Lu
@wangl5.bsky.social
Microbiology and bioinformatics
Bookmarking papers + recent events
Bookmarking papers + recent events
Reposted by Lu
Just a nice reminder! 🧪🧬🖥️ I found this GitHub very useful: github.com/cxli233/Frie...
GitHub - cxli233/FriendsDontLetFriends: Friends don't let friends make certain types of data visualization - What are they and why are they bad.
Friends don't let friends make certain types of data visualization - What are they and why are they bad. - GitHub - cxli233/FriendsDontLetFriends: Friends don't let friends make certain ty...
github.com
May 25, 2025 at 7:05 AM
Just a nice reminder! 🧪🧬🖥️ I found this GitHub very useful: github.com/cxli233/Frie...
Reposted by Lu
New online! Viromics approaches for the study of viral diversity and ecology in microbiomes
Viromics approaches for the study of viral diversity and ecology in microbiomes
Nature Reviews Genetics, Published online: 21 July 2025; doi:10.1038/s41576-025-00871-wIn this Review, Roux and Coclet outline current viromics approaches and discuss how they have contributed to our growing understanding of viral genomic diversity, focusing on uncultivated viruses of microorganisms.
www.nature.com
July 21, 2025 at 6:34 PM
New online! Viromics approaches for the study of viral diversity and ecology in microbiomes
Reposted by Lu
Bacteria can be selfish..."Selfish" bacterial uptake of polysaccharides minimizes release of smaller sugars into the environment, ensuring cells get a return on their enzymatic invest. This #JournalSpectrum paper outlines how to identify selfish bacteria: asm.social/2vh
July 17, 2025 at 3:38 PM
Bacteria can be selfish..."Selfish" bacterial uptake of polysaccharides minimizes release of smaller sugars into the environment, ensuring cells get a return on their enzymatic invest. This #JournalSpectrum paper outlines how to identify selfish bacteria: asm.social/2vh
Reposted by Lu
Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵
July 16, 2025 at 9:59 PM
Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵
Reposted by Lu
For anyone learning or teaching bioinformatics, or if you’re interested in getting started, you may like to check out some of many (>230!) integrated tutorials for the Galaxy bioinformatics platform at training.galaxyproject.org/training-mat...
November 18, 2024 at 12:31 PM
For anyone learning or teaching bioinformatics, or if you’re interested in getting started, you may like to check out some of many (>230!) integrated tutorials for the Galaxy bioinformatics platform at training.galaxyproject.org/training-mat...
Reposted by Lu
Very interesting paper to
Functions of Aerial Roots and their Rhizosphere
doi.org/10.1016/j.rh...
by @MeisamNazari91
#soil #Roots #rhizosphere #carbon #maize #microorganisms #biodiversity
Functions of Aerial Roots and their Rhizosphere
doi.org/10.1016/j.rh...
by @MeisamNazari91
#soil #Roots #rhizosphere #carbon #maize #microorganisms #biodiversity
July 9, 2025 at 7:38 AM
Very interesting paper to
Functions of Aerial Roots and their Rhizosphere
doi.org/10.1016/j.rh...
by @MeisamNazari91
#soil #Roots #rhizosphere #carbon #maize #microorganisms #biodiversity
Functions of Aerial Roots and their Rhizosphere
doi.org/10.1016/j.rh...
by @MeisamNazari91
#soil #Roots #rhizosphere #carbon #maize #microorganisms #biodiversity
Reposted by Lu
💥NEW in @SoilBiolBiochem 💥
Microbial metabolisms determine #soil priming effect induced by organic inputs
doi.org/10.1016/j.so...
50-day Free: authors.elsevier.com/c/1lP8w8g13f...
#SoilOrganicMatter #SoilOrganicCarbon #primingeffect #microbialbiomass #soilbacteria #13Clabeling #isotopes
Microbial metabolisms determine #soil priming effect induced by organic inputs
doi.org/10.1016/j.so...
50-day Free: authors.elsevier.com/c/1lP8w8g13f...
#SoilOrganicMatter #SoilOrganicCarbon #primingeffect #microbialbiomass #soilbacteria #13Clabeling #isotopes
July 9, 2025 at 11:57 AM
💥NEW in @SoilBiolBiochem 💥
Microbial metabolisms determine #soil priming effect induced by organic inputs
doi.org/10.1016/j.so...
50-day Free: authors.elsevier.com/c/1lP8w8g13f...
