The Anantharaman Lab

Congrats 🎉 to our student @patriciatran_ for winning an #ISME18 best poster award! Woot woot. @quendi @UWBact @AnantharamanLab

Excited to showcase our new @AnantharamanLab paper co-led by @ZhichaoZhou_CHN and Emily St. John focused on the microbial ecology of globally distributed deep sea hydrothermal vent chimneys. Super collaboration with @alr_thermophile. biorxiv.org/content/10.110….

Honored to receive the ASM Early Career Award for Environmental Research. And more so, Super honored to be receiving this with @Firestone_Lab. @UWBact @AnantharamanLab

Proud advisor moment! Sad to see my first PhD student @KrisKieft leave. But onto a fantastic future career ahead! Congratulations Kris on a fabulous PhD. The @AnantharamanLab was truly honored to have you be a part of our family and will miss you.

Interested in viromics or viruses in microbiomes? Our new manuscript describing the virus binner vRhyme is out! Led by @AnantharamanLab PhD student @KrisKieft in collaboration with @lindskalan @SalamMicrobes @TeemoDoScience @UWBact @UWMadisonMDTP academic.oup.com/nar/advance-ar…

New @AnantharamanLab paper describing sulfur metabolism in #colorectalcancer #microbiome is out! Led by MD-PhD student Elise Cowley through a fantastic collaboration w/ Patricia Wolf, Rex Gaskins, and @Ridlon_Lab. @UWMadisonMDTP @UWBact microbiomejournal.biomedcentral.com/articles/10.11…

Our new paper describing PropagAtE - our software for prophage activity estimation is out! Use this to study the ecology of prophages in genomes/metagenomes in diverse ecosystems and microbiomes. @KrisKieft @AnantharamanLab @UWMadisonMDTP @UWBact journals.asm.org/doi/10.1128/ms…

METABOLIC is a novel scalable software by @AnantharamanLab which allows for characterization of microbial metabolic predictions, exchanges & interactions, individual contributions to biogeochemical cycling & community-scale functional network construction microbiomejournal.biomedcentral.com/articles/10.11…

Super excited to pass along this awesome work! ⁦@patriciatran_⁩ ⁦@AnantharamanLab⁩ Do you like microbial genomes and bio geochemistry??? Look no further microbiomejournal.biomedcentral.com/articles/10.11…

@Rachel_L_Harris @KarthikGeomicro @UWBact Glad you like it. Feel free to reach out to us if you have questions or if we can help in any way.

Our paper describing the software METABOLIC is out. We've got some great analyses and visualizations for microbial metabolism, pathways, metabolic interactions, and biogeochemical cycles from microbial genomes and metagenomes. @AnantharamanLab @UWBact microbiomejournal.biomedcentral.com/articles/10.11…

@Rachel_L_Harris @KarthikGeomicro @UWBact Yes they were paired - from same vent/ sample. Using paired metagenomes/metatranscriptomic are best for analyses. However, even if you do not have a matching set of transcriptomes, there are still a number of possible analyses including relative activity comparisons

@Rachel_L_Harris @KarthikGeomicro @UWBact Yes that is correct. Using the read data is not mandatory, but including it enables coverage analyses which (1) determine the abundance of individual steps in biogeochemical cycles, (2) compute MW scores that can look at metabolic connections in the community.

If you're interested in viral genomics, this new review by #MDTP student @KrisKieft is for you! @UWBact @AnantharamanLab

Our new review on the state of viral/phage genomics led by super-talented Ph.D student @KrisKieft is now out! We discuss conventions, biases, ideologies, and the future of virus genomics. @AnantharamanLab @UWBact sciencedirect.com/science/articl…

Want to bin virus genomes from metagenomes? Then #MDTP student @KrisKieft has the right tool for you! Congrats to Kris, current student @salamzader, and trainers @lindskalan @KarthikGeomicro on their preprint! biorxiv.org/content/10.110… @UWBact @AnantharamanLab @madmicrobiome

Why is there a Pseudomonas when there is no Realmonas?

Excited to share ‘vRhyme’, a new bioinformatics tool for binning viruses and phages into viral metagenome-assembled genomes (vMAGs)! @AnantharamanLab @UWMadisonMDTP @UWBact doi.org/10.1101/2021.1…

Our viral genome binner "vRhyme" is available on github. All feedback/comments welcome. @KrisKieft github.com/AnantharamanLa…