#microsky🧪🦠💻🧬
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rhystwhite.bsky.social
Genomics isn’t just solving #Outbreaks, it’s stopping them before they escalate

HOT take from @natrevmicro.nature.com: If you only sequence #MDR outbreaks, you’re already late. Consider susceptible strains & #Plasmids

#GenomicSurveillance #InfectionControl

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#AcademicSky
#MicroSky
#IDSky
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November 11, 2025 at 10:27 AM
dzunkovam.bsky.social
I'm grateful to be part of Data Reuse Consortium contributing to the paper "A roadmap for equitable reuse of public microbiome data" published in Nature Microbiology @natmicrobiol.nature.com. It proposes solutions for the data recycling🧵⬇️
www.nature.com/articles/s41...
#microsky 🧪🦠💻🧬👩‍🔬
@i2sysbio.es
A roadmap for equitable reuse of public microbiome data - Nature Microbiology
In this Consensus Statement, a consortium of microbiome scientists discuss current sequencing data sharing policies and propose the use of a Data Reuse Information (DRI) tag to promote equitable and collaborative data sharing.
www.nature.com
September 29, 2025 at 10:56 AM
rhystwhite.bsky.social
Where else is ST1 hiding?

We need to start thinking about environmental & farm worker sampling to map the spread & persistence of ST1

#AMR #Genomics #OneHealth #Staphylococcus #Biosecurity #NZ

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#AcademicSky
#MicroSky
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September 29, 2025 at 8:42 AM
rhystwhite.bsky.social
Timeline analyses show ST1 evolving differently in people & cows

To stay ahead of emerging lineages & resistance, we need a #OneHealth lens linking human, animal, & environmental data 🌍

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#AcademicSky
#MicroSky
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September 29, 2025 at 8:42 AM
rhystwhite.bsky.social
We expected human & bovine derived ST1 to be genomically ‘similar’

Instead we found:

🔹 Human derived ST1 = more antibiotic resistance genes #AMR

🔹 Bovine derived ST1 = a unique host-specific prophage (φSabovST1) carrying bovine leukocidins

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#AcademicSky
#MicroSky
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September 29, 2025 at 8:42 AM
rhystwhite.bsky.social
Globally, bovine S. aureus usually belong to ST97/ST151

But in NZ 🇳🇿, ST1 dominates in humans & cattle

This unusual overlap raises big questions about possible cross-species #transmission & #evolution

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#AcademicSky
#MicroSky
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September 29, 2025 at 8:42 AM
rhystwhite.bsky.social
🚨New paper out!

Why does Staphylococcus aureus ST1 dominate in BOTH people🧑‍⚕️ & cows🐄 in New Zealand… but rarely elsewhere?

Our latest comparative genomics study unpacks this mystery👇

📄 doi.org/10.1128/msph...

@asm.org

#AMR #Genomics #OneHealth

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#AcademicSky
#MicroSky
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Comparative genomics of endemic Staphylococcus aureus ST1 in New Zealand | mSphere
This study presents a comprehensive genomic analysis of S. aureus ST1, a lineage that is unusually dominant in both bovine and human populations in New Zealand. Leveraging New Zealand’s geographical i...
doi.org
September 29, 2025 at 8:42 AM
rhystwhite.bsky.social
🚨Call for abstracts

#OneHealth Aotearoa Symposium 2025

📍Wellington + online
🗓️2–3 Dec 2025

Submit an abstract by 30 Sept

Themes: #AMR, #Zoonoses, #HealthEquity, #TeAoMāori, #ClimateHealth & more

More info👉 onehealth.org.nz/one-health-a...

