ArticleMicrobiome2021
Microbiomes attached to fresh perennial ryegrass are temporally resilient and adapt to changing ecological niches.
Article in Microbiome, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 14 papers, 2 of them syntheses that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed, 2 syntheses or guidelines pooled it, 33 citations in OpenAlex.
- STROBE-causal machine learning for the human microbiome: systematic review on methodological innovations and validation frameworks.Frontiers in microbiology · 2026Pooled it
- Beyond just correlation: causal machine learning for the microbiome, from prediction to health policy with econometric tools.Frontiers in microbiology · 2025Pooled it
- Animal gut microbes and microbiomes in the 21st century and beyond.Science China. Life sciences · 2026Review
- A mathematical framework to correct for compositionality in microbiome data sets.Applied and environmental microbiology · 2026Article
- Article
- Rumen metabolic environment of dairy cows varying in susceptibility of subacute ruminal acidosis modifies in vitro bacterial composition and fermentation.Scientific reports · 2025Article
- Analysis of the Microbiota of Milk from Holstein-Friesian Dairy Cows Fed a Microbial Supplement.Animals : an open access journal from MDPI · 2025Article
- Article
- Autoinducer-2-mediated communication network within human gut microbiota.The ISME journal · 2025Article
- A compendium of ruminant gastrointestinal phage genomes revealed a higher proportion of lytic phages than in any other environments.Microbiome · 2024Article
- - Invited Review - Chemical signalling within the rumen microbiome.Animal bioscience · 2024Article
- Integrating microbial abundance time series with fermentation dynamics of the rumen microbiome via mathematical modelling.PloS one · 2024Article
- Diet Shift May Trigger LuxS/AI-2 Quorum Sensing in Rumen Bacteria.Bioengineering (Basel, Switzerland) · 2022Article
- Correction to: Microbiomes attached to fresh perennial ryegrass are temporally resilient and adapt to changing ecological niches.Microbiome · 2021Article
Corrections and comments
- Erratum issued
Authors and funding
13 authors at 4 institutions in 3 countries.
Funding
Abstract
backgroundGut microbiomes, such as the rumen, greatly influence host nutrition due to their feed energy-harvesting capacity. We investigated temporal ecological interactions facilitating energy harvesting at the fresh perennial ryegrass (PRG)-biofilm interface in the rumen using an in sacco approach and prokaryotic metatranscriptomic profiling.
resultsNetwork analysis identified two distinct sub-microbiomes primarily representing primary (≤ 4 h) and secondary (≥ 4 h) colonisation phases and the most transcriptionally active bacterial families (i.e Fibrobacteriaceae, Selemondaceae and Methanobacteriaceae) did not interact with either sub-microbiome, indicating non-cooperative behaviour. Conversely, Prevotellaceae had most transcriptional activity within the primary sub-microbiome (focussed on protein metabolism) and Lachnospiraceae within the secondary sub-microbiome (focussed on carbohydrate degradation). Putative keystone taxa, with low transcriptional activity, were identified within both sub-microbiomes, highlighting the important synergistic role of minor bacterial families; however, we hypothesise that they may be 'cheating' in order to capitalise on the energy-harvesting capacity of other microbes. In terms of chemical cues underlying transition from primary to secondary colonisation phases, we suggest that AI-2-based quorum sensing plays a role, based on LuxS gene expression data, coupled with changes in PRG chemistry.
conclusionsIn summary, we show that fresh PRG-attached prokaryotes are resilient and adapt quickly to changing niches. This study provides the first major insight into the complex temporal ecological interactions occurring at the plant-biofilm interface within the rumen. The study also provides valuable insights into potential plant breeding strategies for development of the utopian plant, allowing optimal sustainable production of ruminants. Video Abstract.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.