A major part of my PhD is out in ASM’s mSpectrum! We tracked pathogen interactions in children with CF including 𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢, 𝘚. 𝘢𝘶𝘳𝘦𝘶𝘴 and 𝘏. 𝘪𝘯𝘧𝘭𝘶𝘦𝘯𝘻𝘢𝘦.
𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢 showed reduced antagonism already in early childhood.
journals.asm.org/doi/10.1128/...
𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢 showed reduced antagonism already in early childhood.
journals.asm.org/doi/10.1128/...
Tracking eco-evolutionary patterns among oropharyngeal pathobiome members in a pediatric cystic fibrosis cohort | Microbiology Spectrum
Our study shows how bacterial communities in the lungs of children with cystic fibrosis
change during the earliest stages of disease. By tracking three major pathogens over
time, we found that both re...
journals.asm.org
October 18, 2026 at 1:43 PM
A major part of my PhD is out in ASM’s mSpectrum! We tracked pathogen interactions in children with CF including 𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢, 𝘚. 𝘢𝘶𝘳𝘦𝘶𝘴 and 𝘏. 𝘪𝘯𝘧𝘭𝘶𝘦𝘯𝘻𝘢𝘦.
𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢 showed reduced antagonism already in early childhood.
journals.asm.org/doi/10.1128/...
𝘗. 𝘢𝘦𝘳𝘶𝘨𝘪𝘯𝘰𝘴𝘢 showed reduced antagonism already in early childhood.
journals.asm.org/doi/10.1128/...
Interested in the brain pathobiome? Register for the AlzPI symposium on Oct 16. I'm speaking about the Tissue Bank and Dr. Michiko Thwe is presenting on the Lyme pathobiome. $30 registration fee and free for students. www.alzpi.org/pcom-and-alz...
October 15, 2026 at 4:06 PM
Interested in the brain pathobiome? Register for the AlzPI symposium on Oct 16. I'm speaking about the Tissue Bank and Dr. Michiko Thwe is presenting on the Lyme pathobiome. $30 registration fee and free for students. www.alzpi.org/pcom-and-alz...
New papel from the lab! 🥳
Third chapter of our amazing PhD student Rosaura Alfaro-García on the effects of #Phytophthora cinnamomi on the 🥑 #rhizosphere #microbiome.
We're gaining insights on the #Phytophthora #pathobiome!
authors.elsevier.com/a/1nvqg8jaVh...
Third chapter of our amazing PhD student Rosaura Alfaro-García on the effects of #Phytophthora cinnamomi on the 🥑 #rhizosphere #microbiome.
We're gaining insights on the #Phytophthora #pathobiome!
authors.elsevier.com/a/1nvqg8jaVh...
October 9, 2026 at 2:14 PM
New papel from the lab! 🥳
Third chapter of our amazing PhD student Rosaura Alfaro-García on the effects of #Phytophthora cinnamomi on the 🥑 #rhizosphere #microbiome.
We're gaining insights on the #Phytophthora #pathobiome!
authors.elsevier.com/a/1nvqg8jaVh...
Third chapter of our amazing PhD student Rosaura Alfaro-García on the effects of #Phytophthora cinnamomi on the 🥑 #rhizosphere #microbiome.
We're gaining insights on the #Phytophthora #pathobiome!
authors.elsevier.com/a/1nvqg8jaVh...
Rosaura G. Alfaro-García et al. believe that their findings emphasize the importance of pathobiome studies to refine their search for promising microbial biological control agents against Phytophthora root rot (PRR) in avocado.
Via @drafred.bsky.social
authors.elsevier.com/a/1nvqg8jaVh...
Via @drafred.bsky.social
authors.elsevier.com/a/1nvqg8jaVh...
October 10, 2026 at 3:38 AM
Rosaura G. Alfaro-García et al. believe that their findings emphasize the importance of pathobiome studies to refine their search for promising microbial biological control agents against Phytophthora root rot (PRR) in avocado.
Via @drafred.bsky.social
authors.elsevier.com/a/1nvqg8jaVh...
Via @drafred.bsky.social
authors.elsevier.com/a/1nvqg8jaVh...
Longitudinal metagenomics reveals continuous restructuring of soil pathobiome under persistent Phytophthora pressure.
Longitudinal metagenomics reveals continuous restructuring of soil pathobiome under persistent Phytophthora pressure.