📩one.health@otago.ac.nz

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#AcademicSky
#MicroSky
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One Health Aotearoa Symposium 2025 - One Health Aotearoa
Our 11th annual symposium will be held on 2-3 December 2025 at the University of Otago, Wellington campus and online. Registrations will open soon! Venue Information Nordmeyer Lecture Theatre – Univer...
onehealth.org.nz
September 11, 2025 at 7:51 AM
rhystwhite.bsky.social
New Zealand’s prescribing habits likely helped create a homegrown #MRSA 🇳🇿🧬💊

Now ‘AK3’ has been detected overseas

Our recent study shows how it evolved & how #Genomics can help reduce the impact of the next ‘superbug’

#AMR is an issue for everyone
#SciComm

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#AcademicSky
#MicroSky
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aunz.theconversation.com The Conversation AUNZ @aunz.theconversation.com · Aug 18
Over-subscription of a topical antibiotic likely led to the emergence of a superbug which is now the leading cause of resistant infections.
Antibiotic use likely fuelled the rise of a ‘superbug’ in NZ – genomics offers a defence against the next threat
theconversation.com
August 18, 2025 at 3:01 AM
rhystwhite.bsky.social
💥How New Zealand's previous 'go-to' #Antibiotic fuelled the rise of a home-grown #MRSA superbug

By the 2010s, AK3 took the lead as NZ’s top #MRSA strain, fuelled by years of high fusidic acid use
#AntibioticResistance #PublicHealth

doi.org/10.1099/mgen...

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#AcademicSky
#MicroSky
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20 years later: unravelling the genomic success of New Zealand’s home-grown AK3 community-associated methicillin-resistant Staphylococcus aureus
Methicillin-resistant Staphylococcus aureus (MRSA) represents a significant public health challenge. In New Zealand, the community-associated MRSA sequence type (ST)5, carrying the staphylococcal cass...
doi.org
August 12, 2025 at 4:59 AM
rhystwhite.bsky.social
Sequence read data has been submitted to the NCBI Sequence Read Archive (SRA) under BioProject numbers PRJNA1102395 & PRJNA1097666 (we welcome others to use them)

GenBank accessions CP175691–7

Finally, thanks to all our amazing collaborators! 👏

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#AcademicSky
#MicroSky
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July 11, 2025 at 2:52 AM
rhystwhite.bsky.social
#PublicHealth action worked:
🧼Hygiene issues were fixed
✅No further cases linked to the site

Genomic sequencing helped:
✔️Trace the outbreak to a single introduction
✔️Understand how it spread

#CPE isn’t just a hospital problem - it’s a community threat, but solvable

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#AcademicSky
#MicroSky
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July 11, 2025 at 2:52 AM
rhystwhite.bsky.social
A common link kept coming up: a ready-to-eat food venue, Premises A

Environmental testing found OXA-48 #Ecoli from food handlers, some had no symptoms
One had travelled to SE Asia in 2017

The strain likely entered NZ once, then spread locally
#PublicHealth #Outbreak

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#AcademicSky
#MicroSky
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July 11, 2025 at 2:52 AM
rhystwhite.bsky.social
🧵The team used #genomics to reveal community spread of #AntimicrobialResistant bacteria in New Zealand

A carbapenemase-producing E. coli was spreading
Not in hospitals, in the community

We used whole-genome sequencing to investigate & start to learn what happened

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#AcademicSky
#MicroSky
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July 11, 2025 at 2:52 AM
rhystwhite.bsky.social
Out & #OpenAccess

📌Community outbreak of OXA-48–producing Escherichia coli linked to food premises, New Zealand, 2018-2022

doi.org/10.3201/eid3...

Thanks to folks across NZ who helped investigate & respond
#AMR #PublicHealth #Genomics #Epidemiology #Scicomm
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#AcademicSky
#MicroSky
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Community Outbreak of OXA-48–Producing <em>Escherichia coli</em> Linked to Food Premises, New Zealand, 2018–2022
Outbreak of OXA-48–Producing <em>E. coli</em>, New Zealand
doi.org
July 11, 2025 at 2:52 AM
evaheinz7.bsky.social
Looking for friends of the wonderful world of microbial eukaryote genomics! One-day @microbiologysociety.org conference in Glasgow; friendly environment especially for students/ECRs to present 😊 fungi or protist, friend or foe, all welcome 🧬💻 🧪🦠 #MicroSky

microbiologysociety.org/event/full-e...
Microbial Genomics of Eukaryotes
microbiologysociety.org
June 17, 2025 at 10:34 AM
rhystwhite.bsky.social
One patient, two samples

