#microbialecology — Public Fediverse posts

As climate-driven sea level rise increases the salinity of freshwater environments, aquatic microbial communities lose biodiversity but maintain their overall growth rate and biomass production.
#MicrobialEcology #EvolutionaryBiology #EnvironmentalMicrobiology #sflorg
https://www.sflorg.com/2026/07/eco07172601.html

As climate-driven sea level rise increases the salinity of freshwater environments, aquatic microbial communities lose biodiversity but maintain their overall growth rate and biomass production.
#MicrobialEcology #EvolutionaryBiology #EnvironmentalMicrobiology #sflorg
https://www.sflorg.com/2026/07/eco07172601.html

The saprotrophic-symbiotic continuum in fungi
and the loss of rare microbiota through agricultural intensification

Saprotrophy-to-symbiosis continuum in fungi. Francis Martin, Hao Tan, Current Biology : 2025 >>
https://www.sciencedirect.com/science/article/abs/pii/S0960982225000624

Banerjee, S., Dasgupta, D. & van der Heijden, M.G.A. Agricultural intensification, microbial homogenization and loss of rare microbiota. Nat Rev Microbiol (2026)
https://www.nature.com/articles/s41579-026-01315-w >>
#soil #agriculture #microbiota #microbes #mycorrhizae #mutualism #symbiosis #saprotrophy #ecology #taxonomy #EcologicalSpectrum #organisms #LeafLitter #PlantMicrobeInteractions #MicrobialEcology

Image: #Fungi, Bellingen, NSW

The saprotrophic-symbiotic continuum in fungi
and the loss of rare microbiota through agricultural intensification

Saprotrophy-to-symbiosis continuum in fungi. Francis Martin, Hao Tan, Current Biology : 2025 >>
https://www.sciencedirect.com/science/article/abs/pii/S0960982225000624

Banerjee, S., Dasgupta, D. & van der Heijden, M.G.A. Agricultural intensification, microbial homogenization and loss of rare microbiota. Nat Rev Microbiol (2026)
https://www.nature.com/articles/s41579-026-01315-w >>
#soil #agriculture #microbiota #microbes #mycorrhizae #mutualism #symbiosis #saprotrophy #ecology #taxonomy #EcologicalSpectrum #organisms #LeafLitter #PlantMicrobeInteractions #MicrobialEcology

Image: #Fungi, Bellingen, NSW

RE: https://botany.social/@botanyone/116504160551629066

There is so much fascinating resarch to do in this amazing world! :ecoanarchism_heart:

#Mycorrhiza #MicrobialEcology #PlantMicrobeInteractions #AMF

RE: https://botany.social/@botanyone/116504160551629066

There is so much fascinating resarch to do in this amazing world! :ecoanarchism_heart:

#Mycorrhiza #MicrobialEcology #PlantMicrobeInteractions #AMF

Microbes adapt to entirely new habitats—such as migrating from soil to freshwater lakes—by utilizing two divergent evolutionary pathways: expanding their genome to acquire new functional traits, or drastically reducing their genome to minimize resource dependency.
#EvolutionaryBiology #MicrobialEcology #Genomics #Limnology #Bioinformatics #sflorg
https://www.sflorg.com/2026/04/ebio04142601.html

Microbes adapt to entirely new habitats—such as migrating from soil to freshwater lakes—by utilizing two divergent evolutionary pathways: expanding their genome to acquire new functional traits, or drastically reducing their genome to minimize resource dependency.
#EvolutionaryBiology #MicrobialEcology #Genomics #Limnology #Bioinformatics #sflorg
https://www.sflorg.com/2026/04/ebio04142601.html

Drought amplifies warming-induced soil carbon loss in a decade-long experiment

García-Palacios, P. et al. Evidence for large microbial-mediated losses of soil carbon under anthropogenic warming. Nat. Rev. Earth…
#NewsBeep #News #Environment #Biogeochemistry #ClimateChange #ClimateChange/ClimateChangeImpacts #Climate-changeimpacts #environment #EnvironmentalLaw/Policy/Ecojustice #general #Microbialecology #Science #UK #UnitedKingdom
https://www.newsbeep.com/uk/474731/

Hot spring bathing behaviors in Japanese #macaques actively reshape the host "holobiont," specifically modifying lice distribution and gut #microbiota composition beyond simple thermoregulation or stress relief.
#Zoology #Ecology #BehavioralScience #Primatology #Ethology #MicrobialEcology #sflorg
https://www.sflorg.com/2026/01/zoo01202601.html

Hot spring bathing behaviors in Japanese #macaques actively reshape the host "holobiont," specifically modifying lice distribution and gut #microbiota composition beyond simple thermoregulation or stress relief.
#Zoology #Ecology #BehavioralScience #Primatology #Ethology #MicrobialEcology #sflorg
https://www.sflorg.com/2026/01/zoo01202601.html

🦠 Are tiny gut protists rewriting what we know about “good” and “bad” microbes?

