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Jessica Calland

@jesscalland.bsky.social

Microbial genomics post-doc with the Corander lab at Oslo Centre for Biostatistics and Epidemiology, University of Oslo & Oslo University Hospital

4 Posts156 Follower156 Folgt
Josie Bryant@josiebryant.bsky.social · 8mo ago

Really pleased to share the first paper to come out of the lab. We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung. The phylogenies indicate that the clones moved from lung->gut www.nature.com/articles/s41...

High frequency body site translocation of nosocomial Pseudomonas aeruginosa - Nature Communications

Here, the authors report within-host diversity and body site translocation dynamics in hospital samples of Pseudomonas aeruginosa and reveal that body site sharing was likely due to within-patient tra...

nature.com

Tommi Mäklin@themaklin.bsky.social · 9mo ago

New preprint: we looked into production of the bacterial toxin colibactin and found that MDR E. coli from the global north have co-evolved with endemic colibactin producers, acquiring colibactin resistance genes before undergoing clonal expansions. www.biorxiv.org/content/10.1...

Co-evolution between colibactin production and resistance is linked to clonal expansions in Escherichia coli

Specific strains of Escherichia coli employ the polyketide synthase island to produce a metabolite called colibactin that is implicated in colorectal tumorigenesis via its genotoxic effect on human DN...

biorxiv.org

Guillaume Méric@gmeric.bsky.social · 9mo ago

New PhD position in my lab at @uniofbath.bsky.social (with both @tweethinking.bsky.social & Dr Bethan Littleford-Colquhoun)! We're looking for someone keen on bioinformatics and microbiome evolution. Important info below on eligibility & URSA competition funding👇 www.findaphd.com/phds/project...

The overlapping microbiome: ecology, function and resilience beyond species boundaries at University of Bath on FindAPhD.com

PhD Project - The overlapping microbiome: ecology, function and resilience beyond species boundaries at University of Bath, listed on FindAPhD.com

findaphd.com

Wellcome Sanger Institute@sangerinstitute.bsky.social · 9mo ago

E. coli can spread as quickly as swine flu, new research reveals. 🦠 For the first time, scientists can predict the rate at which gut bacteria pass between people — a major step towards tackling antibiotic-resistant infections. Read here ⤵️ sanger.ac.uk/news_item/ad...

Advanced disease modelling shows some gut bacteria can spread as rapidly as viruses

Experts can now predict the transmission rate of a bacterial E. coli infection in the same way as they can for viral pandemics, which can help battling treatment-resistant infections in the future.

sanger.ac.uk

Jessica Calland@jesscalland.bsky.social · last yr.

Overjoyed to have received one of the FRIPRO Young Talent grants from the Norwegian research council to investigate the effects of hospitalisation on Klebsiella colonisation! 🎉🥳 www.med.uio.no/imb/om/aktue...

Tildelt ti millioner for å forske på Klebsiella - Institutt for medisinske basalfag

Bakterien Klebsiella kan gi lungebetennelse og blodforgiftning, og mange får den mens de er innlagt på sykehus. Nå får Jessica Calland ti millioner fra NFRs FRIPRO for å forske på den lumske bakterien...

med.uio.no

Manuela Zucknick@manuelazucknick.bsky.social · last yr.

Congratulations to our own fantastic Jessica Calland @ocbe.bsky.social for receiving the prestigious FRIPRO Young Talents grant from the Norwegian Research Council! 🎉 She will continue her work identifying drivers of Klebsiella colonisation in critically ill patients. www.med.uio.no/imb/om/aktue...

Tildelt ti millioner for å forske på Klebsiella - Institutt for medisinske basalfag

Bakterien Klebsiella kan gi lungebetennelse og blodforgiftning, og mange får den mens de er innlagt på sykehus. Nå får Jessica Calland ti millioner fra NFRs FRIPRO for å forske på den lumske bakterien...

med.uio.no

Tommi Mäklin@themaklin.bsky.social · last yr.

New preprint: we used k-mer matching with suffix match length information to create an assembly-to-assembly alignment algorithm + software, kbo. We wanted to create a reference-based aligner and variant caller that scales to at least 10-100k bacterial queries. www.biorxiv.org/content/10.1...

Sequence alignment with k-bounded matching statistics

Finding high-quality local alignments between a query sequence and sequences contained in a large genomic database is a fundamental problem in computational genomics, at the core of thousands of biolo...

biorxiv.org

Marit Hetland@genomarit.bsky.social · last yr.

🦠Happy to share that our paper studying >3000 Klebsiella pneumoniae genomes in a #OneHealth perspective is now published in Genome Medicine! #MicroSky 🎉 @irenlohr.bsky.social @katholt.bsky.social genomemedicine.biomedcentral.com/articles/10....

A genome-wide One Health study of Klebsiella pneumoniae in Norway reveals overlapping populations but few recent transmission events across reservoirs - Genome Medicine

Background Members of the Klebsiella pneumoniae species complex (KpSC) are opportunistic pathogens that cause severe and difficult-to-treat infections. KpSC are common in non-human niches, but the cli...

genomemedicine.biomedcentral.com

Rebecca A. Gladstone@becctococcus.bsky.social · last yr.

Being able to data plasmid acquisition, and to see the diversity of plasmids being gained and lost from lineages, was really eye opening! It was a pleasure to contribute my tiny bit to this huge paper and the data has so much more to give! @arredondo.bsky.social @gerrythill.bsky.social et al.

Wellcome Sanger Institute@sangerinstitute.bsky.social · last yr.