Published in Frontiers in plant science
doi.org
February 18, 2026 at 8:00 PM
Longitudinal metagenomics reveals continuous restructuring of soil pathobiome under persistent Phytophthora pressure.
The cerebral pathobiome...
www.theguardian.com/lifeandstyle...
www.theguardian.com/lifeandstyle...
The brain microbiome: could understanding it help prevent dementia?
Long thought to be sterile, our brains are now believed to harbour all sorts of micro-organisms, from bacteria to fungi. How big a part do they play in Alzheimer’s and similar diseases?
www.theguardian.com
December 1, 2024 at 4:17 PM
The cerebral pathobiome...
www.theguardian.com/lifeandstyle...
www.theguardian.com/lifeandstyle...
December 12, 2024 at 11:04 PM
Pathogen and Gene Expression Profiles of Atlantic Salmon From an Endangered Population. Aquatic Conserv: Mar Freshw Ecosyst, 35: e70131. doi.org/10.1002/aqc....
Pathogen and Gene Expression Profiles of Atlantic Salmon From an Endangered Population
The role of pathogens in impacting the behaviour and fate of salmonids has been studied extensively for some selected pathogens such as sea lice. However, the whole pathobiome of the fish are seldom ...
doi.org
April 25, 2025 at 9:08 PM
Pathogen and Gene Expression Profiles of Atlantic Salmon From an Endangered Population. Aquatic Conserv: Mar Freshw Ecosyst, 35: e70131. doi.org/10.1002/aqc....
“Attempts to define ‘tipping points’ at which changes in microbiome composition definitively influence disease progression have so far largely failed to generate a clear consensus… is not yet evidence based to conclude that a pathobiome has a role in ‘most’ diseases.” www.nature.com/articles/s41...
Human microbiome myths and misconceptions - Nature Microbiology
Walker and Hoyles highlight selected myths and misconceptions in the human microbiota literature.
www.nature.com
September 17, 2023 at 3:59 PM
“Attempts to define ‘tipping points’ at which changes in microbiome composition definitively influence disease progression have so far largely failed to generate a clear consensus… is not yet evidence based to conclude that a pathobiome has a role in ‘most’ diseases.” www.nature.com/articles/s41...
The forest health crisis is urgent. Let’s invest in building a shared Forest Pathology experimental system. Like yeast for genetics or mice for medicine, forest pathology needs its model organism.
@NewPhyt article: doi.org/10.1111/nph....
#ForestHealth #PlantPathology #ModelOrganisms #Pathobiome
@NewPhyt article: doi.org/10.1111/nph....
#ForestHealth #PlantPathology #ModelOrganisms #Pathobiome
Advancing forest pathology: the need for community‐driven molecular experimental model systems
Forests world-wide are under escalating threat from emerging and invasive fungal and oomycete pathogens, driven by globalization and shifting climate dynamics. Effective strategies to manage the curr...
doi.org
June 16, 2025 at 11:05 AM
The forest health crisis is urgent. Let’s invest in building a shared Forest Pathology experimental system. Like yeast for genetics or mice for medicine, forest pathology needs its model organism.
@NewPhyt article: doi.org/10.1111/nph....
#ForestHealth #PlantPathology #ModelOrganisms #Pathobiome
@NewPhyt article: doi.org/10.1111/nph....
#ForestHealth #PlantPathology #ModelOrganisms #Pathobiome
🧪⚔️ When a fungal effector tries to coexist with plant apoplastic bacteria
My poster’s not up until Thursday, but you can already check it out on Zenodo 👀
📎 zenodo.org/records/1585...
🧾 Poster P-166, Thur 17th, 1:30 pm
#2025ISMPMI
My poster’s not up until Thursday, but you can already check it out on Zenodo 👀
📎 zenodo.org/records/1585...
🧾 Poster P-166, Thur 17th, 1:30 pm
#2025ISMPMI
The fungal effector AvrStb6 regulates the wheat pathobiome
Zymoseptoria tritici, the causal agent of the foliar disease Septoria tritici blotch (STB), is a major wheat pathogen in Europe. Although several wheat resistance (R) genes have been identified, Z. tr...
zenodo.org
July 14, 2025 at 2:39 PM
🧪⚔️ When a fungal effector tries to coexist with plant apoplastic bacteria
My poster’s not up until Thursday, but you can already check it out on Zenodo 👀
📎 zenodo.org/records/1585...