Weeks apart, E. faecium picked up vancomycin resistance

By sequencing vancomycin-susceptible strains on-site, we caught this early & avoided unnecessary, disruptive interventions #Genomics

Proud to share at #nanoporeconf!
@nanoporetech.com

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#AcademicSky
#MicroSky
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May 21, 2025 at 5:27 AM
dzunkovam.bsky.social
I'm excited to speak at the Pint of Science outreach event about our research on microbial dark matter! 🗓️ 21st of May at 19:00 at Max Max pub in Valencia 🇪🇸
#pintofscience #science #microsky 🧬💻🦠🧪👩‍🔬
May 14, 2025 at 7:32 PM
rhystwhite.bsky.social
Attending #ESCMIDGlobal & curious about community-associated CPE?
Craig Thornley is presenting today on a prolonged OXA-48-producing E. coli cluster in New Zealand, with genomic evidence supporting community & hospital transmission. See poster E0434 #ESCMIDGlobal2025

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#AcademicSky
#MicroSky
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April 13, 2025 at 10:36 AM
i2sysbio.es
By mining GISAID, researchers from I2SysBio uncover sequencing artifacts in SARS-CoV-2. Many repair mutations in the spike protein were due to errors in data processing. #covid19 #viruses #microsky🧪🦠💻🧬 More info: www.i2sysbio.es/communicatio... ⬇️
April 3, 2025 at 8:35 AM
i2sysbio.es
Manuel Ares Arroyo @aresarroyom.bsky.social from the Institut Pasteur in Paris @pasteur.fr visited our institute I2SysBio today. We enjoyed his talk about new perspectives in plasmid mobility and evolution #microsky 🧪🦠💻🧬
April 1, 2025 at 7:52 PM
rhystwhite.bsky.social
Hospital infections are a problem & 'go-to' methods have limits. We trailed @nanoporetech.com in outbreak detection & response

📌Implementing nanopore sequencing in a clinical laboratory: a social systems case study | NZ J Med Lab Sci

issuu.com/sharontozer/...

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#AcademicSky
#MicroSky
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NZJMLS V.79 N0. 1 March 2025
New Zealand Journal of Medical Laboratory Science. Volume 79, Number 1, March 2025
issuu.com
March 6, 2025 at 8:50 AM
rhystwhite.bsky.social
📌The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory |@medrxivpreprint

See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays

doi.org/10.1101/2025...

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#AcademicSky
#MicroSky
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The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory
Many hospital laboratories have technical capacity to perform whole-genome sequencing but lack bioinformatic expertise to analyse sequence data. Sending isolates to reference laboratories creates dela...
doi.org
February 13, 2025 at 9:30 PM
rhystwhite.bsky.social
K. variicola can be misID as K. pneumoniae. Our #OpenAccess paper reports an NICU #Outbreak

📌The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing

doi.org/10.1186/s137...

@nanoporetech.com

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#AcademicSky
#Microsky
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The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing - Antimicrobial Resistance & Infection Control
Background Klebsiella variicola has been implicated in neonatal intensive care unit (NICU) outbreaks previously and can be misidentified as Klebsiella pneumoniae. An increased incidence of K. pneumoni...
doi.org
February 11, 2025 at 3:13 AM
evaheinz7.bsky.social
Trying to focus on something positive for a second; outstanding work finally seeing the light of bioRXiv; #mosquito #microbiome #ZIKV interactions; after ~7(?) years' work, this really complex manuscript is finally here! #MicroSky #MicrobiomeSky 💻🧬 🧪 TLDR; The #holobiont diversity strikes again 😊🦟🦠
February 7, 2025 at 10:24 AM