#SoilOrganicMatter #SoilOrganicCarbon #primingeffect #microbialbiomass #soilbacteria #13Clabeling #isotopes
Microbial metabolisms determine #soil priming effect induced by organic inputs
doi.org/10.1016/j.so...
50-day Free: authors.elsevier.com/c/1lP8w8g13f...
#SoilOrganicMatter #SoilOrganicCarbon #primingeffect #microbialbiomass #soilbacteria #13Clabeling #isotopes
Reposted by Lu
BREAKING: The Supreme Court, via the shadow docket, has greenlighted the DOGE mass firings.
From us at NIH:
The Supreme Court is an arm of Trump and Republican Party.
It is not a court, but a political body. And it must be disempowered if we want functional science in the US. 🧪
From us at NIH:
The Supreme Court is an arm of Trump and Republican Party.
It is not a court, but a political body. And it must be disempowered if we want functional science in the US. 🧪
Supreme Court clears the way for Trump's plans to downsize the federal workforce
The Supreme Court has cleared the way for President Donald Trump’s plans to downsize the federal workforce.
apnews.com
July 8, 2025 at 8:38 PM
BREAKING: The Supreme Court, via the shadow docket, has greenlighted the DOGE mass firings.
From us at NIH:
The Supreme Court is an arm of Trump and Republican Party.
It is not a court, but a political body. And it must be disempowered if we want functional science in the US. 🧪
From us at NIH:
The Supreme Court is an arm of Trump and Republican Party.
It is not a court, but a political body. And it must be disempowered if we want functional science in the US. 🧪
Reposted by Lu
🧪🔬🦠🧫🌍
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
Absolute quantification of prokaryotes in the microbiome by 16S rRNA qPCR or ddPCR - Nature Protocols
This protocol enables rigorous and reproducible quantification of prokaryotic concentration in stool samples by 16S rRNA qPCR or ddPCR.
www.nature.com
May 22, 2025 at 5:08 PM
🧪🔬🦠🧫🌍
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
Reposted by Lu
This is really excellent advice, and not just for academics. Please read and distribute widely! zenodo.org/records/1569...
The Anti-Autocracy Handbook: A Scholars' Guide to Navigating Democratic Backsliding
The Anti-Autocracy Handbook is a call to action, resilience, and collective defence of democracy, truth, and academic freedom in the face of mounting authoritarianism. It tries to provide guidance to ...
zenodo.org
July 4, 2025 at 8:45 PM
This is really excellent advice, and not just for academics. Please read and distribute widely! zenodo.org/records/1569...
Reposted by Lu
What is microbiome research and makes a good microbiome study? In their Editorial, the Senior Editors of Microbiome highlight the challenges of microbiome research and what they are looking for in submissions. microbiomejournal.biomedcentral.com/articles/10.... #worldmicrobiomeday
A blueprint for contemporary studies of microbiomes - Microbiome
This editorial piece co-authored by the Senior Editors at Microbiome aims to highlight current challenges in the field of environmental and host-associated microbiome research. We also take the opport...
microbiomejournal.biomedcentral.com
June 27, 2025 at 12:00 PM
What is microbiome research and makes a good microbiome study? In their Editorial, the Senior Editors of Microbiome highlight the challenges of microbiome research and what they are looking for in submissions. microbiomejournal.biomedcentral.com/articles/10.... #worldmicrobiomeday
Reposted by Lu
Completely unacceptable that EPA put on leave their employees who spoke up in defense of their agency's mission to protect public health. EPA officials are demonstrating their unwillingness to even engage with their own staff. www.nytimes.com/2025/07/03/c...
E.P.A. Suspends 144 Employees After They Signed a Letter Criticizing Trump
www.nytimes.com
July 3, 2025 at 9:49 PM
Completely unacceptable that EPA put on leave their employees who spoke up in defense of their agency's mission to protect public health. EPA officials are demonstrating their unwillingness to even engage with their own staff. www.nytimes.com/2025/07/03/c...
Reposted by Lu
An analysis of animal manure from 26 countries has identified global hotspots for antibiotic-resistance genes in livestock poo
https://go.nature.com/4eDLN6S
https://go.nature.com/4eDLN6S
Poo of farm animals teems with drug-resistance genes
A global map reveals the prevalence of thousands of genes that arm pathogens against antibiotics.
go.nature.com
July 4, 2025 at 11:54 AM
An analysis of animal manure from 26 countries has identified global hotspots for antibiotic-resistance genes in livestock poo
https://go.nature.com/4eDLN6S
https://go.nature.com/4eDLN6S