572-582 [OpenAIRE] [PubMed] [DOI]

Zened, A., Combes, S., Cauquil, L., Mariette, J., Klopp, C., Bouchez, O., Troegeler-Meynadier, A., Enjalbert, F.. Microbial ecology of the rumen evaluated by 454 GS FLX pyrosequencing is affected by starch and oil supplementation of diets. FEMS Microbiol. Ecol.. 2013; 83: 504-514 [OpenAIRE] [PubMed] [DOI]

Henderson, G., Cox, F., Ganesh, S., Jonker, A., Young, W., Janssen, P.H.. Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range. Sci. Rep.. 2015; 5: 14567 [OpenAIRE] [PubMed] [DOI]

Khiaosa-Ard, R., Zebeli, Q.. Cattle’s variation in rumen ecology and metabolism and its contributions to feed efficiency. Livest. Sci.. 2014; 162: 66-75 [OpenAIRE] [DOI]

Bayané, A., Guiot, S.R.. Animal digestive strategies versus anaerobic digestion bioprocesses for biogas production from lignocellulosic biomass. Rev. Environ. Sci. Biotechnol.. 2011; 10: 43-62 [OpenAIRE] [DOI]

Hu, Z.H., Yu, H.Q.. Application of rumen microorganisms for enhanced anaerobic fermentation of corn stover. Process Biochem.. 2005; 40: 2371-2377 [OpenAIRE] [DOI]

Alrawi, R.A., Ahmad, A., Ismail, N., Kadir, M.O.A.. Anaerobic co-digestion of palm oil mill effluent with rumen fluid as a co-substrate. Desalination. 2011; 269: 50-57 [OpenAIRE] [DOI]

Jin, W., Cheng, Y.F., Mao, S.Y., Zhu, W.Y.. Discovery of a novel rumen methanogen in the anaerobic fungal culture and its distribution in the rumen as revealed by real-time PCR. BMC Microbiol.. 2014; 14 [OpenAIRE] [PubMed] [DOI]

Angelidaki, I., Ellegaard, L.. Codigestion of manure and organic wastes in centralized biogas plants: Status and future trends. Appl. Biochem. Biotechnol.. 2003; 109: 95-105 [OpenAIRE] [PubMed] [DOI]

Janke, L., Leite, A.F., Nikolausz, M., Radetski, C.M., Nelles, M., Stinner, W.. Comparison of start-up strategies and process performance during semi-continuous anaerobic digestion of sugarcane filter cake co-digested with bagasse. Waste Manag.. 2016; 48: 199-208 [OpenAIRE] [PubMed] [DOI]

Goberna, M., Gadermaier, M., Franke-Whittle, I.H., García, C., Wett, B., Insam, H.. Start-up strategies in manure-fed biogas reactors: Process parameters and methanogenic communities. Biomass Bioenergy. 2015; 75: 46-56 [OpenAIRE] [DOI]

Kong, Y., Teather, R., Forster, R.. Composition, spatial distribution, and diversity of the bacterial communities in the rumen of cows fed different forages. FEMS Microbiol. Ecol.. 2010; 74: 612-622 [OpenAIRE] [PubMed] [DOI]

Kittelmann, S., Janssen, P.H.. Characterization of rumen ciliate community composition in domestic sheep, deer, and cattle, feeding on varying diets, by means of PCR-DGGE and clone libraries. FEMS Microbiol. Ecol.. 2011; 75: 468-481 [OpenAIRE] [PubMed] [DOI]

Kim, M., Morrison, M., Yu, Z.. Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol. Ecol.. 2011; 76: 49-63 [OpenAIRE] [PubMed] [DOI]

46 references, page 1 of 4
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