Fibre digestion by rumen microbiota — a review of recent metagenomic and metatranscriptomic studies

Terry, Stephanie A.; Badhan, Ajay; Wang, Yuxi; Chaves, A. V.; McAllister, Tim A.

doi:10.1139/cjas-2019-0024

Cited by 62 publications

(43 citation statements)

References 63 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Our analysis of the microbial community of the reindeer rumen of the Nenets Autonomous Okrug practically did not reveal any bacteria of the Fibrobacter genus. In general, this is consistent with the data obtained as a result of the analysis of rumen microbiomes of animals belonging to Cervidae family (reindeer and elk), in which the Fibrobacteres phylum bacteria did not occupy a dominant position compared to cattle, in which this phylum often became dominant [21].…”

Section: Resultssupporting

confidence: 91%

See 1 more Smart Citation

Analysis of Diversity of Reindeer Rumen Bacteria Involved in the Cellulose Decomposition

Ильина¹,

Филиппова²,

Yildirim³

et al. 2020

Proceedings of the International Scientific Conference the Fifth Technological Order: Prospects for the Development and Moderni

View full text Add to dashboard Cite

Bacteria involved in the cellulose decomposition are dominant in the community of microorganisms of the rumen of various ruminants, including reindeer. Reindeer (Rangifer tarandus) is a unique ruminant adapted to live in adverse conditions of meager diet of the Far North. As a result of the study, it was shown that the proportion of bacteria phyla of Firmicutes and Bacteroidetes, which includes the overwhelming majority of cellulolytic bacteria, comprised from 84.3% to 86.9% of the rumen bacterial community: not more than 4% of Proteobacteria; Cyanobacteria, Spirochaetes, Verrucomicrobia and Actinobacterianot more than 5.6%, the restin a minor amount. Phylum Bacteroidetes was dominant among representatives of other phyla; their share ranged from 45.6% to 52.1%. The largest proportion of cellulolytic bacteria was detected in young deers at the age of 0.5 years (52.5%). Animals showed a tendency to decrease in the share of these bacteria with age. The smallest relative abundance of cellulolytic bacteria was detected in animals at the age of 9 years (44.7%). Bacteria of the genus Prevotella dominated among cellulolytic rumen bacteria. Bacteroides sp., Ruminococcus sp., Blautia sp., Clostridium sp., Butyrivibrio sp. and Paraprevotella sp. ranked next in relative abundance among rumen bacteria. Their share averaged from 3% to 6%. Our analysis showed the presence of two clusters uniting the microbial communities of the reindeer rumen into groups by the age characteristics. The first cluster included individuals under the age of 5 years, and the second group was older than 6 years. This is consistent with the data of biodiversity indices, which showed that bacterial diversity in the reindeer rumen increases with the age.

show abstract

Section: Resultssupporting

confidence: 91%

“…Wu et al [20] described a crustal rumen microbiome that included 8 phyla (Bacteroidetes, Firmicutes, Proteobacteria, Spirochaetes, Fibrobacteres, Verrucomicrobia, Synergistetes, and Actinobacteria). However, the vast majority of the microbiome (up to 90%) is occupied by representatives of phyla of Bacteroidetes and Firmicutes [21].…”

Section: Resultsmentioning

confidence: 99%

Analysis of Diversity of Reindeer Rumen Bacteria Involved in the Cellulose Decomposition

Ильина¹,

Филиппова²,

Yildirim³

et al. 2020

Proceedings of the International Scientific Conference the Fifth Technological Order: Prospects for the Development and Moderni

View full text Add to dashboard Cite

show abstract

“…As expected, due to the higher abundance of Firmicutes in the soil termite cluster, the average transcript abundance of cohesin/dockerin and SLH annotated genes was much higher in soil feeders than in plant fibre feeders. It would indicate the active presence of cellulosomes in the former group [51]. Gene transcript taxonomic assignment indicated that enzymes involved in carbohydrate metabolism originated mainly from Firmicutes, Spirochaetes, Fibrobacteres and Bacteroidetes (Additional file 1: Figure S10).…”

