Clement Tsui PhD 🇭🇰 🇨🇦
@clementsui.bsky.social
- Prin Scientific Officer, NCID, Singapore
- Asst Prof @UBC Canada
- Asst Prof @NTU Singapore
- views are my own
- Editor, tea lover, hiker
#microbiology #mycology #evolutionarybiology #genomics #AMR
- Asst Prof @UBC Canada
- Asst Prof @NTU Singapore
- views are my own
- Editor, tea lover, hiker
#microbiology #mycology #evolutionarybiology #genomics #AMR
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
In this review in Fungal Ecology, Håvard Kauserud (@drhyfe.bsky.social) argues that while the ITS region is by far the best DNA (meta)barcoding marker for fungi, we should not use it naively or simplistically doi.org/10.1016/j.fu...
January 20, 2026 at 1:30 AM
In this review in Fungal Ecology, Håvard Kauserud (@drhyfe.bsky.social) argues that while the ITS region is by far the best DNA (meta)barcoding marker for fungi, we should not use it naively or simplistically doi.org/10.1016/j.fu...
Rolando, J.C., Thieme, A., Weckman, N.E. et al. Digital CRISPR-based diagnostics for quantification of Candida auris and resistance mutations. Nat. Biomed. Eng (2026). doi.org/10.1038/s415...
Digital CRISPR-based diagnostics for quantification of Candida auris and resistance mutations - Nature Biomedical Engineering
dSHERLOCK is a nucleic acid platform for the quantification of double-stranded DNA targets using CRISPR/Cas and isothermal amplification and is applied to quantify pathogen C. auris in clinical survei...
doi.org
January 18, 2026 at 6:31 AM
Rolando, J.C., Thieme, A., Weckman, N.E. et al. Digital CRISPR-based diagnostics for quantification of Candida auris and resistance mutations. Nat. Biomed. Eng (2026). doi.org/10.1038/s415...
Pathogen-inspired engineering of plant protease enhances late blight resistance | PNAS www.pnas.org/doi/10.1073/...
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
www.pnas.org
January 11, 2026 at 2:42 PM
Pathogen-inspired engineering of plant protease enhances late blight resistance | PNAS www.pnas.org/doi/10.1073/...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
#TansleyInsight: Evolutionary #genetics of alternative splicing in #plants
@peterinnes1.bsky.social, Nolan Kane & @chriscrsmith.bsky.social
👇
📖 nph.onlinelibrary.wiley.com/doi/10.1111/...
#LatestIssue
@peterinnes1.bsky.social, Nolan Kane & @chriscrsmith.bsky.social
👇
📖 nph.onlinelibrary.wiley.com/doi/10.1111/...
#LatestIssue
January 11, 2026 at 11:01 AM
#TansleyInsight: Evolutionary #genetics of alternative splicing in #plants
@peterinnes1.bsky.social, Nolan Kane & @chriscrsmith.bsky.social
👇
📖 nph.onlinelibrary.wiley.com/doi/10.1111/...
#LatestIssue
@peterinnes1.bsky.social, Nolan Kane & @chriscrsmith.bsky.social
👇
📖 nph.onlinelibrary.wiley.com/doi/10.1111/...
#LatestIssue
Tree bark microbes for climate management | Science www.science.org/doi/10.1126/...
Tree bark microbes for climate management
Microbes living in bark can process the greenhouse gases methane, hydrogen, and carbon monoxide
www.science.org
January 9, 2026 at 5:00 PM
Tree bark microbes for climate management | Science www.science.org/doi/10.1126/...
Genomic determinants of antibiotic resistance for Helicobacter pylori treatment: a retrospective phenotypic and genotypic observational study - The Lancet Microbe www.thelancet.com/journals/lan...
Genomic determinants of antibiotic resistance for Helicobacter pylori treatment: a retrospective phenotypic and genotypic observational study
Mutations in specific genes are reliable indicators to clarithromycin and levofloxacin
resistance in H pylori, making them useful markers for the development of diagnostic
assays and molecular monitor...
www.thelancet.com
January 7, 2026 at 1:03 PM
Genomic determinants of antibiotic resistance for Helicobacter pylori treatment: a retrospective phenotypic and genotypic observational study - The Lancet Microbe www.thelancet.com/journals/lan...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
📣 preprint alert!
We sampled #klebsiella isolates from💩 patients when they entered the hospital & 🩸 after development of infection.
🎯 We tracked phenotypic changes & correlate them w genotypic changes.
@klebclub.bsky.social
-in collab with Clermont-Ferrand lab
#microsky
🧵
doi.org/10.64898/202...
We sampled #klebsiella isolates from💩 patients when they entered the hospital & 🩸 after development of infection.
🎯 We tracked phenotypic changes & correlate them w genotypic changes.
@klebclub.bsky.social
-in collab with Clermont-Ferrand lab
#microsky
🧵
doi.org/10.64898/202...
