@holobiontbiology.bsky.social
Conceptual synthesis uniting biology's macro- and microbiological worlds into an enveloping representation of life. Holobiont = host and all associated microbes. Hologenome = all of their genomes.
Link: https://www.science.org/doi/10.1126/science.ado2152
Link: https://www.science.org/doi/10.1126/science.ado2152
Reposted
This is the now and future.
"All raw sequencing data, genome assemblies, and annotations of B. pseudoalternata #hologenome were deposited" ✔️
www.cell.com/cell-host-mi...
"All raw sequencing data, genome assemblies, and annotations of B. pseudoalternata #hologenome were deposited" ✔️
www.cell.com/cell-host-mi...
Hologenomic insights into the molecular adaptation of deep-sea coral Bathypathes pseudoalternata
Wei et al. reveal how deep-sea corals partner with symbionts in the extreme environment
using the hologenome of Bathypathes pseudoalternata. A division of labor shows that
the host provides a protecte...
www.cell.com
November 21, 2025 at 3:23 PM
This is the now and future.
"All raw sequencing data, genome assemblies, and annotations of B. pseudoalternata #hologenome were deposited" ✔️
www.cell.com/cell-host-mi...
"All raw sequencing data, genome assemblies, and annotations of B. pseudoalternata #hologenome were deposited" ✔️
www.cell.com/cell-host-mi...
"As HOLOBIONTS, insects are associated with diverse microbiota (Bacteria, Archaea, eucaryotic microorganisms, and viruses) that affect their fitness (positively or negatively)." Sidenote: microbes that do not impact fitness are also part of the holobiont www.nature.com/articles/s41...
Bacteria associated with the cereal leaf beetle act as the insect’s allies in adapting to protease inhibitors, but impair its development in laboratory condition - Scientific Reports
Scientific Reports - Bacteria associated with the cereal leaf beetle act as the insect’s allies in adapting to protease inhibitors, but impair its development in laboratory condition
www.nature.com
November 15, 2025 at 9:07 PM
"As HOLOBIONTS, insects are associated with diverse microbiota (Bacteria, Archaea, eucaryotic microorganisms, and viruses) that affect their fitness (positively or negatively)." Sidenote: microbes that do not impact fitness are also part of the holobiont www.nature.com/articles/s41...
Amoebic Gill Disease (AGD) in Atlantic Salmon Investigated Through a Holo-Omic Lens
onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com/doi/10.1002/...
Amoebic Gill Disease (AGD) in Atlantic Salmon Investigated Through a Holo‐Omic Lens
In this exploratory study, we integrated 16S rRNA profiling with quantitative genetics to examine the gill microbiota of Atlantic salmon during infection with Neoparamoeba perurans, the causative age...
onlinelibrary.wiley.com
November 12, 2025 at 2:16 PM
Amoebic Gill Disease (AGD) in Atlantic Salmon Investigated Through a Holo-Omic Lens
onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com/doi/10.1002/...
The HoloFood database houses nearly 10,000 holo-omic profiles for salmon and chicken under controlled treatments!
academic.oup.com/bioinformati...
academic.oup.com/bioinformati...
HoloFoodR: a statistical programming framework for holo-omics data integration workflows
AbstractSummary. Holo-omics is an emerging research area that integrates multi-omic datasets from the host organism and its microbiome to study their inter
academic.oup.com
November 10, 2025 at 2:03 PM
The HoloFood database houses nearly 10,000 holo-omic profiles for salmon and chicken under controlled treatments!
academic.oup.com/bioinformati...
academic.oup.com/bioinformati...
Reposted
Bacteriophages of the predominant coral symbiont Endozoicomonas: novel models for coral holobiont interactions https://www.biorxiv.org/content/10.1101/2025.10.29.685362v1
October 31, 2025 at 2:17 AM
Bacteriophages of the predominant coral symbiont Endozoicomonas: novel models for coral holobiont interactions https://www.biorxiv.org/content/10.1101/2025.10.29.685362v1
Subarctic moss and its metal-adapted fungi form a #holobiont that efficiently stores toxic metals, offering a potential, nature-based phytoremediation strategy for cleaning up cold, metal-contaminated waters from mining and other anthropogenic pressures.
onlinelibrary.wiley.com/doi/full/10....
onlinelibrary.wiley.com/doi/full/10....
Aquatic moss precipitates metals in the presence of a specific endophytic microbiome
Harnessing moss–microbe interactions for metal removal. Schematic representation of aquatic moss Warnstorfia fluitans and its microbial symbionts in the remediation of metal-contaminated waters. Ampl...
onlinelibrary.wiley.com
October 30, 2025 at 4:26 PM
Subarctic moss and its metal-adapted fungi form a #holobiont that efficiently stores toxic metals, offering a potential, nature-based phytoremediation strategy for cleaning up cold, metal-contaminated waters from mining and other anthropogenic pressures.
onlinelibrary.wiley.com/doi/full/10....
onlinelibrary.wiley.com/doi/full/10....