🧾 Poster P-166, Thur 17th, 1:30 pm
#2025ISMPMI
My poster’s not up until Thursday, but you can already check it out on Zenodo 👀
📎 zenodo.org/records/1585...
🧾 Poster P-166, Thur 17th, 1:30 pm
#2025ISMPMI
New paper! Working to better understand how white band disease works in staghorn corals by pretreating samples with antibiotics. doi.org/10.3389/fmar...
Frontiers | Antibiotic pretreatment inhibits white band disease infection by suppressing the bacterial pathobiome
ORIGINAL RESEARCH article
doi.org
February 21, 2025 at 8:11 PM
New paper! Working to better understand how white band disease works in staghorn corals by pretreating samples with antibiotics. doi.org/10.3389/fmar...
'Pathobiome Perspectives: Brain fog in chronic Lyme and long COVID'
'For countless individuals living with chronic Lyme disease and long COVID, brain fog isn’t just a fleeting symptom–it’s a daily reality that can disrupt memory, focus, and even identity.'
www.lymedisease.org/pathobiome-p...
'For countless individuals living with chronic Lyme disease and long COVID, brain fog isn’t just a fleeting symptom–it’s a daily reality that can disrupt memory, focus, and even identity.'
www.lymedisease.org/pathobiome-p...
PATHOBIOME PERSPECTIVES: Brain fog in chronic Lyme and long COVID | LymeDisease.org
Pathobiome Perspectives is an interview series exploring the role of infections in chronic neurological and psychiatric conditions—including Alzheimer’s,
www.lymedisease.org
November 12, 2025 at 2:05 AM
'Pathobiome Perspectives: Brain fog in chronic Lyme and long COVID'
'For countless individuals living with chronic Lyme disease and long COVID, brain fog isn’t just a fleeting symptom–it’s a daily reality that can disrupt memory, focus, and even identity.'
www.lymedisease.org/pathobiome-p...
'For countless individuals living with chronic Lyme disease and long COVID, brain fog isn’t just a fleeting symptom–it’s a daily reality that can disrupt memory, focus, and even identity.'
www.lymedisease.org/pathobiome-p...
Naudet et al. investigated the dynamics of the bacterial pathobiome and resistome associated with plastic aquaculture equipment in an aquaculture farm in the southwest Indian Ocean. Check out their results!
buff.ly/NXMZxk3
#FEMSMicrobiolEcol #ecology
buff.ly/NXMZxk3
#FEMSMicrobiolEcol #ecology
September 19, 2025 at 8:01 AM
Naudet et al. investigated the dynamics of the bacterial pathobiome and resistome associated with plastic aquaculture equipment in an aquaculture farm in the southwest Indian Ocean. Check out their results!
buff.ly/NXMZxk3
#FEMSMicrobiolEcol #ecology
buff.ly/NXMZxk3
#FEMSMicrobiolEcol #ecology
#Key_Concept
We demonstrate that the hyphosphere of Fusarium wilt Race 4 (FOV4) is not a neutral microbial niche but a pathobiome hotspot, overwhelmingly dominated by Pseudomonas. Our work reframes plant disease as an outcome of microbial partnerships between pathogens and their bacterial associates
We demonstrate that the hyphosphere of Fusarium wilt Race 4 (FOV4) is not a neutral microbial niche but a pathobiome hotspot, overwhelmingly dominated by Pseudomonas. Our work reframes plant disease as an outcome of microbial partnerships between pathogens and their bacterial associates
September 12, 2025 at 2:27 PM
#Key_Concept
We demonstrate that the hyphosphere of Fusarium wilt Race 4 (FOV4) is not a neutral microbial niche but a pathobiome hotspot, overwhelmingly dominated by Pseudomonas. Our work reframes plant disease as an outcome of microbial partnerships between pathogens and their bacterial associates
We demonstrate that the hyphosphere of Fusarium wilt Race 4 (FOV4) is not a neutral microbial niche but a pathobiome hotspot, overwhelmingly dominated by Pseudomonas. Our work reframes plant disease as an outcome of microbial partnerships between pathogens and their bacterial associates
New Publication Alert:
We are back with one more publication in our Fusarium pathobiome series, in #Frontiers_in_Microbiology.
We demonstrate the genetic potential and the growth effect of a stable core microbiome of Fusarium wilt.
