Abstract
ABSTRACT Coffee is a globally important commodity that supports millions of livelihoods, from smallholder farmers to international traders. However, the sustainability of the coffee value chain is increasingly threatened by environmental changes. In this context, the phytomicrobiome, shaped by both environmental factors and plant genotypes, plays a vital role in plant health, productivity, and the quality of coffee beans. In this study, we explored the diversity and ecological functions of the endosphere microbiome in the leaves and fruits of Coffea arabica L. cultivated under an agroforestry system on Mount Gorongosa, within Gorongosa National Park, Mozambique. Using next‐generation sequencing, we characterized microbial communities along gradients of elevation and shade to assess how environmental variables shape microbiome composition and function. Our findings revealed a rich diversity of microbial communities, with elevation emerging as the primary driver of community structure. Taxonomic analyses showed that both elevation and shade significantly influenced the composition of bacterial and fungal communities. Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions. Notably, we detected the presence of pathogenic genera (e.g., Colletotrichum , Erwinia , Fusarium , and Phaeosphaeria ) without visible disease symptoms, indicating possible plant tolerance to biotic stressors. Predicted functional pathways, including heme biosynthesis and phospholipid metabolism, alongside ecological guilds such as saprotrophs and fungal parasites, suggested microbial adaptations essential to maintaining plant health and coffee quality. Key microbial biomarkers, including Debaryomyces , Eremothecium , and Rhodococcus , emerged as indicators of functional adaptations across environmental gradients, highlighting their potential for informing optimized, environmentally responsive coffee management strategies. Altogether, the results highlight the integral role of coffee‐associated endophytes, in concert with plant genotypes, in shaping innovative, biodiversity‐driven strategies for sustainable coffee production.
Abstract from the paper’s OpenAlex record; open copy licensed cc-by. Read at the source ↗
The text the model read, with the source record’s inline markup (italics, sub- and superscripts) rendered and its character entities decoded; quote offsets refer to the raw text.
Claims 20
Claim · model-written summary
Coffee endospheres contained a rich diversity of microbial communities.
- Taxon
- Coffea arabica L.
Coffea arabicat0 - Outcome
- rich diversity of microbial communitiese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Our findings revealed a rich diversity of microbial communities, with elevation emerging as the primary driver of community structure.”
t0“Coffea arabica L.”
Claim · model-written summary
Elevation was the primary driver of coffee endosphere community structure.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- community structuree0
- Setting
- elevatione0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Our findings revealed a rich diversity of microbial communities, with elevation emerging as the primary driver of community structure.”
t0“Coffea arabica L.”
Claim · model-written summary
Elevation significantly influenced bacterial and fungal community composition.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- composition of bacterial and fungal communitiese0
- Setting
- elevatione0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Taxonomic analyses showed that both elevation and shade significantly influenced the composition of bacterial and fungal communities.”
t0“Coffea arabica L.”
Claim · model-written summary
Shade significantly influenced bacterial and fungal community composition.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- composition of bacterial and fungal communitiese0
- Setting
- shadee0
Not reportedDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Taxonomic analyses showed that both elevation and shade significantly influenced the composition of bacterial and fungal communities.”
t0“Coffea arabica L.”
Claim · model-written summary
Debaryomycetaceae exhibited distinct environmental adaptations in the coffee endosphere.
- Taxon
- DebaryomycetaceaeDebaryomycetaceaee0
- Outcome
- distinct adaptations to environmental conditionse0
Verbatim
e0“Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions.”
Claim · model-written summary
Enterobacteriaceae exhibited distinct environmental adaptations in the coffee endosphere.
- Taxon
- EnterobacteriaceaeEnterobacteriaceaee0
- Outcome
- distinct adaptations to environmental conditionse0
Verbatim
e0“Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions.”
Claim · model-written summary
Eremotheciaceae exhibited distinct environmental adaptations in the coffee endosphere.
Verbatim
e0“Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions.”
Claim · model-written summary
Nocardiaceae exhibited distinct environmental adaptations in the coffee endosphere.
- Taxon
- NocardiaceaeNocardiaceaee0
- Outcome
- distinct adaptations to environmental conditionse0
Verbatim
e0“Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions.”
Claim · model-written summary
Pseudonocardiaceae exhibited distinct environmental adaptations in the coffee endosphere.
- Taxon
- PseudonocardiaceaePseudonocardiaceaee0
- Outcome
- distinct adaptations to environmental conditionse0
Verbatim
e0“Microbial families such as Debaryomycetaceae, Enterobacteriaceae, Eremotheciaceae, Nocardiaceae, and Pseudonocardiaceae exhibited distinct adaptations to environmental conditions.”
