Happy to share our preprint about coolpup.py (.COOL file Pile-UPs with PYthon)! A simple tool to make pileups from Hi-C data like these ones. Please give it a go and let me know what you think. biorxiv.org/content/10.110… github.com/Phlya/coolpuppy

Here is some free writing advice: Stop Not Writing. You can turn off the tv for one hour. (The breaking news is that no one knows anything yet.) And in that hour, you can get 45 minutes of bad writing done, and this will change your whole day. Just one bad sentence after another.

Dr. Sarah Hake studies the #genes that affect the development of #corn. Her advice to early career scientists: "trust yourself, be passionate about your work." #WomenInStem #WomensHistoryMonth

Interesting research

A recent "soil" pre-print from the JGI and PNNL leveraged JGIs immediate data release policy to publish metagenomic sequences, apparently 18% of which were from samples/experiments generated by our lab, seemingly as recently as 2017. [1/3]

Online @nature : Structural variation in the gut #microbiome associates with host health go.nature.com/2K1aDTJ

When it’s dinner time, some bacteria insert a ‘straw’ into human cells and extract available nutrients #ResearchHighlight go.nature.com/2YG1oLL

I/we have so much to learn about the role of phage/viruses in soil. Thanks to the awesome Evan Starr for setting us off on that journey. The Banfield Lab Firestone Lab Lawrence Livermore National Laboratory

Our new paper on ssDNA & dsDNA soil viruses. Protocol has been available for 2yrs protocols.io protocols.io/view/soil-vira… PeerJ Preprints peerj.com/preprints/27640 #Ecology #Microbiology #SoilScience #Virology Simon Roux @Lab_Sullivan Josué Rodríguez-Ramos 🇵🇷 Joint Genome Institute DOE Office of Science IsoGenie

Successful experiments aren't just the ones where you get the outcome you were hoping for. Successful experiments are also those that teach you something new, even if it wasn't what you had hoped for. Both types of success are something you can be proud of.#PhDchat

A cool study! biorxiv.org/content/10.110…

#CalMicro2019 Beautiful work and amazing images from Dr. Joe Pogliano, UC San Diego, "Adventures in Cell Biology: Discovery of the Phage Nucleus and Spindle"

So happy to present the #sorghum #mycobiome work at #ASMicrobe2019 , thanks Rachel Vannette for organizing the symposium, and thanks Callie Chappell for drawing this cartoon.

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Check out our newly publication Nature Communications if your genes can be bound by domestication gene TB1. rdcu.be/bPm1c

Postdoc opportunity available soon in the ColemanDerr lab in the area of genome-resolved metagenomics. Reach out to us if interested!

Santos-Medellin, Joseph Edwards, Sundaresan and co show that continually growing rice on the same plot leads to changes in the soil microbiome, driven by the rice roots. This results in reduced growth and increased methanogenic archaea. genomebiology.biomedcentral.com/articles/10.11…

New preprint out from our lab! Using GWAS to identify plant loci that influence the rhizobiome Siwen Deng @dfcaddell biorxiv.org/content/10.110…

Checkout our latest preprint: “Adaptive evolution of DNA methylation reshaped gene regulation in maize” biorxiv.org/content/10.110… led by our super postdoc Gen Xu Gen Xu. It's such a fun collaboration with Jeff (Jeffrey Ross-Ibarra) and Nathan (Nathan Springer)!

Necrotic upper tips1 mimics heat and drought stress and encodes a protoxylem-specific transcription factor in maize pnas.org/content/early/…