Thanks to all the collaborators.
Read more;
doi.org/10.3389/fmic...
We are back with one more publication in our Fusarium pathobiome series, in #Frontiers_in_Microbiology.
We demonstrate the genetic potential and the growth effect of a stable core microbiome of Fusarium wilt.
Thanks to all the collaborators.
Read more;
doi.org/10.3389/fmic...
September 12, 2025 at 2:25 PM
New Publication Alert:
We are back with one more publication in our Fusarium pathobiome series, in #Frontiers_in_Microbiology.
We demonstrate the genetic potential and the growth effect of a stable core microbiome of Fusarium wilt.
Thanks to all the collaborators.
Read more;
doi.org/10.3389/fmic...
We are back with one more publication in our Fusarium pathobiome series, in #Frontiers_in_Microbiology.
We demonstrate the genetic potential and the growth effect of a stable core microbiome of Fusarium wilt.
Thanks to all the collaborators.
Read more;
doi.org/10.3389/fmic...
#Insights_Gained
Microbial dysbiosis often precedes visible disease symptoms, highlighting early warning signs within the microbiome.
Most importantly, we found that pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the broader dysbiosis community.
Microbial dysbiosis often precedes visible disease symptoms, highlighting early warning signs within the microbiome.
Most importantly, we found that pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the broader dysbiosis community.
August 29, 2025 at 4:48 PM
#Insights_Gained
Microbial dysbiosis often precedes visible disease symptoms, highlighting early warning signs within the microbiome.
Most importantly, we found that pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the broader dysbiosis community.
Microbial dysbiosis often precedes visible disease symptoms, highlighting early warning signs within the microbiome.
Most importantly, we found that pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the broader dysbiosis community.
#Our_Approach
We integrated microbiome analyses, disease ecology concepts, and pathobiome frameworks to analyze how microbial community dynamics influence the development of Fusarium wilt TR4.
We integrated microbiome analyses, disease ecology concepts, and pathobiome frameworks to analyze how microbial community dynamics influence the development of Fusarium wilt TR4.
August 29, 2025 at 4:47 PM
#Our_Approach
We integrated microbiome analyses, disease ecology concepts, and pathobiome frameworks to analyze how microbial community dynamics influence the development of Fusarium wilt TR4.
We integrated microbiome analyses, disease ecology concepts, and pathobiome frameworks to analyze how microbial community dynamics influence the development of Fusarium wilt TR4.
Key Concept Highlight
We distinguish between microbial dysbiosis and the pathobiome in the context of banana Fusarium wilt (TR4).
Understanding this distinction can reshape how we view plant health decline.
We distinguish between microbial dysbiosis and the pathobiome in the context of banana Fusarium wilt (TR4).
Understanding this distinction can reshape how we view plant health decline.
August 29, 2025 at 4:46 PM
Key Concept Highlight
We distinguish between microbial dysbiosis and the pathobiome in the context of banana Fusarium wilt (TR4).
Understanding this distinction can reshape how we view plant health decline.
We distinguish between microbial dysbiosis and the pathobiome in the context of banana Fusarium wilt (TR4).
Understanding this distinction can reshape how we view plant health decline.
Excited to share our latest publication!
“The Distinguished Microbiome: Differentiating Microbial Dysbiosis and the Pathobiome of Banana Fusarium Tropical Race 4”, is now published in Phytobiomes Journal.
Read the full article here: doi.org/10.1094/PBIO...
“The Distinguished Microbiome: Differentiating Microbial Dysbiosis and the Pathobiome of Banana Fusarium Tropical Race 4”, is now published in Phytobiomes Journal.
Read the full article here: doi.org/10.1094/PBIO...
August 29, 2025 at 4:45 PM
Excited to share our latest publication!
“The Distinguished Microbiome: Differentiating Microbial Dysbiosis and the Pathobiome of Banana Fusarium Tropical Race 4”, is now published in Phytobiomes Journal.
Read the full article here: doi.org/10.1094/PBIO...
“The Distinguished Microbiome: Differentiating Microbial Dysbiosis and the Pathobiome of Banana Fusarium Tropical Race 4”, is now published in Phytobiomes Journal.
Read the full article here: doi.org/10.1094/PBIO...
Alfalfa transcriptomic responses to the field pathobiome.