Reposted
Rewiring holobiont systems with synthetic biology
www.cell.com/trends/biote...
www.cell.com/trends/biote...
Rewiring holobiont systems with synthetic biology
Holobionts are complex communities comprising a host and its diverse microbiota. Their
intricate relationships are crucial for biological processes like nutrient uptake,
immune function, and environme...
www.cell.com
October 22, 2025 at 7:10 AM
Rewiring holobiont systems with synthetic biology
www.cell.com/trends/biote...
www.cell.com/trends/biote...
Bring on the programs 👩💻
HoloSimR allows the user to explore the effect of the microbiota on the phenotypic response to selection and the effects of the environment, host genetics and symbiosis between microbial species on the composition of the microbiota.
doi.org/10.1093/jas/...
HoloSimR allows the user to explore the effect of the microbiota on the phenotypic response to selection and the effects of the environment, host genetics and symbiosis between microbial species on the composition of the microbiota.
doi.org/10.1093/jas/...
HoloSimR: a comprehensive framework for simulating breeding programs including the hologenome scenario
Abstract. Including microbiome information in breeding schemes may be helpful to improve the selection response of livestock populations. However, the comp
doi.org
October 28, 2025 at 8:04 PM
Bring on the programs 👩💻
HoloSimR allows the user to explore the effect of the microbiota on the phenotypic response to selection and the effects of the environment, host genetics and symbiosis between microbial species on the composition of the microbiota.
doi.org/10.1093/jas/...
HoloSimR allows the user to explore the effect of the microbiota on the phenotypic response to selection and the effects of the environment, host genetics and symbiosis between microbial species on the composition of the microbiota.
doi.org/10.1093/jas/...
“Recently, greater emphasis has been placed on the concept of #holobiont in marine ecosystems. This concept refers to a biological unit composed of a host and its microbiota, as they coexist and interact“ www.frontiersin.org/journals/mar...
Frontiers | Sea urchin holobionts: microbiome variation across species, compartments and locations in Paracentrotus lividus and Arbacia lixula
Understanding holobiont dynamics is essential for unraveling the complex interactions between marine hosts and their microbiota. Sea urchins play pivotal rol...
www.frontiersin.org
October 20, 2025 at 9:39 AM
“Recently, greater emphasis has been placed on the concept of #holobiont in marine ecosystems. This concept refers to a biological unit composed of a host and its microbiota, as they coexist and interact“ www.frontiersin.org/journals/mar...
"Recently, greater emphasis has been placed on the concept of #holobiont in marine ecosystems. This concept refers to a biological unit composed of a host and its microbiota, as they coexist and interact"
www.frontiersin.org/journals/mar...
www.frontiersin.org/journals/mar...
Frontiers | Sea urchin holobionts: microbiome variation across species, compartments and locations in Paracentrotus lividus and Arbacia lixula
Understanding holobiont dynamics is essential for unraveling the complex interactions between marine hosts and their microbiota. Sea urchins play pivotal rol...
www.frontiersin.org
October 17, 2025 at 12:49 PM
"Recently, greater emphasis has been placed on the concept of #holobiont in marine ecosystems. This concept refers to a biological unit composed of a host and its microbiota, as they coexist and interact"
www.frontiersin.org/journals/mar...
www.frontiersin.org/journals/mar...
Reposted
🤓 The gardening word of the day is [Holobiont]:
It includes the host; together with associated communities of microorganisms linked in a symbiotic assemblage that contributes towards the function of whole system [1]
It includes the host; together with associated communities of microorganisms linked in a symbiotic assemblage that contributes towards the function of whole system [1]
September 24, 2025 at 1:00 PM
🤓 The gardening word of the day is [Holobiont]:
It includes the host; together with associated communities of microorganisms linked in a symbiotic assemblage that contributes towards the function of whole system [1]
It includes the host; together with associated communities of microorganisms linked in a symbiotic assemblage that contributes towards the function of whole system [1]
Reposted
Open Access UCL Research: Architecture for the Holobiont Designing Probiotic Interventions discovery.ucl.ac.uk/id/eprint/10...
Architecture for the Holobiont Designing Probiotic Interventions
-
UCL Discovery
UCL Discovery is UCL's open access repository, showcasing and providing access to UCL research outputs from all UCL disciplines.
discovery.ucl.ac.uk
September 25, 2025 at 2:12 PM
Open Access UCL Research: Architecture for the Holobiont Designing Probiotic Interventions discovery.ucl.ac.uk/id/eprint/10...
