Experimental temperatures shape host microbiome diversity and composition

Global climate change has led to more extreme thermal events. Plants and animals harbour diverse microbial communities, which may be vital for their physiological performance and help them survive stressful climatic conditions. The extent to which microbiome communities change in response to warming or cooling may be important for predicting host performance under global change. Using a meta‐analysis of 1377 microbiomes from 43 terrestrial and aquatic species, we found a decrease in the amplicon sequence variant‐level microbiome phylogenetic diversity and alteration of microbiome composition under both experimental warming and cooling. Microbiome beta dispersion was not affected by temperature changes. We showed that the host habitat and experimental factors affected microbiome diversity and composition more than host biological traits. In particular, aquatic organisms—especially in marine habitats—experienced a greater depletion in microbiome diversity under cold conditions, compared to terrestrial hosts. Exposure involving a sudden long and static temperature shift was associated with microbiome diversity loss, but this reduction was attenuated by prior‐experimental lab acclimation or when a ramped regime (i.e., warming) was used. Microbial differential abundance and co‐occurrence network analyses revealed several potential indicator bacterial classes for hosts in heated environments and on different biome levels. Overall, our findings improve our understanding on the impact of global temperature changes on animal and plant microbiome structures across a diverse range of habitats. The next step is to link these changes to measures of host fitness, as well as microbial community functions, to determine whether microbiomes can buffer some species against a more thermally variable and extreme world.

• Publication year

  2022

• Venue

  Global Change Biology

• Publication date

  2022-10-17

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1111/gcb.16429PMID 36251487PMCID 10092218
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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• Microbiome differential abundance methods produce different results across 38 datasets

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• Symbiosis and host responses to heating.

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• C. elegans electrotaxis behavior is modulated by heat shock response and unfolded protein response signaling pathways

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  2021influential reference
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• Experimental evolution on heat tolerance and thermal performance curves under contrasting thermal selection in Drosophila subobscura

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• Applying the Anna Karenina principle for wild animal gut microbiota: temporal stability of the bank vole gut microbiota in a disturbed environment.

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• Short-Term Exposure to High-Temperature Water Causes a Shift in the Microbiome of the Common Aquarium Sponge Lendenfeldia chondrodes

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• Revealing changes in the microbiome of Symbiodiniaceae under thermal stress.

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• Warming, but Not Acidification, Restructures Epibacterial Communities of the Baltic Macroalga Fucus vesiculosus With Seasonal Variability

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  2020cited by this paper
• Host-associated microbiomes are predicted by immune system complexity and climate

  2020cited by this paper
• Dissociation of Adaptive Thermogenesis from Glucose Homeostasis in Microbiome-Deficient Mice.

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• The influence of immune activation on thermal tolerance along a latitudinal cline

  2020cited by this paper
• Adapting with Microbial Help: Microbiome Flexibility Facilitates Rapid Responses to Environmental Change

  2020cited by this paper
• PICRUSt2 for prediction of metagenome functions

  2020influential reference
• Global warming shifts the composition of the abundant bacterial phyllosphere microbiota as indicated by a cultivation dependent and independent study of the grassland phyllosphere of a long-term warming field-experiment.

  2020cited by this paper
• Longitudinal analysis reveals transition barriers between dominant ecological states in the gut microbiome

  2020cited by this paper
• High-temperature exposure alters the community structure and functional features of the intestinal microbiota in Shaoxing ducks (Anas platyrhynchos)

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  2020cited by this paper
• Tapping into the maize root microbiome to identify bacteria that promote growth under chilling conditions

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  2020cited by this paper
• The Effects of Temperature on Animal Gut Microbiomes

  2020cited by this paper
• Climate Change Drives Poleward Increases and Equatorward Declines in Marine Species.

  2020cited by this paper
• Symbiodiniaceae probiotics for use in bleaching recovery

  2020cited by this paper
• Climate change and ecosystems: threats, opportunities and solutions

  2020cited by this paper
• Long-term instability of the intestinal microbiome is associated with metabolic liver disease, low microbiota diversity, diabetes mellitus and impaired exocrine pancreatic function

  2020cited by this paper
• Fecal microbiota transplantation provides new insight into wildlife conservation

  2020cited by this paper
• Characterization of Gut Microbiome in the Mussel Mytilus galloprovincialis in Response to Thermal Stress

  2019cited by this paper
• Database resources of the National Center for Biotechnology Information.

  2019cited by this paper
• Greater vulnerability to warming of marine versus terrestrial ectotherms

  2019cited by this paper
• Multiple stressors interact primarily through antagonism to drive changes in the coral microbiome

  2019cited by this paper
• Long-Term Temperature Stress in the Coral Model Aiptasia Supports the “Anna Karenina Principle” for Bacterial Microbiomes

  2019cited by this paper
• Compositional and Functional Analysis of the Microbiome in Tissue and Saliva of Oral Squamous Cell Carcinoma

  2019cited by this paper
• Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

  2019influential reference
• Variation in the Microbiota Associated with Daphnia magna Across Genotypes, Populations, and Temperature

  2019cited by this paper
• The microbiota–gut–brain interaction in regulating host metabolic adaptation to cold in male Brandt’s voles (Lasiopodomys brandtii)

  2019cited by this paper
• Ambient temperature alters body size and gut microbiota of Xenopus tropicalis

  2019cited by this paper
• Clinical Application and Potential of Fecal Microbiota Transplantation.

  2019cited by this paper
• Temperature and humidity index (THI)-induced rumen bacterial community changes in goats

  2019cited by this paper
• The Effect of Thermal Stress on the Bacterial Microbiome of Exaiptasia diaphana

  2019cited by this paper
• Current challenges and best-practice protocols for microbiome analysis

  2019cited by this paper
• Temperature as a modulator of the gut microbiome: what are the implications and opportunities for thermal medicine?