Read ‘Plasmid-driven strategies for clone success in Escherichia coli.’ From @sangerinstitute.bsky.social @uitnorgesarktiske.bsky.social, the University of Oslo, and others, in @naturecomms.bsky.social, here ⤵️ www.nature.com/articles/s41...

Torsten Seemann@torstenseemann.bsky.social · last yr.

🦘✂️ Thanks to @cziscience.bsky.social , @wytamma.bsky.social and I are writing the next version of the Snippy bacterial variant calling pipeline. We want your input on what features s it will have. Please fill out this (longish) survey to help make Snippy great again! forms.gle/YJP6WQjsk8KK...

Snippy: Microbial Variant Calling Community Survey

Help us drive the next wave of innovation in Single-Nucleotide Polymorphism (SNP) discovery and genome analysis by sharing your valuable experiences and insights. This in-depth survey aims at understa...

forms.gle

Jai Mehat@jaimehat.bsky.social · 2y ago

🚨An exciting #PhD opportunity in my group🧫 @UniSurreyBioSci with Linda Oyama @QUB to work on #phage modulation of the poultry #microbiome and suppressing AMR. Closing date for applications is 3rd Feb Apply here: tinyurl.com/y57huecd Please share!! #MicroSky #PhDSky #AcademicSky Details🔽

PhD Opportunities - FoodBioSystems

Four-year funded PhD projects are available in areas that span the food chain from farm to fork. Closing date: 3 February 2024 (10:00 GMT)

tinyurl.com

Jon Michael Gran@jmgran.bsky.social · 2y ago

Want to do a postdoc in Oslo? We're seeking candidates for a four year postdoc position in causal inference/time-to-event analysis. Application deadline is January 31. See below for more information and feel free to take contact if you have any questions! www.jobbnorge.no/en/available...

Four year postdoc position at the Oslo Centre for Biostatistics and Epidemiology (OCBE) (272144) | University of Oslo

Job title: Four year postdoc position at the Oslo Centre for Biostatistics and Epidemiology (OCBE) (272144), Employer: University of Oslo, Deadline: Friday, January 31, 2025

jobbnorge.no

Rebecca A. Gladstone@becctococcus.bsky.social · 2y ago

How invasive are different E .coli capsules and how many are there? Find out here and use the group 2 and 3 database to type your own! medrxiv.org/cgi/content/...

Group 2 and 3 ABC-transporter dependant capsular K-loci contribute significantly to variation in the invasive potential of Escherichia coli

The major opportunistic pathogen Escherichia coli is the largest cause of antimicrobial resistance (AMR) associated infections and deaths globally. Considerable antigenic diversity has been documented...

medrxiv.org

Dr. Amy Lee@minisciencegirl.bsky.social · 2y ago

Every year, >200K newborns die from sepsis. Our team used machine learning to develop a set of genes that can predict neonatal sepsis risk using at birth blood samples. www.thelancet.com/journals/ebi...

Predictive gene expression signature diagnoses neonatal sepsis before clinical presentation

Despite appearing healthy at birth, neonates who later developed EOS already had distinct whole blood gene expression changes at birth, which enabled the development of a 4-gene predictive signature f...

thelancet.com

Tommi Mäklin@themaklin.bsky.social · 2y ago

New tool from me: I wrote a local aligner that can do approximate reference-based alignment and find genes in a query microbial genome, without a separate indexing step or any temporary disk space usage. Written fully in Rust and there will be a browser version out later: github.com/tmaklin/kbo 1/3

GitHub - tmaklin/kbo: Spectral Burrows-Wheeler transform accelerated local alignment search.

Spectral Burrows-Wheeler transform accelerated local alignment search. - tmaklin/kbo

github.com

Tommi Mäklin@themaklin.bsky.social · 2y ago

New paper: we deep sequenced E. coli within-host diversity in ~900 people in Pakistan, and found massive diversity in E. coli from lineages that are somewhat uncommon in Europe 1/5 www.nature.com/articles/s41...

Deep sequencing of Escherichia coli exposes colonisation diversity and impact of antibiotics in Punjab, Pakistan - Nature Communications

E coli is an important cause of infection globally but there is limited understanding of the genetic diversity of strains circulating in South Asia. Here, the authors characterise strains in Punjab pr...

nature.com

Jesse Shapiro@bjesseshapiro.bsky.social · 2y ago

Now published: "Phage predation, disease severity, and pathogen genetic diversity in cholera patients" www.science.org/doi/10.1126/... Check out the podcast to hear co-senior author Eric Nelson talk about the twists and turns of our study (around 18:25): www.science.org/content/podc...

Phage predation, disease severity, and pathogen genetic diversity in cholera patients

Despite an increasingly detailed picture of the molecular mechanisms of bacteriophage (phage)–bacterial interactions, we lack an understanding of how these interactions evolve and impact disease withi...

science.org

Jesse Shapiro@bjesseshapiro.bsky.social · 3y ago

Revised preprint: Phage predation is a biomarker for disease severity and shapes pathogen genetic diversity in cholera patients. To support major conclusions, we repeated key analyses using qPCR instead of metagenomics to quantify phage ICP1 and V. cholerae www.biorxiv.org/content/10.1...

Mild dehydration in cholera patients is associated with a higher ratio of phage ICP1 to V. cholerae. In the absence of ICE-encoded resistance, phage select for nonsynonymous point mutations in the Vc genome. In contrast, severe dehydration is associated with a lower ICP:Vc ratio. Vc encoding ICE-based phage defences select for nonsynonymous points mutations in ICP1.