Root Phenomics Team

We are launching an Arabidopsis root segmentation challenge based on our recent ChronoRoot system🌱! Join us at @cvppa2021 workshop during @ICCV_2021! For more info check👇 @RootBiologyNews @RootPapers @rootomics @rootphenomics @Rootstrapping @RootScientists @BleinThomas

@RYE_SUS Maybe @RhizoVision would be useful 🤔

The root system of these 3 semi-dwarf hybrids will be soon phenotyped by @agrobiolo and his team. Plant height of the semi-dwarfs is in the order of the Triticale border plots. @FrommeJoachim @FeikeTil @MH_GLuesewi @IJohannmeyer @rootphenomics @RootScientists @PhenoRob @suscrop

Happy about the support of @RRabauke from @hneeberswalde University for #Sustainable #Development who started to #phenotype #root traits of semi-dwarf P-type #hybrid #rye genotypes in the course of his internship @JKI_Bund.

Functional phenomics and genetics of the root economics space in winter wheat using high‐throughput phenotyping of respiration and architecture @LarryMattYork @haichao_guo @habtamu_tamir @marcusdgriff @soilnwater @ASeethepalli @rootphenomics nph.onlinelibrary.wiley.com/doi/10.1111/np…

The lab is fully-vaccinated! We had our first in-person social event, an outside BBQ, since December, 2019. We enjoyed great company and great food. Still cautious in general, but was great to see everyone together. @ASeethepalli @haichao_guo @soilnwater @LarryMattYork

Thanks to lab member @soilnwater for scanning the wires and performing validation analysis for @RhizoVision - preprint describing the software and validation coming soon!

Did you ever wish there was a public image set based on scans of physical objects with known length, diameter, and volume for validating image analysis algorithms? Granted! This set was used to validate @RhizoVision Explorer and includes ground truth data doi.org/10.5281/zenodo…

An illustrated protocol, example R code, and example data output have been released detailing how to use @LICOR_ENV 850 gas analyzers (roughly $6,000) for high-throughput measures of root respiration and to process directories of output. #gasflux zenodo.org/record/4247873

A root system is the literal and figurative foundation of transforming our food system. sciencedaily.com/releases/2020/…

RhizoVision Explorer is the hub of the RhizoVision ecosystem, that includes open, affordable hardware already published, like RhizoVision Crown, and upcoming plans for blue paper or pouch phenotyping, agar plates, and rhizoboxes. Flexibility is a strength.

Marcus wrote a short post about how barcodes can be used for sample tracking and for ingesting data directly into R scripts. We process so many samples that his super organization has been key to successes. We try to scan barcodes as much as possible to limit errors.

When in doubt do what @marcusdgriff does. Label samples with 1) Expt name 2)Experiment number 3)Genotype 4)Treatment 5)Replicate Numbers 5) Your name/Lab name @rootphenomics . Bonus- print individual QR codes to easily relate downstream information with the correct replicates.

@bhive01 @tdawry The truth is out there.

@tdawry I hope you find some soon that are.. out of this world. /groans

I’m pretty pleased with myself for making this into a tacoship. My kids are less impressed with it.

@KelleyDior Maybe @NobleCell_Image knows something?

Fresh preprint by @marcusdgriff @rootphenomics representing 4 years of work to develop a phenotyping method RhizoFlux for multiple ion nutrient uptake by roots to make new discoveries. Uptake rates are heritable, correlated among nutrients and respiration biorxiv.org/content/10.110…

If you’re woman with a PhD who teaches ecology at a college in Ohio with ties to PA, this message is for you: I met your dad while doing field work. He was going for 21 miles on his bike around the lake. Says he can still outsmart you when it comes to trees but not sedges

Thrilled to see @Valiancy_miao's preprint out. Flexible and robust functional principal component analysis to map genes controlling differences in plant phenotypes change over time. doi.org/10.1101/2020.0…

I’m looking for somebody who would like to start a 3 year post-doc in Dublin, Ireland in collaboration with @KatieField4 and Urwin Group @ Leeds. They must have soil/plant/microbe experience, preferably has X-ray CT/computer science/ imaging skills. Who is out there? DM me please

Thanks to @marcusdgriff @haichao_guo @soilnwater @ASeethepalli for being the best phenomics group in the world. We have all the pieces in place for next level science in the new year