🤯 Manual MAG refinement? Still doing it by hand??
We’ve been there... You could just leave those messy, ill-assigned contigs/scaffolds in your data for NCBI to pick up during your submission…
…OR you could add itBins, our new automated MAG refiner by @jmk-ude.bsky.social, to your pipeline!! 🔥
@alexjprobst.bsky.social look at this, we’re drilling over here!! 🥳
Want to profile microbial communities, but your reference database is weak?
Take a look at SGenerator, our LSTM-based approach for generating full-length 16S rRNA sequences for underrepresented genera.
doi.org/10.1093/isme...
#Bioinformatics #MicrobialEcology #MachineLearning
The Probst Lab
The Probst Lab
Our own @alexjprobst.bsky.social @geomicrosoares.bsky.social and Cristina Moraru have recently authored a @natmicrobiol.nature.com Consensus Statement where they discuss new mechanisms for sequencing data reuse! 🧬💻
Check out their manuscript here:
www.nature.com/articles/s41...
New paper alert with @alexjprobst.bsky.social.
enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...
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
The rapid evolution of microbiology as a field of research has led to the introduction of new terminology and the adaptation of existing terms. However, inconsistencies in the use of these terms, inc...
📢 🦠 A new methanotroph from Czech peat! Through an effort led by PhD student in my group Justus Nweze we isolated and describe a new CH4-muncher. Potential for a flexible (annaerobic) metabolisms and cool pH adaptations.
www.biorxiv.org/content/10.1...
#microbesky #microbiomesky
Our article on equitable reuse of public sequencing data is out! Led by @alexjprobst.bsky.social, @lhug.bsky.social, Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and myself -, co-authored by Anke Heyder, and developed in consultation with 167 scientists. tinyurl.com/n6yeanmk
New article on equitable reuse of public sequencing data, published in @natmicrobiol.nature.com!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!
Anne Daebeler
Methanotrophic bacteria in peatlands mitigate emissions of methane (CH4), a potent greenhouse gas. Yet, the identity, physiology, and adaptive traits of methanotrophs inhabiting acidic peatlands are s...
Daten sind zum Teilen da: Alexander Probst von der Universität Duisburg-Essen und Kolleg:innen haben ein Konzept für die faire Nachnutzung öffentlicher Mikrobiom-Sequenzdaten entwickelt. Larissa Tetsch hat mehr dazu 👉 www.laborjournal.de/editorials/3...
@alexjprobst.bsky.social @unidue.bsky.social
Exciting collaboration with colleagues from the US and Frederik de Laender - lead by S. Rumschlag and Mike Mahon - on how climate change has lead to alterations in US fish diversity over the last decades. Paper just out: www.nature.com/articles/s41...
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.
In the past three decades, fish abundance, richness and uniqueness have diverged across cold and warm streams, and the effects on native fish communities of stream warming and increases in introduced fishes have magnified each other.