🔗 Structure analysis of human gut microbiota associated with single-celled gut protists using Next-Generation Sequencing of 16S and 18S rRNA genes. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.06.006

📚 CSBJ: https://www.csbj.org/

#Microbiome #GutHealth #Metagenomics #Protists #Blastocystis #Giardia #NGS #Microbiota #MicrobialEcology #NGS #ComputationalBiology #MolecularBiology

🦠 Are tiny gut protists rewriting what we know about “good” and “bad” microbes?

🔗 Structure analysis of human gut microbiota associated with single-celled gut protists using Next-Generation Sequencing of 16S and 18S rRNA genes. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.06.006

📚 CSBJ: https://www.csbj.org/

#Microbiome #GutHealth #Metagenomics #Protists #Blastocystis #Giardia #NGS #Microbiota #MicrobialEcology #NGS #ComputationalBiology #MolecularBiology

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=2258

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=2258

Microbiome profiling of Grana Padano and Parmigiano Reggiano cheeses reveals cheese-specific biomarkers, psychobiotic potential, and bioprotective activities https://www.diningandcooking.com/2258765/microbiome-profiling-of-grana-padano-and-parmigiano-reggiano-cheeses-reveals-cheese-specific-biomarkers-psychobiotic-potential-and-bioprotective-activities/ #Cheese #general #Italia #Italian #ItalianCheese #italiano #italy #LifeSciences #MedicalMicrobiology #MicrobialCommunities #MicrobialEcology #MicrobialGenetics #MicrobialGeneticsAndGenomics #microbiology #NextGenerationSequencing

Microbiome profiling of Grana Padano and Parmigiano Reggiano cheeses reveals cheese-specific biomarkers, psychobiotic potential, and bioprotective activities https://www.diningandcooking.com/2258765/microbiome-profiling-of-grana-padano-and-parmigiano-reggiano-cheeses-reveals-cheese-specific-biomarkers-psychobiotic-potential-and-bioprotective-activities/ #Cheese #general #Italia #Italian #ItalianCheese #italiano #italy #LifeSciences #MedicalMicrobiology #MicrobialCommunities #MicrobialEcology #MicrobialGenetics #MicrobialGeneticsAndGenomics #microbiology #NextGenerationSequencing

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=1243

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=1243

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #mi...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=18

Postdoctoral Fellow in Environmental Microbial Genomics
Trent University

Excited about microbial genomics, environmental change, and single-cell analysis? Join us as a postdoc @ecochangegroup!

See the full job description on jobRxiv: https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/

#microbialecology #microbiology #mi...
https://jobrxiv.org/job/trent-university-27778-postdoctoral-fellow-in-environmental-microbial-genomics-2/?fsp_sid=18

Functional regimes define soil microbiome response to environmental change

Sample collection, site description and soil characterization Twenty topsoils were sampled across a range of pH values (4.7–8.32)…
#NewsBeep #News #Environment #AU #Australia #Biophysics #HumanitiesandSocialSciences #Microbialecology #Microbiome #multidisciplinary #Science
https://www.newsbeep.com/au/4166/

🎉 New pipeline day 🎉

🦠 A big question for #metagenomics #MicrobialEcology or #microbiome researchers is: which tool and database to use for taxonomic classification?

🤔 For both often the answer changes on a case-by-case basis, but we can help people make their databases.

🚀 The open-source nf-core/createtaxdb pipeline (https://nf-co.re/createtaxdb) automates building of custom databases for 9 classification tools - all in parallel!

🗪 Interested? DM me or join the nf-core slack!

🎉 New pipeline day 🎉

🦠 A big question for #metagenomics #MicrobialEcology or #microbiome researchers is: which tool and database to use for taxonomic classification?

🤔 For both often the answer changes on a case-by-case basis, but we can help people make their databases.

🚀 The open-source nf-core/createtaxdb pipeline (https://nf-co.re/createtaxdb) automates building of custom databases for 9 classification tools - all in parallel!

🗪 Interested? DM me or join the nf-core slack!