Section: Landscape Of Prokaryotic Cazymes In Guts Of Plant Fibreand Smentioning

confidence: 99%

Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites

et al. 2020

View full text Add to dashboard Cite

Background: Termites are among the most successful insect lineages on the globe and are responsible for providing numerous ecosystem services. They mainly feed on wood and other plant material at different stages of humification. Lignocellulose is often a principal component of such plant diet, and termites largely rely on their symbiotic microbiota and associated enzymes to decompose their food efficiently. While lower termites and their gut flagellates were given larger scientific attention in the past, the gut lignocellulolytic bacteria of higher termites remain less explored. Therefore, in this study, we investigated the structure and function of gut prokaryotic microbiomes from 11 higher termite genera representative of Syntermitinae, Apicotermitinae, Termitidae and Nasutitermitinae subfamilies, broadly grouped into plant fibre-and soil-feeding termite categories. Results: Despite the different compositional structures of the studied termite gut microbiomes, reflecting well the diet and host lineage, we observed a surprisingly high functional congruency between gut metatranscriptomes from both feeding groups. The abundance of transcripts encoding for carbohydrate active enzymes as well as expression and diversity profiles of assigned glycoside hydrolase families were also similar between plant fibre-and soil-feeding termites. Yet, dietary imprints highlighted subtle metabolic differences specific to each feeding category. Roughly, 0.18% of de novo reconstructed gene transcripts were shared between the different termite gut microbiomes, making each termite gut a unique reservoir of genes encoding for potentially industrially applicable enzymes, e.g. relevant to biomass degradation. Taken together, we demonstrated the functional equivalence in microbial populations across different termite hosts. Conclusions: Our results provide valuable insight into the bacterial component of the termite gut system and significantly expand the inventory of termite prokaryotic genes participating in the deconstruction of plant biomass.

show abstract

“…As expected, due to the higher abundance of Firmicutes in the soil termite cluster, the average transcript abundance of cohesin/dockerin and SLH annotated genes was much higher in soil feeders than in plant bre feeders. It would indicate the active presence of cellulosomes in the former group [51]. Gene transcripts taxonomic assignment indicated that enzymes involved in carbohydrate metabolism originated mainly from Firmicutes, Spirochaetes, Fibrobacteres and Bacteroidetes (Additional le 1: Figure S10).…”

Section: Landscape Of Prokaryotic Cazymes In Guts Of Plant Breand Soimentioning

confidence: 99%

Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites

Marynowska

Goux

Sillam‐Dussès

et al. 2020

Preprint

View full text Add to dashboard Cite

Background: Termites are among the most successful insect lineages on the globe and are responsible for providing numerous ecosystem services. They mainly feed on wood and other plant material at different stages of humification. Lignocellulose is often a principal component of such plant diet and termites largely rely on their symbiotic microbiota and associated enzymes to decompose their food efficiently. While lower termites and their gut flagellates were given larger scientific attention in the past, the gut lignocellulolytic bacteria of higher termites remain less explored. Therefore, in this study, we investigated the structure and function of gut prokaryotic microbiomes from 11 higher termite genera representative of Syntermitinae, Apicotermitinae, Termitidae and Nasutitermitinae subfamilies, broadly grouped into plant fibre- and soil-feeding termite categories. Results: Despite the different compositional structures of the studied termite gut microbiomes, reflecting well the diet and host lineage, we observed a surprisingly high functional congruency between gut metatranscriptomes from both feeding groups. The abundance of transcripts encoding for carbohydrate active enzymes as well as expression and diversity profiles of assigned glycoside hydrolase families were also similar between plant fibre- and soil-feeding termites. Yet, dietary imprints highlighted subtle metabolic differences specific to each feeding category. Roughly 0.18 % of de novo re-constructed gene transcripts were shared between the different termite gut microbiomes, making each termite gut a unique reservoir of genes encoding for potentially industrially applicable enzymes, e.g. relevant to biomass degradation. Taken together, we demonstrated the functional equivalence in microbial populations across different termite hosts.Conclusions: Our results provide valuable insight into the bacterial component of the termite gut system and significantly expand the inventory of termite prokaryotic genes participating in the deconstruction of plant biomass.

show abstract

Fibre digestion by rumen microbiota — a review of recent metagenomic and metatranscriptomic studies

Cited by 62 publications

References 63 publications

Analysis of Diversity of Reindeer Rumen Bacteria Involved in the Cellulose Decomposition

Analysis of Diversity of Reindeer Rumen Bacteria Involved in the Cellulose Decomposition

Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites

Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites

Contact Info

Product

Resources

About