Lei Liu

Postdoc at Aalborg University. Environmental microbiome | #Nanopore #PacBio sequencing | long-read metagenomics

[Lei Liu @liuleitw]

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
https://t.co/wp1r7uWGW7

[Misha Kolmogorov @MishaKolmogorov]

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 - https://t.co/g1TShFOQ5T

[Michael Wagner @MichiWagner4]

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.

https://t.co/U2ejyf67uz

[A. Murat Eren (Meren) @merenbey]

I am very happy to report that the review @BanfieldJill and I wrote on Modern Microbiology just appeared in @CellPressNews:

https://t.co/O7IZXpnR6O

Our celebration of microbiology also made it to the cover of this issue and we hope you will find yourself in it, too.

[Max Wilkinson @maxewilkinson]

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/

[Sofie Zacho Vestergaard @sofie_zacho]

🎉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!

https://t.co/825PhaJ0SK

[Marie Riisgaard-Jensen @marieriisgaard]

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

[Sofie Zacho Vestergaard @sofie_zacho]

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

[Fabai Wu Lab @fabaiwu]

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. https://t.co/foCs0yJXtF

[Mads Albertsen @MadsAlbertsen85]

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/

https://t.co/nKH5HqUyss

[Masaru K. Nobu @masarunobu]

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
https://t.co/u3Zr4if2Vc

[Luis Pedro Coelho (Berkeley, 7-11 Oct) @luispedrocoelho]

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

[REThiNk @REThiNk_nnf]

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

[XiaoTao JIANG @Titus12629950]

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.

https://t.co/f08Izm3G4v

[Mads Albertsen @MadsAlbertsen85]

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? https://t.co/sYzOmFLdrQ 1/

[Kongelige Danske Videnskabernes Selskab @VSelskab]

🇩🇰 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!)
📲 https://t.co/MxeUnCGKc1

[Heng Li @lh3lh3]

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. https://t.co/CWbg7j6D9L

[MIDAS Field Guide @midasguide]

Exciting news! MiDAS taxonomy (v5.3) is out now! You can download it from https://t.co/0lEFf9Iiv9. In this latest update we said goodbye to duplicate sequences and corrected few naming errors

[Chris Seymour @iiSeymour]

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 🚀

[MIDAS Field Guide @midasguide]

Join us in Aalborg in May and learn how to use MiDAS5 and other #MiDAS resources to analyze microbes in wastewater treatment systems! 🦠🧬💻
https://t.co/S25d3R2Iv9

[LinXingChen @ChenLinxing]

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