The functionality of the gastrointestinal microbiome in non-human animals

Hanning, Irene; Díaz-Sánchez, Sandra

doi:10.1186/s40168-015-0113-6

Cited by 164 publications

(125 citation statements)

References 93 publications

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“…). These microorganisms in the gastrointestinal tract could process indigestible carbohydrates and provide nutrients and vitamins to their host (Aron‐Wisnewsky and Clément, ; Hanning and Diaz‐Sanchez, ). However, the well‐known health beneficial bacteria Lactobacillus and Bifidobacterium were not enhanced after YC treatments, different from the studies on the effects of prebiotic XOS dietary in chinken reported by Pourabedin et al .…”

Section: Discussionmentioning

confidence: 99%

Yeast culture dietary supplementation modulates gut microbiota, growth and biochemical parameters of grass carp

Han

Guo

et al. 2018

Microbial Biotechnology

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SummaryGut microbiota contributes positively to the physiology of their host. Some feed additives have been suggested to improve livestock health and stimulate growth performance by modulating gut bacteria species. Here, we fed grass carp with 0 (control), 8% (Treat1), 10% (Treat2), 12% (Treat3) and 16% (Treat4) of yeast culture (YC) for 10 weeks. The gut microbiota was analysed by 16S rRNA gene V3‐4 region via an Illumina MiSeq platform. PCoA test showed that gut bacterial communities in the control and Treat3 formed distinctly separate clusters. Although all the groups shared a large size of OTUs as a core microbiota community, a strong distinction existed at genus level. Treat3 contained the highest proportion of the beneficial bacteria and obviously enhanced the capacity of amino acid, lipid metabolism and digestive system. In addition, Treat3 significantly improved the fish growth and increased the liver and serum T‐SOD activities while dramatically decreased the liver GPT and GOT. Collectively, these findings demonstrate the beneficial effects of YC feeding on gut microbiota, growth and biochemical parameters and Treat3 might be the optimal supplementation amount for grass carp, which opens up the possibility that a new feed additive can be developed for healthy aquaculture.

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Section: Discussionmentioning

confidence: 99%

Yeast culture dietary supplementation modulates gut microbiota, growth and biochemical parameters of grass carp

Han

Guo

et al. 2018

Microbial Biotechnology

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“…Macro‐organisms harbour complex microbial communities living inside and on their body (Margulis, ; Theis et al, ). These microbial communities, known as the microbiomes, can determine pivotal phenotypic traits of their hosts, driving a variety of ecological and evolutionary processes including major nutritive, reproductive and immune functions (Gould et al, ; Groussin et al, ; Hanning & Diaz‐Sanchez, ; Ley et al, ; Turner, James, & Poole, ). As hosts vary in the microbiomes they harbour, an associated functionally important phenotypic variation exists within host populations (Falony et al, ; Ferrari & Vavre, ; Jaenike, ; Oliver, Russell, Moran, & Hunter, ; Scarborough, Ferrari, & Godfray, ).…”

Section: Introductionmentioning

confidence: 99%

Microbial community structure reveals instability of nutritional symbiosis during the evolutionary radiation of Amblyomma ticks

et al. 2020

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Mutualistic interactions with microbes have facilitated the adaptation of major eukaryotic lineages to restricted diet niches. Hence, ticks with their strictly blood‐feeding lifestyle are associated with intracellular bacterial symbionts through an essential B vitamin supplementation. In this study, examination of bacterial diversity in 25 tick species of the genus Amblyomma showed that three intracellular bacteria, Coxiella‐like endosymbionts (LE), Francisella‐LE and Rickettsia, are remarkably common. No other bacterium is as uniformly present in Amblyomma ticks. Almost all Amblyomma species were found to harbour a nutritive obligate symbiont, Coxiella‐LE or Francisella‐LE, that is able to synthesize B vitamins. However, despite the co‐evolved and obligate nature of these mutualistic interactions, the structure of microbiomes does not mirror the Amblyomma phylogeny, with a clear exclusion pattern between Coxiella‐LE and Francisella‐LE across tick species. Coxiella‐LE, but not Francisella‐LE, form evolutionarily stable associations with ticks, commonly leading to co‐cladogenesis. We further found evidence for symbiont replacements during the radiation of Amblyomma, with recent, and probably ongoing, invasions by Francisella‐LE and subsequent replacements of ancestral Coxiella‐LE through transient co‐infections. Nutritional symbiosis in Amblyomma ticks is thus not a stable evolutionary state, but instead arises from conflicting origins between unrelated but competing symbionts with similar metabolic capabilities.

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“…The ecological community of bacteria that composes vertebrate gut microbiomes performs a set of metabolic functions (Coyte, Schluter, & Foster, ; Douglas & Werren, ), some of which benefit their host (Foster, Schluter, Coyte, & Rakoff‐Nahoum, ; Hanning & Diaz‐Sanchez, ). Since gut microbiomes aid in digestion (Rowland et al, ) and pathogen resistance (Stough et al, ), they are an essential mediators of their host's interaction with its broader biotic community.…”

Section: Introductionmentioning

confidence: 99%

Metabolically similar cohorts of bacteria exhibit strong cooccurrence patterns with diet items and eukaryotic microbes in lizard guts

Holmes

Monagan

Rabosky

et al. 2019

Ecology and Evolution

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Gut microbiomes perform essential services for their hosts, including helping them to digest food and manage pathogens and parasites. Performing these services requires a diverse and constantly changing set of metabolic functions from the bacteria in the microbiome. The metabolic repertoire of the microbiome is ultimately dependent on the outcomes of the ecological interactions of its member microbes, as these interactions in part determine the taxonomic composition of the microbiome. The ecological processes that underpin the microbiome's ability to handle a variety of metabolic challenges might involve rapid turnover of the gut microbiome in response to new metabolic challenges, or it might entail maintaining sufficient diversity in the microbiome that any new metabolic demands can be met from an existing set of bacteria. To differentiate between these scenarios, we examine the gut bacteria and resident eukaryotes of two generalist‐insectivore lizards, while simultaneously identifying the arthropod prey each lizard was digesting at the time of sampling. We find that the cohorts of bacteria that occur significantly more or less often than expected with arthropod diet items or eukaryotes include bacterial species that are highly similar to each other metabolically. This pattern in the bacterial microbiome could represent an early step in the taxonomic shifts in bacterial microbiome that occur when host lineages change their diet niche over evolutionary timescales.

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The functionality of the gastrointestinal microbiome in non-human animals

Cited by 164 publications

References 93 publications

Yeast culture dietary supplementation modulates gut microbiota, growth and biochemical parameters of grass carp

Yeast culture dietary supplementation modulates gut microbiota, growth and biochemical parameters of grass carp

Microbial community structure reveals instability of nutritional symbiosis during the evolutionary radiation of Amblyomma ticks

Metabolically similar cohorts of bacteria exhibit strong cooccurrence patterns with diet items and eukaryotic microbes in lizard guts

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