Reposted
🐜The ant holobiont as a key ingredient to your yogurt?
✨Fermentation is Fascinating✨
Check out this new paper!
✨Fermentation is Fascinating✨
Check out this new paper!
Making #yogurt with ants from a nearly forgotten Bulgarian recipe. www.cell.com/iscience/ful...
@cp-iscience.bsky.social
Veronica M. Sinotte, Leonie J. Jahn & colleagues
@cp-iscience.bsky.social
Veronica M. Sinotte, Leonie J. Jahn & colleagues
October 3, 2025 at 3:27 PM
🐜The ant holobiont as a key ingredient to your yogurt?
✨Fermentation is Fascinating✨
Check out this new paper!
✨Fermentation is Fascinating✨
Check out this new paper!
Reposted
Robust, Open-Source and Automation-Friendly DNA Extraction Protocol for Hologenomic Research enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #symbiosis #microbiome
October 2, 2025 at 7:00 AM
Robust, Open-Source and Automation-Friendly DNA Extraction Protocol for Hologenomic Research enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #symbiosis #microbiome
Reposted
"Tick–pathogen–microbiome interactions based on #hologenome-wide analysis" from 16,000 ticks, 48 species, and 8 genera. 👀
Nutritional endosymbionts are prevalent with a new 7,783 bacterial genomes from 1,373 bacterial species. @holobiontbiology.bsky.social
www.nature.com/articles/s41...
Nutritional endosymbionts are prevalent with a new 7,783 bacterial genomes from 1,373 bacterial species. @holobiontbiology.bsky.social
www.nature.com/articles/s41...
Genome-resolved metagenomics reveals microbiome diversity across 48 tick species - Nature Microbiology
Sequencing the genome and microbiome of about 1,500 tick samples from regions across China revealed host–microbe associations in ticks that could have implications for controlling ticks and tick-borne diseases.
www.nature.com
September 29, 2025 at 7:14 PM
"Tick–pathogen–microbiome interactions based on #hologenome-wide analysis" from 16,000 ticks, 48 species, and 8 genera. 👀
Nutritional endosymbionts are prevalent with a new 7,783 bacterial genomes from 1,373 bacterial species. @holobiontbiology.bsky.social
www.nature.com/articles/s41...
Nutritional endosymbionts are prevalent with a new 7,783 bacterial genomes from 1,373 bacterial species. @holobiontbiology.bsky.social
www.nature.com/articles/s41...
Reposted
Microbes = climate allies.
Our new editorial calls for a global alliance to put microbial science at the center of climate action. 🌱🌍
Because microbes cross every border—so should our solutions.
👉 doi.org/10.1093/sumb...
Our new editorial calls for a global alliance to put microbial science at the center of climate action. 🌱🌍
Because microbes cross every border—so should our solutions.
👉 doi.org/10.1093/sumb...
Microbes without borders: uniting societies for climate action
Abstract. The climate crisis is one of the greatest challenges of our time, yet the role of microorganisms remains underrecognized in climate science and p
doi.org
September 25, 2025 at 5:37 PM
Microbes = climate allies.
Our new editorial calls for a global alliance to put microbial science at the center of climate action. 🌱🌍
Because microbes cross every border—so should our solutions.
👉 doi.org/10.1093/sumb...
Our new editorial calls for a global alliance to put microbial science at the center of climate action. 🌱🌍
Because microbes cross every border—so should our solutions.
👉 doi.org/10.1093/sumb...
This is next level, important, and inspiring. Very well done.
"Holobiont–holobiont interactions across host–ectoparasite systems"
parasitesandvectors.biomedcentral.com/articles/10....
"Holobiont–holobiont interactions across host–ectoparasite systems"
parasitesandvectors.biomedcentral.com/articles/10....
September 25, 2025 at 6:36 PM
This is next level, important, and inspiring. Very well done.
"Holobiont–holobiont interactions across host–ectoparasite systems"
parasitesandvectors.biomedcentral.com/articles/10....
"Holobiont–holobiont interactions across host–ectoparasite systems"
parasitesandvectors.biomedcentral.com/articles/10....
#Phylosymbiosis and #cospeciation associations of gut #fungi in this set of initial analyses initiates a step….to decipher the broader forces of fungal assembly in human and primate #holobionts By @emilyvansyoc.bsky.social @erdavenport.bsky.social & Co. journals.plos.org/plosbiology/...
