@leonardojo

🇰🇷 🇧🇷 🇺🇲 🇳🇱 Assistant Professor at Utrecht University Functional genomics in Plants. @ucdavis Alumni First Gen. He/Him. https://xitter.cf/t.co/YhXatKK8tH

 Utrecht, NL
Joined February 2009
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It is my great pleasure to announce ggPlantmap (github.com/leonardojo/ggPlan…), an open-source R package to create ggplot maps from plant images. Now, you can create beautiful plant heatmaps to be visualized and modified in a R coding environment.
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Leonardo Jo retweeted
The Cinéprism
@TheCineprismJul 18
"The most we want is what the most we can't have, and what the most we can't have is what we already had and lost."
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I'm very excited to announce that the Jo Lab is hiring our FIRST EVER PhD candidate! f you're eager to drive discovery in plants, join us at UU Plants! More info: uu.nl/en/organisation/workin… Lab website: thejolab.org #Plantbiology #Phd #Job
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The Jo Lab website is up! thejolab.org/ I expect to announce 1 PhD position and 1 Postdoc position in the spring of 2026 (April-May). Stay tuned!
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I'm very happy to announce that starting February 2026, I'm joining Utrecht University as an Assistant Professor!!!
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I'm super excited to join the Plant Stress Resilience group chaired by Rashmi Sasidharan. My research will focus on understanding how the interaction between transcription factors and chromatin states shape plant environmental responses.
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Since starting grad school I have dreamed about this moment and I hope to inspire the next generation of plant biologists with the same patience, care and dedication shown to me by the many mentors who guided me throughout my journey.
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Fresh PRE-PRINT!🚨🧐 We present SeedMatExplorer: an extensive transcriptome atlas underlying the acquisition of multiple seed quality traits during Arabidopsis seed maturation. #seedresearch #seedtechnology #seedscience #seedmaturation #breeding biorxiv.org/content/10.1101/…

SeedMatExplorer: The transcriptome atlas of Arabidopsis seed maturation

Seed maturation is a critical developmental phase during which seeds acquire essential traits for nutritional value and desiccation survival. Abscisic acid (ABA) signalling has long been recognized...

biorxiv.org
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Important thread on using ANOVA in R!!!
Donald McKnight@donaldmcknight24 Nov 2024
The informal poll results are in, & as I feared, most people are running ANOVAs in #R with functions that can give highly misleading (or flat out wrong) results. Follow along to see why using anova() and aov() is usually inadvisable & why you should be using car::Anova() 🧵
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The last chapter of my dissertation is finally out @PNASNews pnas.org/doi/full/10.1073/pn… Here, we report the first genome-wide binding characterization of WRINKLED1 TF, the central regulator of lipid biosynthesis in seeds. We hope it will be useful for the seed/oil community!

Genome-wide profiling of soybean WRINKLED1 transcription factor binding sites provides insight into...

Understanding the regulatory mechanisms controlling storage lipid accumulation will inform strategies to enhance seed oil quality and quantity in c...

pnas.org
Leonardo Jo@leonardojo28 Jan 2024
I’m happy to finally submit the final chapter of my PhD dissertation. Here we studied a very known TF in the field of seed lipid content - WRINKLED1. To our surprise, this was the first comprehensive study of genome-wide binding pattern of WRI1. 🧵 #plantbio #seeds #lipids
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So happy to be part of an amazing and supportive group!
Kaisa Kajala@kaisakajala28 Oct 2024
Replying to @kaisakajala
It has been a journey to put this paper together, and I want to congratulate all the co-first authors @leonardojo @plantscifyi Sara Buti and @riannekluck, and the collaborators @acantopastor @bradylabs! 🥂🎉🥳 (5/5)
Kajala lab at Linge Li’s PhD graduation!

ALT Kajala lab at Linge Li’s PhD graduation!

Kajala lab at Christmas market 2023!

ALT Kajala lab at Christmas market 2023!