Claim · model-written summary
Colletotrichum was detected in coffee without visible disease symptoms.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Interactor
- Colletotrichum
Colletotrichume0pathogen - Outcome
- without visible disease symptomse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Notably, we detected the presence of pathogenic genera (e.g., Colletotrichum , Erwinia , Fusarium , and Phaeosphaeria ) without visible disease symptoms, indicating possible plant tolerance to biotic stressors.”
t0“Coffea arabica L.”
Claim · model-written summary
Erwinia was detected in coffee without visible disease symptoms.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- without visible disease symptomse0
ErwiniaOrganisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Notably, we detected the presence of pathogenic genera (e.g., Colletotrichum , Erwinia , Fusarium , and Phaeosphaeria ) without visible disease symptoms, indicating possible plant tolerance to biotic stressors.”
t0“Coffea arabica L.”
Claim · model-written summary
Fusarium was detected in coffee without visible disease symptoms.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- without visible disease symptomse0
FusariumOrganisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Notably, we detected the presence of pathogenic genera (e.g., Colletotrichum , Erwinia , Fusarium , and Phaeosphaeria ) without visible disease symptoms, indicating possible plant tolerance to biotic stressors.”
t0“Coffea arabica L.”
Claim · model-written summary
Phaeosphaeria was detected in coffee without visible disease symptoms.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Interactor
- PhaeosphaeriaPhaeosphaeriae0pathogen
- Outcome
- without visible disease symptomse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Notably, we detected the presence of pathogenic genera (e.g., Colletotrichum , Erwinia , Fusarium , and Phaeosphaeria ) without visible disease symptoms, indicating possible plant tolerance to biotic stressors.”
t0“Coffea arabica L.”
Claim · model-written summary
Symptomless pathogen detection suggests possible coffee tolerance to biotic stressors.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- possible plant tolerance to biotic stressorse0
- Qualifier
- without visible disease symptomse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“without visible disease symptoms, indicating possible plant tolerance to biotic stressors.”
t0“Coffea arabica L.”
Claim · model-written summary
Predicted microbial pathways and guilds suggest adaptations supporting coffee health and quality.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- maintaining plant health and coffee qualitye0
- Qualifier
- heme biosynthesis and phospholipid metabolisme0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Predicted functional pathways, including heme biosynthesis and phospholipid metabolism, alongside ecological guilds such as saprotrophs and fungal parasites, suggested microbial adaptations essential to maintaining plant health and coffee quality.”
t0“Coffea arabica L.”
Claim · model-written summary
Debaryomyces was a biomarker of functional adaptation across environmental gradients.
- Taxon
- Debaryomyces
.jpg?width=60)
Debaryomycese0 - Outcome
- indicators of functional adaptations across environmental gradientse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
.jpg?width=500)
Verbatim
e0“Key microbial biomarkers, including Debaryomyces , Eremothecium , and Rhodococcus , emerged as indicators of functional adaptations across environmental gradients, highlighting their potential for informing optimized, environmentally responsive coffee management strategies.”
Claim · model-written summary
Eremothecium was a biomarker of functional adaptation across environmental gradients.
- Taxon
- EremotheciumEremotheciume0
- Outcome
- indicators of functional adaptations across environmental gradientse0
Verbatim
e0“Key microbial biomarkers, including Debaryomyces , Eremothecium , and Rhodococcus , emerged as indicators of functional adaptations across environmental gradients, highlighting their potential for informing optimized, environmentally responsive coffee management strategies.”
Claim · model-written summary
Rhodococcus was a biomarker of functional adaptation across environmental gradients.
Verbatim
e0“Key microbial biomarkers, including Debaryomyces , Eremothecium , and Rhodococcus , emerged as indicators of functional adaptations across environmental gradients, highlighting their potential for informing optimized, environmentally responsive coffee management strategies.”
Claim · model-written summary
Microbial biomarkers may inform environmentally responsive coffee management.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- optimized, environmentally responsive coffee management strategiese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“highlighting their potential for informing optimized, environmentally responsive coffee management strategies.”
t0“Coffea arabica L.”
Claim · model-written summary
Coffee endophytes together with plant genotypes support biodiversity-based strategies for sustainable production.
- Taxon
- Coffea arabica L.Coffea arabicat0
- Outcome
- sustainable coffee productione0
- Qualifier
- coffee‐associated endophytes, in concert with plant genotypese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Altogether, the results highlight the integral role of coffee‐associated endophytes, in concert with plant genotypes, in shaping innovative, biodiversity‐driven strategies for sustainable coffee production.”
t0“Coffea arabica L.”