Gut fungal profiles reveal phylosymbiosis and codiversification across humans and nonhuman primates
Fungi in the gut microbiome (the "mycobiome") are a neglected component of the human holobiont. This study of gut fungal profiles across natural populations of humans and non-human primates reveals si...
journals.plos.org
September 22, 2025 at 10:40 PM
#Phylosymbiosis and #cospeciation associations of gut #fungi in this set of initial analyses initiates a step….to decipher the broader forces of fungal assembly in human and primate #holobionts By @emilyvansyoc.bsky.social @erdavenport.bsky.social & Co. journals.plos.org/plosbiology/...
Reposted
Functional division of labor in motility, lignocellulose digestion, and nitrogen metabolism revealed for the Mixotricha paradoxa holobiont
#microbiology #protists #termites
@isme-microbes.bsky.social
academic.oup.com/ismej/articl...
#microbiology #protists #termites
@isme-microbes.bsky.social
academic.oup.com/ismej/articl...
September 19, 2025 at 7:48 AM
Functional division of labor in motility, lignocellulose digestion, and nitrogen metabolism revealed for the Mixotricha paradoxa holobiont
#microbiology #protists #termites
@isme-microbes.bsky.social
academic.oup.com/ismej/articl...
#microbiology #protists #termites
@isme-microbes.bsky.social
academic.oup.com/ismej/articl...
This study examines the population genetics and microbial communities of the West Nile virus mosquito holobiont, Culex tarsalis. There are 4 genetic clusters of mosquitoes and 3 distinct clusters of bacterial communities, with fungal communities being less defined.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Hologenomic structure of bacterial and fungal community composition in the West Nile virus vector Culex tarsalis
Background Microbiota play a crucial role in determining the ability for arthropod disease vectors to transmit pathogens. Microbial community structure can be heavily influenced by microbe-microbe int...
www.biorxiv.org
September 16, 2025 at 2:52 PM
This study examines the population genetics and microbial communities of the West Nile virus mosquito holobiont, Culex tarsalis. There are 4 genetic clusters of mosquitoes and 3 distinct clusters of bacterial communities, with fungal communities being less defined.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted
Within-host microbial selection and multiple microbial generations buffer the loss of host fitness under environmental change @holobiontbiology.bsky.social
academic.oup.com/femsec/advan...
academic.oup.com/femsec/advan...
September 14, 2025 at 7:12 PM
Within-host microbial selection and multiple microbial generations buffer the loss of host fitness under environmental change @holobiontbiology.bsky.social
academic.oup.com/femsec/advan...
academic.oup.com/femsec/advan...
Reposted
For those engaged in studies on the hologenome and its relevance to One Health
www.alocongress.com/pangenome2025
www.alocongress.com/pangenome2025
PANGENOME2025
The biology of prokaryotic cells is directly dependent on the differential gene pools that characterize each cell or strain. This has been a fundamental aspect of epidemiology for delimiting outbreaks...
www.alocongress.com
September 11, 2025 at 12:30 PM
For those engaged in studies on the hologenome and its relevance to One Health
www.alocongress.com/pangenome2025
www.alocongress.com/pangenome2025
Reposted
The landscape of microbial associations in human cancer www.science.org/doi/10.1126/...
TLDR -- most cancers do not have microbiomes...but a few do have consistent microbe associations (i.e., colorectal and oral cancers). Make sense!
TLDR -- most cancers do not have microbiomes...but a few do have consistent microbe associations (i.e., colorectal and oral cancers). Make sense!
The landscape of microbial associations in human cancer
Differences between cancer types, infectious disease, and potential prognostic markers are uncovered by studying microbes within cancer DNA.
www.science.org
September 12, 2025 at 7:40 PM
The landscape of microbial associations in human cancer www.science.org/doi/10.1126/...
TLDR -- most cancers do not have microbiomes...but a few do have consistent microbe associations (i.e., colorectal and oral cancers). Make sense!
TLDR -- most cancers do not have microbiomes...but a few do have consistent microbe associations (i.e., colorectal and oral cancers). Make sense!
Reposted
Pleased to share new work tinkering with and testing the concept of the holobiont
@isme-microbes.bsky.social
"Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities"
🌾🐭🦠
academic.oup.com/ismecommun/a...
@isme-microbes.bsky.social
"Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities"
🌾🐭🦠
academic.oup.com/ismecommun/a...
Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities
Abstract. According to the “hologenome” theory of evolution natural selection and evolution can act through a conglomerate biological unit, the “holobiont”
academic.oup.com
September 12, 2025 at 5:02 PM
Pleased to share new work tinkering with and testing the concept of the holobiont
@isme-microbes.bsky.social
"Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities"
🌾🐭🦠
academic.oup.com/ismecommun/a...
@isme-microbes.bsky.social
"Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities"
🌾🐭🦠
academic.oup.com/ismecommun/a...