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

Joined July 2016
28 Photos and videos
Root Phenomics Team retweeted
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
Do you have a segmentation method and want to benchmark it in a cool task? Join us for the first root 🌱 segmentation challenge for plant phenotyping organized at @cvppa2021 workshop during @ICCV_2021 ! Website --> sites.google.com/sinc.unl.ed…
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Root Phenomics Team retweeted
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/…
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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
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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.46775…
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Thanks to lab member @soilnwater for scanning the wires and performing validation analysis for @RhizoVision - preprint describing the software and validation coming soon!
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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
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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 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 doi.org/10.5281/zenodo.37476…
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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.
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 bit.ly/3175RdK any other questions please let me know!
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Root Phenomics Team retweeted
17 Aug 2020
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.
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Root Phenomics Team retweeted
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/10.1101/…
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Root Phenomics Team retweeted
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
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Root Phenomics Team retweeted
18 Feb 2020
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/10.1101/2020.02.16.9…
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Root Phenomics Team retweeted
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
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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
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
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Happy birthday to Yaxin! We surprised our lab manager, Dr. Ge, with flowers and muffins! She's been with us for almost one year and keeps the lab running and always improving.
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Did somebody say roots? See @scott_stelpflug other people are thinking about crops bred for regenerative agriculture (or building soil health) besides @LarryMattYork
Breeding varieties for low input systems will be a key piece of the puzzle moving forward. True for the organic world where there is already a push to develop varieties bred in and for organic systems. 'Regenerative varieties' will follow suit. Rooting traits will be key.
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Root Phenomics Team retweeted
11 Oct 2019
The fight against climate change may seem hopeless, but humanity has a simple and powerful ally in plain sight: plants. Great interview to Joanne Chory @salkinstitute Can 'Supercharged' Plants Solve the Climate Crisis? foreignpolicy.com/2019/07/20…
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