  2019cited by this paper
• Low diversity gut microbiota dysbiosis: drivers, functional implications and recovery.

  2018cited by this paper
• Environmental temperature alters the digestive performance and gut microbiota of a terrestrial amphibian

  2018cited by this paper
• Effects of temperature on bacterial microbiome composition in Ixodes scapularis ticks

  2018cited by this paper
• Qiita: rapid, web-enabled microbiome meta-analysis

  2018influential reference
• Heat stress mediates changes in fecal microbiome and functional pathways of laying hens

  2018cited by this paper
• The gut microbiome participates in transgenerational inheritance of low‐temperature responses in Drosophila melanogaster

  2018cited by this paper
• Ecotype-Dependent Response of Bacterial Communities Associated with Arabidopsis to Cold Acclimation

  2018cited by this paper
• Host genetic selection for cold tolerance shapes microbiome composition and modulates its response to temperature

  2018cited by this paper
• Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation

  2018cited by this paper
• Impact of Cold Exposure on the Reproductive Function in Female Rats

  2018cited by this paper
• Human Physiology in Extreme Heat and Cold

  2018cited by this paper
• Microbiota transplantation: concept, methodology and strategy for its modernization

  2018cited by this paper
• The role of the microbiome for human health: from basic science to clinical applications

  2018cited by this paper
• Role of the gut microbiota in nutrition and health

  2018cited by this paper
• Elevated seawater temperature disrupts the microbiome of an ecologically important bioeroding sponge

  2018cited by this paper
• Conservation implications of ecological responses to extreme weather and climate events

  2018cited by this paper
• Long-Term Warming Shifts the Composition of Bacterial Communities in the Phyllosphere of Galium album in a Permanent Grassland Field-Experiment

  2018cited by this paper
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  2018cited by this paper
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  2018cited by this paper
• Strong responses of Drosophila melanogaster microbiota to developmental temperature

  2018cited by this paper
• Experimental Evolution in Coral Photosymbionts as a Tool to Increase Thermal Tolerance

  2018cited by this paper
• brms: An R Package for Bayesian Multilevel Models Using Stan

  2017cited by this paper
• The evolution of the host microbiome as an ecosystem on a leash

  2017cited by this paper
• Resilience of the prokaryotic microbial community of Acropora digitifera to elevated temperature

  2017cited by this paper
• 16S sequencing and functional analysis of the fecal microbiome during treatment of newly diagnosed pediatric inflammatory bowel disease

  2017cited by this paper
• Climate warming reduces gut microbiota diversity in a vertebrate ectotherm

  2017cited by this paper
• The microbiome of the octocoral Lobophytum pauciflorum: minor differences between sexes and resilience to short‐term stress

  2017cited by this paper
• Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns

  2017influential reference
• The response of a boreal deep-sea sponge holobiont to acute thermal stress

  2017cited by this paper
• Gut microbiota: Role in pathogen colonization, immune responses, and inflammatory disease

  2017cited by this paper
• Bacterial community dynamics are linked to patterns of coral heat tolerance

  2017cited by this paper
• Stress and stability: applying the Anna Karenina principle to animal microbiomes

  2017influential reference
• Restructuring of Epibacterial Communities on Fucus vesiculosus forma mytili in Response to Elevated pCO2 and Increased Temperature Levels

  2016cited by this paper
• Effects of environmental temperature on the gut microbial communities of tadpoles.

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  2016cited by this paper
• Analysis of composition of microbiomes: a novel method for studying microbial composition

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• Gut Microbiota Orchestrates Energy Homeostasis during Cold.

  2015influential reference
• Thermal-safety margins and the necessity of thermoregulatory behavior across latitude and elevation

  2014cited by this paper
• Adaptive phenotypic plasticity and local adaptation for temperature tolerance in freshwater zooplankton

  2014cited by this paper
• Fitting Linear Mixed-Effects Models Using lme4

  2014influential reference
• Unifying the analysis of high-throughput sequencing datasets: characterizing RNA-seq, 16S rRNA gene sequencing and selective growth experiments by compositional data analysis

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• Upper thermal limits in terrestrial ectotherms: how constrained are they?

  2013cited by this paper
• phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

  2013cited by this paper
• Association of gut microbiota with post-operative clinical course in Crohn’s disease

  2013cited by this paper
• The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

  2012cited by this paper
• Predicting organismal vulnerability to climate warming: roles of behaviour, physiology and adaptation

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• Inferring Correlation Networks from Genomic Survey Data

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• Limited potential for adaptation to climate change in a broadly distributed marine crustacean

  2012cited by this paper
• SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

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• Dirichlet Multinomial Mixtures: Generative Models for Microbial Metagenomics

  2012cited by this paper

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• Environmental temperature is a strong driver of subspecies competition in the Drosophila microbiome

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• Thermal stress has greater impact on the zebrafish skin microbiota than host genotype.

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• Metabarcoding-based characterization of the boxwood root-zone soil microbiome

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  2026cites this paper
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• Thermal priming mitigates the effects of lethal marine heatwaves on the Manila clam Ruditapes philippinarum

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• Thermal fluctuations independently modulate physiological plasticity and the dynamics of the gut microbiome in a tropical rocky shore oyster

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  2024cites this paper
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  2024cites this paper
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  2024cites this paper
• Impact of high temperature and drought stress on the microbial community in wolf spiders.

  2024cites this paper
• Host-associated microbes mitigate the negative impacts of aquatic pollution

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• Habitat-specific regulation of microbiota in long-distance water diversion systems.

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  2023cites this paper
• Signatures of dysbiosis in fish microbiomes in the context of aquaculture

  2023cites this paper
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  2023cites this paper
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  2023cites this paper
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  2022cites this paper