Within-host evolution of Klebsiella spp. from intestinal carriage to bacteremia
Gut colonization by the Gram-negative bacillus Klebsiella pneumoniae is a significant risk factor for extra-intestinal infections. However, the mechanisms by which this opportunistic pathogen causes d...
doi.org
January 6, 2026 at 10:29 AM
📣 preprint alert!
We sampled #klebsiella isolates from💩 patients when they entered the hospital & 🩸 after development of infection.
🎯 We tracked phenotypic changes & correlate them w genotypic changes.
@klebclub.bsky.social
-in collab with Clermont-Ferrand lab
#microsky
🧵
doi.org/10.64898/202...
We sampled #klebsiella isolates from💩 patients when they entered the hospital & 🩸 after development of infection.
🎯 We tracked phenotypic changes & correlate them w genotypic changes.
@klebclub.bsky.social
-in collab with Clermont-Ferrand lab
#microsky
🧵
doi.org/10.64898/202...
Butyrolactol A enhances caspofungin efficacy via flippase inhibition in drug-resistant fungi: Cell www.cell.com/cell/fulltex...
Butyrolactol A enhances caspofungin efficacy via flippase inhibition in drug-resistant fungi
Chen et al. identify the natural product butyrolactol A as an inhibitor of the phospholipid
flippase Apt1-Cdc50, which it locks in a nonfunctional state. By disrupting membrane
homeostasis and enhanci...
www.cell.com
January 6, 2026 at 1:42 PM
Butyrolactol A enhances caspofungin efficacy via flippase inhibition in drug-resistant fungi: Cell www.cell.com/cell/fulltex...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Troubleshooting common errors in assemblies of long-read metagenomes www.nature.com/articles/s41... #jcampubs
Troubleshooting common errors in assemblies of long-read metagenomes - Nature Biotechnology
Long-read sequence assemblies from metagenomes contain frequent errors.
www.nature.com
January 2, 2026 at 8:30 PM
Troubleshooting common errors in assemblies of long-read metagenomes www.nature.com/articles/s41... #jcampubs
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
💾 any2fasta 0.8.1 is released!
The FASTA format is now 40 years old (Pearson & Lipman) and any2fasta makes it easy for your scripts and pipelines that accept FASTA to also accept other formats, even if compressed! eg. .gbk.gz
#bioinformatiocs #microbiology #genomcs
github.com/tseemann/any...
The FASTA format is now 40 years old (Pearson & Lipman) and any2fasta makes it easy for your scripts and pipelines that accept FASTA to also accept other formats, even if compressed! eg. .gbk.gz
#bioinformatiocs #microbiology #genomcs
github.com/tseemann/any...
Release Next time I'll try to be FASTA · tseemann/any2fasta
New features
Option -k is keep processing even when some inputs fail
option -g to include GBK version suffix
option s to strip desc from>id desc in ID lines
Support for PDB protein structure forma...
github.com
December 30, 2025 at 5:16 AM
💾 any2fasta 0.8.1 is released!
The FASTA format is now 40 years old (Pearson & Lipman) and any2fasta makes it easy for your scripts and pipelines that accept FASTA to also accept other formats, even if compressed! eg. .gbk.gz
#bioinformatiocs #microbiology #genomcs
github.com/tseemann/any...
The FASTA format is now 40 years old (Pearson & Lipman) and any2fasta makes it easy for your scripts and pipelines that accept FASTA to also accept other formats, even if compressed! eg. .gbk.gz
#bioinformatiocs #microbiology #genomcs
github.com/tseemann/any...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
It has a name now 😜
Many thanks to Ken for agreeing to put his good name to my...artwork. The image is in the public domain (CC 0), but citations to the linked documents are warmly welcomed.
✅ zenodo.org/records/1808...
✅ pubmed.ncbi.nlm.nih.gov/24452418/
Many thanks to Ken for agreeing to put his good name to my...artwork. The image is in the public domain (CC 0), but citations to the linked documents are warmly welcomed.
✅ zenodo.org/records/1808...
✅ pubmed.ncbi.nlm.nih.gov/24452418/
December 29, 2025 at 11:19 AM
It has a name now 😜
Many thanks to Ken for agreeing to put his good name to my...artwork. The image is in the public domain (CC 0), but citations to the linked documents are warmly welcomed.
✅ zenodo.org/records/1808...
✅ pubmed.ncbi.nlm.nih.gov/24452418/
Many thanks to Ken for agreeing to put his good name to my...artwork. The image is in the public domain (CC 0), but citations to the linked documents are warmly welcomed.
✅ zenodo.org/records/1808...