An interesting #PlantSciJob as Editor at Nature Microbiology @natmicrobiol.nature.com. Expertise in #PlantMicrobiology #MicrobialEcology #PlantImmunity desirable. #PlantScience #PlantSciJobs #PlantScienceJobs

RE: https://bsky.app/profile/did:plc:g4tdgvfcwntwdalvoiq4lkk4/post/3lmkfzlqzjc2b

New publication: Domesticated #rice alters the #rhizosphere #microbiome, reducing #nitrogen fixation and increasing nitrous oxide emissions. #agroecology #sustainability #microbialecology
https://doi.org/10.1038/s41467-025-57213-x

New publication: Harnessing the synergy of Urochloa brizantha and #Amazonian Dark Earth #microbiomes for enhanced #pasture recovery. #ecologicalrestoration #biodiversity #sustainability #microbialecology #soilscience
https://doi.org/10.1186/s12866-024-03741-3

'The Nastiest Soils On Earth' Are Getting Recognized As A Bigger Problem
--
https://phys.org/news/2024-11-nastiest-soils-earth-bigger-problem.html <-- shared technical article
--
https://lnu.diva-portal.org/smash/record.jsf?pid=diva2%3A1895656&dswid=-9242 <-- link to doctoral thesis
--
#acidsulfatesoils #acidrockdrainage #microbialecology #acidophiles #oxidation #sediments #genesequences #acidsulfate #soils #humanimpacts #risk #hazard #waterquality #ecosystem #health #geochemistry #microbiology #mitigation #sulfide #coast #coastal #water #hydrology #pH #acids #metals #rainfall #snowmelt #dissolution #precipitation #waterbodies #plants #fish #fisheries #heavymetals #aluminum #fishkill #mortality #oxidation #bioremediation

'The Nastiest Soils On Earth' Are Getting Recognized As A Bigger Problem
--
https://phys.org/news/2024-11-nastiest-soils-earth-bigger-problem.html <-- shared technical article
--
https://lnu.diva-portal.org/smash/record.jsf?pid=diva2%3A1895656&dswid=-9242 <-- link to doctoral thesis
--
#acidsulfatesoils #acidrockdrainage #microbialecology #acidophiles #oxidation #sediments #genesequences #acidsulfate #soils #humanimpacts #risk #hazard #waterquality #ecosystem #health #geochemistry #microbiology #mitigation #sulfide #coast #coastal #water #hydrology #pH #acids #metals #rainfall #snowmelt #dissolution #precipitation #waterbodies #plants #fish #fisheries #heavymetals #aluminum #fishkill #mortality #oxidation #bioremediation

17-Oct-2024
#Bacteria thrive by playing nice before going their own way
Dartmouth study tackles question of how multiple bacterial species coexist in #biofilms

https://www.eurekalert.org/news-releases/1061367 #science #ecology #MicrobialEcology

17-Oct-2024
#Bacteria thrive by playing nice before going their own way
Dartmouth study tackles question of how multiple bacterial species coexist in #biofilms

https://www.eurekalert.org/news-releases/1061367 #science #ecology #MicrobialEcology

17-Oct-2024
Identifying the genes that #viruses ‘steal’ from ocean #microbes
Study suggests viruses reprogram at least 1/3 of metabolic processes

https://www.eurekalert.org/news-releases/1061703 #science #ecology #MicrobialEcology #genome

17-Oct-2024
Identifying the genes that #viruses ‘steal’ from ocean #microbes
Study suggests viruses reprogram at least 1/3 of metabolic processes

https://www.eurekalert.org/news-releases/1061703 #science #ecology #MicrobialEcology #genome

New publication: Differential response of subterranean #microbiome to exogenous #organicmatter input in a #cave ecosystem. #climatechange #biodiversity #rainstorm #microbialecology #nichebreadth
https://doi.org/10.1016/j.scitotenv.2024.176584

🦠 Interested in #nextflow & anything 'meta-' ?(#metagenomics, #metabarcoding, #metatranscriptomics, #metaproteomics, #microbes #MicrobialEcology & more!)

📆 Join us next Tuesday 13:00 CEST (3rd September) for an nf-core #bytesize for the #metaomics #nfcore special interest group! (Also on YouTube after!)

🤝 We will introduce how we want the community to work together with #users and #bioinformatics developers to make the best pipelines for anything 'meta-'

ℹ️ Zoom: https://nf-co.re/events/2024/bytesize_sig_meta_omics

🦠 Interested in #nextflow & anything 'meta-' ?(#metagenomics, #metabarcoding, #metatranscriptomics, #metaproteomics, #microbes #MicrobialEcology & more!)

📆 Join us next Tuesday 13:00 CEST (3rd September) for an nf-core #bytesize for the #metaomics #nfcore special interest group! (Also on YouTube after!)

