Root Phenomics Team

We advance root phenotyping that links form to function from basic to applied science focusing on carbon. @LarryMattYork leads @ORNL. Member opinions only

[Federico Ariel @arg_epilab]

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

[Root Phenomics Team @rootphenomics]

@RYE_SUS Maybe @RhizoVision would be useful 🤔

[New Phytologist @NewPhyt]

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
https://t.co/qb2voGNQ3Z

[Root Phenomics Team @rootphenomics]

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

[Root Phenomics Team @rootphenomics]

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

[Root Phenomics Team @rootphenomics]

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 https://t.co/RpAjR7QQYU

[Root Phenomics Team @rootphenomics]

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
https://t.co/tkdbso5ms2

[Dan Barber @DanBarber]

A root system is the literal and figurative foundation of transforming our food system.

https://t.co/lOOlumpHSh

[Root Phenomics Team @rootphenomics]

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.

[RhizoVision Explorer @RhizoVision]

RhizoVision Explorer has a Whole root mode for analyzing intact roots, like root crowns for shovelomics or roots on agar, and compatible with our RhizoVision Crown hardware platform. Additional features include convex hull, width, depth, angles, and holes https://t.co/1ngKrMNicS

[Root Phenomics Team @rootphenomics]

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.

[Marcus Griffiths @marcusdgriff]

@vabenedito @SonaliRoy_ @rootphenomics Thanks for your interest. I couldn't make a good response in a tweet length so I made a short blog post about a PlantID barcode system at https://t.co/hleURVsPc5 any other questions please let me know!

[Sonali Roy @SonaliRoy_]

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.

[Root Phenomics Team @rootphenomics]

@bhive01 @tdawry The truth is out there.

[Root Phenomics Team @rootphenomics]

@KelleyDior Maybe @NobleCell_Image knows something?

[Larry M. York @LarryMattYork]

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 https://t.co/Ru1fHiCzyV

[Kristin Fuoco (she/her) @kbombycillidae]

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

[James Schnable @szintri]

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. https://t.co/A1MhKCPcNk

[Saoirse Tracy @SaoirseT]

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

[Root Phenomics Team @rootphenomics]

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

[Larry M. York @LarryMattYork]

Lab party tonight. I'm still getting used to leading a team of researchers but am extremely grateful to be working with such talented and kind people. Doesn't hurt that they can cook tasty dishes! We had a lot of fun with @spotitgame #everynoblestory