Lei Liu

It is exciting to be here using only @nanopore long reads to recover complete and high-quality genomes from mock and complex environmental samples. Check out our new manuscript @MicrobiomeJ microbiomejournal.biomedcentral.com/articles/10.11…

Strainy is finally out! It enables assembly of individual strains from ONT and Pacbio metagenomes. The secret ingredient is multi-allelic phasing algorithm that does not make assumptions about number and abundance of haplotypes. Unpaywalled link - rdcu.be/dVakX

Excited to see our paper on a new #comammox physiology published today in the print issue of Nature. Efforts to isolate new comammox strains with guanidine already on the way. nature.com/articles/s4158…

I am very happy to report that the review @BanfieldJill and I wrote on Modern Microbiology just appeared in @CellPressNews: cell.com/cell/abstract/… Our celebration of microbiology also made it to the cover of this issue and we hope you will find yourself in it, too.

My favourite discovery ever has just come online. Can I please tell you about some seriously wacky molecular biology? The story starts with a reverse transcriptase that SOMEHOW defends bacteria from viruses. (👇 I recommend sound ON for the video 🎹) 1/

🎉My first first-author paper is out! We found which wastewater microbes are the true hard workers, and how immigration and geography together play a big role - even in tiny Denmark! 🦠💪 More regional studies are needed to uncover the real real MVPs! link.springer.com/article/10.118…

Looking forward to present my work on the sewer microbiome this Thursday afternoon! #ISME19

My poster might be down, but I’m still at #ISME19! Let’s talk about how geography and immigration influence our wastewater treatment microbes and how we can recover more resources. 🌍💧♻️ @midasguide @PHNLab

Our Viperin evolution paper is now on @NatureEcoEvo - This inspirational collaboration with the fabulous @HelenaShomar & @MDMlab_Paris explored how a structurally conserved immune gene diversify in function across the archaea-eukaryote tree of life. nature.com/articles/s4155…

Our massive project "Microflora Danica: the atlas of Danish environmental microbiomes" is online! 5 years ago @PerHNielsen and I started the project of our dreams! To reveal the microbes of an entire country! But, why? 🧵Read on 1/ biorxiv.org/content/10.110…

We traced #photosynthesis deep into the history of #Bacteria & #Earth! Vertical #evolution in Terrabacteria, a non-O2-generating origin, later rise of O2 generation and even later Cyanobacteria, & more. On PNAS w @thermo_microbes @tsuka_pennstate @PNASNews pnas.org/doi/10.1073/pn…

AMPSphere published in @CellCellPress. A thread on the main results We obtain nearly 1 million novel antimicrobial peptides from the global microbiome! In vitro testing showed that at least 79/100 are true positives

Third REThiNk workshop successfully completed at @tudelft. Great discussions on new exciting applications of biopolymers from wastewater!

What toilets can reveal about COVID, cancer and other health threats. Prof. Tong Zhang @zhangt1968 from University of Hong Kong (HKU), and his colleagues were pioneers of what was fast becoming a popular surveillance method tracking wastewater. nature.com/articles/d4158…

I'm thrilled that "Nanomotif" is live! While its a short read - it was a journey of 3 years - and hopefully sparks a decade of exploitation! Why am I so excited by Identification and Exploitation of DNA Methylation Motifs in Metagenomes using Nanopore? doi.org/10.1101/2024.0… 1/

🇩🇰 I anledningen af H.M. Dronning Margrethes fødselsdag ser vi tilbage på sidste uges overrækkelse af #Videnskabsprisen til @MadsAlbertsen85. Prisen blev overrakt af H.M. Dronning Margrethe her i @VSelskab d. 10. april. Stort #tillykke (nu til begge!) 📲 royalacademy.dk/da/Aktuelt/Dro…

Xiaowen's (@0xfxfxf) new paper uses 16S in reads and k-mers to answer how much a metagenome assembly captures the species and sequence content in a sample. We found abundant species are not always assembled and proposed a heuristic to rescue some of them. genomebiology.biomedcentral.com/articles/10.11…

Exciting news! MiDAS taxonomy (v5.3) is out now! You can download it from midasfieldguide.org/guide/downloads. In this latest update we said goodbye to duplicate sequences and corrected few naming errors

Minimap2-2.27 introduces a new lr:hq preset (long read:high quality) for fast accurate mapping of @nanopore data. The new preset is a huge ~4x reduction in CPU hours vs map-ont 🚀

Join us in Aalborg in May and learn how to use MiDAS5 and other #MiDAS resources to analyze microbes in wastewater treatment systems! 🦠🧬💻 phd.moodle.aau.dk/course/index.p…

COBRA🐍 is finally out. Thank all the Banfielders @BanfieldLab for their help and especially Jill @BanfieldJill for all the huge supports. ❤️