🤝 We will introduce how we want the community to work together with #users and #bioinformatics developers to make the best pipelines for anything 'meta-'

ℹ️ Zoom: https://nf-co.re/events/2024/bytesize_sig_meta_omics

Enhanced metabolic entanglement emerges during the evolution of an interkingdom microbial community
#MicrobialEcology #EvolutionaryBiology #ExperimentalEvolution #science

https://www.nature.com/articles/s41467-024-51702-1#ref-CR13

New publication: #Darwin’s expedition revisited to reveal the #evolution of plant–microbe interactions on #Galápagos. #microbialecology #biodiversity
https://doi.org/10.1038/s41564-024-01749-z

I'm looking forward to the @nf_core hackathon and #Nextflow Summit in Barcelona in October!

Is anyone here on Mastodon coming as well (or joining remotely)?

I'll be giving a talk during the summit giving an overview of the #metagenomic and #MicrobialEcology pipeline 'offerings' of #nfcore :)

If you're interested, more info here: https://summit.nextflow.io/2024/barcelona/

#bioinformatics

I'm looking forward to the @nf_core hackathon and #Nextflow Summit in Barcelona in October!

Is anyone here on Mastodon coming as well (or joining remotely)?

I'll be giving a talk during the summit giving an overview of the #metagenomic and #MicrobialEcology pipeline 'offerings' of #nfcore :)

If you're interested, more info here: https://summit.nextflow.io/2024/barcelona/

#bioinformatics

Soheil Neshat at #ISME19: "...so to introduce MicroEcoTools, which we published 2 hours ago..." =D

#MicroEcoTools: an #Rstats package for comprehensive theoretical #MicrobialEcology analysis https://www.biorxiv.org/content/10.1101/2024.08.19.608598v1 #ecology #microbes #microbiology @biorxivpreprint @ISMEmicrobes

Soheil Neshat at #ISME19: "...so to introduce MicroEcoTools, which we published 2 hours ago..." =D

#MicroEcoTools: an #Rstats package for comprehensive theoretical #MicrobialEcology analysis https://www.biorxiv.org/content/10.1101/2024.08.19.608598v1 #ecology #microbes #microbiology @biorxivpreprint @ISMEmicrobes

11-JUL-2024
Researchers develop a way to make lifesaving #phages accessible, transportable and much easier to use
When #antibiotics fail, #bacteriophages can often save lives, but determining which ones will work and sourcing them is haphazard

https://www.eurekalert.org/news-releases/1051090
#science #PhageTherapy #bacteria #MicrobialEcology #medicine

1) Want to know how much of your metagenome is eukaryotic? No references? No problem. We developed SingleM microbial fraction (SMF) and ran it on 250k metagenomes https://www.biorxiv.org/content/10.1101/2024.05.16.594470v1.

If you know what Eukaryotes are there, you can filter reads by mapping to their genomes. However, often you don’t know what’s in your sample, or the euk doesn’t have a genome.

#metagenomics #bioinformatics #genomics #microbiomes #microbialecology

Yes, microbial ecology in soils is complicated. Sokol etal 2022 https://doi.org/10.1038/s41579-022-00695-z has the citations to prove it. #SoilBiogeochemistry #SoilBiodiversity #MicrobialEcology #SciLit

Models are the bridge between theory and data. With new omics and other tools being increasing applied to soil carbon cycling, how well are our models making this connection? Schimel 2023 https://doi.org/10.1016/j.soilbio.2023.108948 concludes that microbial explicit models are still, very much, in the development phase and outlines why this is a hard problem. #SoilCarbonModel #MicrobialEcology #SoilBGC #SoilCarbonCycling #ReviewArticle #SciLit

🚀 Registration for the 7th edition of the #Metabarcoding in #MicrobialEcology course is now open!

📚 Dive into the world of #Metabarcoding and #Bioinformatics with #qiime2 and #Rstats

🔗 Register here: https://www.physalia-courses.org/courses-workshops/course30/

Hey #science friends. Does anyone know which instance the #microbialecology folk hang out on? Asking for my wife as she's not yet left the dying X-bird site...

Tackling the latter this paper does some cool work looking into engineered soil with microbes to better handle reduced water. Using soil microbes from Antarctica they seeded soils for improved resilience against water deficit in crops! https://papers.ssrn.com/sol3/papers.cfm?abstract_id=4398985
#agronomy #climatechange #microbialecology

26-Jul-2023
How eavesdropping viruses battle it out to infect us

Bonnie Bassler and her team have found that dozens of viruses respond to quorum sensing or other chemical signals from bacteria. Their work appears in the current issue of Nature

https://www.eurekalert.org/news-releases/996818
exciting stuff, but it's about #phages using the #QuorumSensing of #bacteria, so not at all about how "to infect us" - unless the writer identifies as a bacterium. #science #ecology #MicrobialEcology #viruses #bacteriophages