Read more #OpenAccess in our Journal #PlantBiology @Wileyplantsci #PlantSci
DOI: doi.org/10.1111/plb....
Read more #OpenAccess in our Journal #PlantBiology @Wileyplantsci #PlantSci
DOI: doi.org/10.1111/plb....
Alfalfa transcriptomic responses to the field pathobiome
A novel ‘field host genomics approach’ allowed identification of genes and pathways involved in alfalfa responses to a diverse field pathobiome.
doi.org
April 30, 2025 at 1:44 PM
Alfalfa transcriptomic responses to the field pathobiome.
Read more #OpenAccess in our Journal #PlantBiology @Wileyplantsci #PlantSci
DOI: doi.org/10.1111/plb....
Read more #OpenAccess in our Journal #PlantBiology @Wileyplantsci #PlantSci
DOI: doi.org/10.1111/plb....
What did we find:
- Microbial dysbiosis often precedes disease symptoms
- Certain beneficial bacteria decline before the pathogen becomes dominant
- More importantly, the pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the dysbiosis community
- Microbial dysbiosis often precedes disease symptoms
- Certain beneficial bacteria decline before the pathogen becomes dominant
- More importantly, the pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the dysbiosis community
July 13, 2025 at 3:56 PM
What did we find:
- Microbial dysbiosis often precedes disease symptoms
- Certain beneficial bacteria decline before the pathogen becomes dominant
- More importantly, the pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the dysbiosis community
- Microbial dysbiosis often precedes disease symptoms
- Certain beneficial bacteria decline before the pathogen becomes dominant
- More importantly, the pathobionts in the hyphosphere can be distinguished as a potentially distinct pathobiome within the dysbiosis community
Just Published!
Our latest research is now online in #PhytobiomesJounal @phytobiomesjournal.bsky.social : "Differentiating Microbial Dysbiosis and the Pathobiome of Banana" apsjournals.apsnet.org/doi/10.1094/...
Our latest research is now online in #PhytobiomesJounal @phytobiomesjournal.bsky.social : "Differentiating Microbial Dysbiosis and the Pathobiome of Banana" apsjournals.apsnet.org/doi/10.1094/...
The Distinguished Microbiome: Differentiating Microbial Dysbiosis and the Pathobiome of Banana Fusarium Tropical Race 4 | Phytobiomes Journal
Microbial interkingdom interactions are key to the successful infection of soil-borne pathogens, as pathogen success is not solely dependent on a susceptible host but also on a conducive microbiome. T...
apsjournals.apsnet.org
July 13, 2025 at 3:51 PM
Just Published!
Our latest research is now online in #PhytobiomesJounal @phytobiomesjournal.bsky.social : "Differentiating Microbial Dysbiosis and the Pathobiome of Banana" apsjournals.apsnet.org/doi/10.1094/...
Our latest research is now online in #PhytobiomesJounal @phytobiomesjournal.bsky.social : "Differentiating Microbial Dysbiosis and the Pathobiome of Banana" apsjournals.apsnet.org/doi/10.1094/...
Friends and foes in the obligate plant pathobiome
journals.plos.org/plospathogen...
journals.plos.org/plospathogen...
Friends and foes in the obligate plant pathobiome
journals.plos.org
December 14, 2025 at 6:05 AM
Friends and foes in the obligate plant pathobiome
journals.plos.org/plospathogen...
journals.plos.org/plospathogen...
New paper 🚨 Do pathogens predict salmon survival? In our recently published study on the Endangered Atlantic salmon, we combined acoustic telemetry with pathogen and gene expression profiles. Read the paper here
doi.org/10.1002/aqc....
#Salmosalar
#Telemetry
doi.org/10.1002/aqc....
#Salmosalar
#Telemetry
Pathogen and Gene Expression Profiles of Atlantic Salmon From an Endangered Population
The role of pathogens in impacting the behaviour and fate of salmonids has been studied extensively for some selected pathogens such as sea lice. However, the whole pathobiome of the fish are seldom ...
doi.org
July 28, 2025 at 2:05 PM
New paper 🚨 Do pathogens predict salmon survival? In our recently published study on the Endangered Atlantic salmon, we combined acoustic telemetry with pathogen and gene expression profiles. Read the paper here
doi.org/10.1002/aqc....
#Salmosalar
#Telemetry
doi.org/10.1002/aqc....
#Salmosalar
#Telemetry