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🧨Pre-print alert!🧨 We investigated the role of three TFs in tomato 🍅exodermis suberin, and we found some MYB/WRKY antagonism! doi.org/10.1101/2024.08.29.6… (1/5)
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This is beautiful!
Elisa Granato@Prokaryota23 Oct 2024
Thinking about doing a postdoc? Wondering what we do all day?? @chris_zie @sofiavanmoorsel and I tracked over 19 months (!) of work & compared it to our junior postdoc data from 6 yrs ago - check out our article! #AcademicChatter #AcademicTwitter #phdchat elisagranato.com/days-in-the…
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Thinking about doing a postdoc? Wondering what we do all day?? @chris_zie @sofiavanmoorsel and I tracked over 19 months (!) of work & compared it to our junior postdoc data from 6 yrs ago - check out our article! #AcademicChatter #AcademicTwitter #phdchat elisagranato.com/days-in-the…
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Halloween Costume...molecular biology edition!
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First part of @LILINGE6468's PhD work is now out in @PPLplantarum! Evaluation of the roles of brassinosteroid, gibberellin and auxin for tomato internode elongation in response to low red:far-red light. onlinelibrary.wiley.com/doi/…
Figure 1 from the paper. Tomato Moneymaker (MM) stem responses to low R:FR. (a) Light spectrum measurement in WL (left) vs. WL + FR in our investigation. (b) Comparison of 24-day-old young tomato plants in WL (left) vs. WL + FR (right). This picture was taken at 10 days of treatment to illustrate the different phenotypes between WL and WL + FR. (c) Stem and (d) internode lengths of three-week-old Moneymaker plants after seven-day WL and WL + FR treatments. (e) First internode's length over 4 days of light treatment. The seedlings were grown in WL for 1 week, and on day 0 at ZT 3.5 h we started supplemental FR treatment, the lengths were measured at 0, 6, 24, 30, 48, 52, 64, 70, 94 hours after the start of the treatment. (f) Experimental design of the time series RNA sequencing. Plants were grown for 7 days in WL before the light treatments. (g) Overlap in FR-responsive DEGs across the timepoints.

ALT Figure 1 from the paper. Tomato Moneymaker (MM) stem responses to low R:FR. (a) Light spectrum measurement in WL (left) vs. WL + FR in our investigation. (b) Comparison of 24-day-old young tomato plants in WL (left) vs. WL + FR (right). This picture was taken at 10 days of treatment to illustrate the different phenotypes between WL and WL + FR. (c) Stem and (d) internode lengths of three-week-old Moneymaker plants after seven-day WL and WL + FR treatments. (e) First internode's length over 4 days of light treatment. The seedlings were grown in WL for 1 week, and on day 0 at ZT 3.5 h we started supplemental FR treatment, the lengths were measured at 0, 6, 24, 30, 48, 52, 64, 70, 94 hours after the start of the treatment. (f) Experimental design of the time series RNA sequencing. Plants were grown for 7 days in WL before the light treatments. (g) Overlap in FR-responsive DEGs across the timepoints.

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Today we celebrated the "graduation" of our @UU_Plants Rclub 2024! We hope to keep empowering young researchers to improve their R skills! Special highlight for the great cake made by PhD candidate Dani (bottom left)! #Rstudio #tidyverse
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The Rclub was a really important moment of my PhD at UC Davis. Lead by Julin Maloof and Stacey Harmer, we meet every week and learned R together. It was really fun, the true meaning of community learning! Since then, I've been trying to emulate the Rclub experience wherever I go
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Just put together a simple guide on how to vectorize R plots in PowerPoint. Check out my first Medium article 🥳 nalinan.medium.com/how-to-ve…
Leonardo Jo@leonardojo28 Aug 2024
It took me SEVEN years to figure out that you can save a ggplot as a vectorized .svg file ggsave("file.svg"). The svg file can be opened on powerpoint and it will be completely vectorized, even text are still recognized as text boxes! No more recreating plots on illustrator!!!!!
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It took me SEVEN years to figure out that you can save a ggplot as a vectorized .svg file ggsave("file.svg"). The svg file can be opened on powerpoint and it will be completely vectorized, even text are still recognized as text boxes! No more recreating plots on illustrator!!!!!
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WOW, it appears that I wasn't the only one who didn't know this. BTW, It can also be used in any vector based image app (Illustrator, Inkspace, etc). Just don't forget to Ungroup your object!
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