✅ pubmed.ncbi.nlm.nih.gov/24452418/
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
The changing roles of Escherichia coli www.nature.com/articles/s41... #jcampubs
The changing roles of Escherichia coli - Nature Microbiology
Richard Lenski traces the legacy of Escherichia coli and how science is evolving to use this model organism in new ways.
www.nature.com
December 24, 2025 at 9:23 PM
The changing roles of Escherichia coli www.nature.com/articles/s41... #jcampubs
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Antifungal susceptibility profile of clinically relevant species of the genus Sporothrix: establishment of Epidemiological Cutoff Values (ECVs) according to CLSI broth microdilution methodology https://www.biorxiv.org/content/10.64898/2025.12.19.695392v1
December 23, 2025 at 10:18 PM
Antifungal susceptibility profile of clinically relevant species of the genus Sporothrix: establishment of Epidemiological Cutoff Values (ECVs) according to CLSI broth microdilution methodology https://www.biorxiv.org/content/10.64898/2025.12.19.695392v1
#Candida auris skin tropism and antifungal #resistance are mediated by carbonic anhydrase Nce103. Nat Microbiol (2025). rdcu.be/eV1h7
Candida auris skin tropism and antifungal resistance are mediated by carbonic anhydrase Nce103
Nature Microbiology - Candida auris can scavenge carbon dioxide from microenvironments through Nce103 to sustain fitness when colonizing human skin.
rdcu.be
December 23, 2025 at 4:48 PM
#Candida auris skin tropism and antifungal #resistance are mediated by carbonic anhydrase Nce103. Nat Microbiol (2025). rdcu.be/eV1h7
long-term evolutionary potential of four yeast species and their hybrids in extreme temperature conditions url: academic.oup.com/evolut/artic...
The long-term evolutionary potential of four yeast species and their hybrids in extreme temperature conditions
Abstract. Accelerating climate change and extreme temperatures urge us to better understand the potential of populations to tolerate and adapt to thermal c
academic.oup.com
December 23, 2025 at 1:22 PM
long-term evolutionary potential of four yeast species and their hybrids in extreme temperature conditions url: academic.oup.com/evolut/artic...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
UnigeneFinder: An automated pipeline for gene calling from transcriptome assemblies without a reference genome
UnigeneFinder: An automated pipeline for gene calling from transcriptome assemblies without a reference genome
For most species in nature, transcriptome data is much more readily available than genome data. Without a reference genome, however, gene calling is cumbersome and inaccurate due to the high degree…
www.biorxiv.org
December 21, 2025 at 10:42 AM
UnigeneFinder: An automated pipeline for gene calling from transcriptome assemblies without a reference genome
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Checkout this article I found at PLOS: dx.plos.org/10.1371/jour...
Biased sampling driven by bacterial population structure confounds machine learning prediction of antimicrobial resistance
Machine learning methods have emerged as promising tools to predict antimicrobial resistance (AMR) and uncover resistance determinants from genomic data. This study shows that sampling biases driven b...
dx.plos.org
December 21, 2025 at 3:26 PM
Checkout this article I found at PLOS: dx.plos.org/10.1371/jour...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Mass abstract submissions in Medical education have led to inflated metrics, less meaningful research, and misaligned incentives for trainees and institutions.
jamanetwork.com/journals/jam...
jamanetwork.com/journals/jam...
December 19, 2025 at 1:46 AM
Mass abstract submissions in Medical education have led to inflated metrics, less meaningful research, and misaligned incentives for trainees and institutions.
jamanetwork.com/journals/jam...
jamanetwork.com/journals/jam...
Reposted by Clement Tsui PhD 🇭🇰 🇨🇦
Host and microbial defenses against fungal invaders in a fungus-farming termite
-in Insect Science from Itthayakorn Promputtha
with @kbodawatta.bsky.social @michaelpoulsenucph.bsky.social
Termites ➕ Bacillus/Burkholderia 🆚 Aspergillus/Trichoderma molds
onlinelibrary.wiley.com/doi/10.1111/...
-in Insect Science from Itthayakorn Promputtha
with @kbodawatta.bsky.social @michaelpoulsenucph.bsky.social
Termites ➕ Bacillus/Burkholderia 🆚 Aspergillus/Trichoderma molds
onlinelibrary.wiley.com/doi/10.1111/...
Host and microbial defenses against fungal invaders in a fungus‐farming termite
Termites detect and selectively respond to the presence of weedy fungi, and burying behavior is more pronounced in the presence of Termitomyces (crop fungi), suggesting a context-dependent perception...
onlinelibrary.wiley.com
December 18, 2025 at 11:58 AM
Host and microbial defenses against fungal invaders in a fungus-farming termite
-in Insect Science from Itthayakorn Promputtha
with @kbodawatta.bsky.social @michaelpoulsenucph.bsky.social
Termites ➕ Bacillus/Burkholderia 🆚 Aspergillus/Trichoderma molds
onlinelibrary.wiley.com/doi/10.1111/...
-in Insect Science from Itthayakorn Promputtha
with @kbodawatta.bsky.social @michaelpoulsenucph.bsky.social
Termites ➕ Bacillus/Burkholderia 🆚 Aspergillus/Trichoderma molds
onlinelibrary.wiley.com/doi/10.1111/...
Checkout this article I found at PLOS: dx.plos.org/10.1371/jour...
Friends and foes in the obligate plant pathobiome
dx.plos.org
December 19, 2025 at 6:29 AM
Checkout this article I found at PLOS: dx.plos.org/10.1371/jour...