Omar Kamileen
@omarkamileen.bsky.social
An impatient optimist. 🇩🇪🇱🇰
Reposted by Omar Kamileen
#OpenCloning is a an Open Source alternative to SnapGene/Benchling that supports automation and integration with other software
✅ Free
🔓 Open Source
🧬 More cloning methods than SnapGene
🤖 Can be automated with python
👨🔬 Built by a researcher — for researchers!
👉 Check it out at opencloning.org
✅ Free
🔓 Open Source
🧬 More cloning methods than SnapGene
🤖 Can be automated with python
👨🔬 Built by a researcher — for researchers!
👉 Check it out at opencloning.org
November 24, 2025 at 4:57 PM
#OpenCloning is a an Open Source alternative to SnapGene/Benchling that supports automation and integration with other software
✅ Free
🔓 Open Source
🧬 More cloning methods than SnapGene
🤖 Can be automated with python
👨🔬 Built by a researcher — for researchers!
👉 Check it out at opencloning.org
✅ Free
🔓 Open Source
🧬 More cloning methods than SnapGene
🤖 Can be automated with python
👨🔬 Built by a researcher — for researchers!
👉 Check it out at opencloning.org
Reposted by Omar Kamileen
Researchers have manufactured organic light-emitting diodes (OLED) on a nanoscale – that’s around a hundred times smaller than a human cell. This not only enables ultra-sharp screens and microscopes, but also opens up entirely novel possibilities for wave optics applications. ethz.ch/en/news-and-...
Manufacturing the world's tiniest light-emitting diodes
Researchers from ETH Zurich have manufactured organic light-emitting diodes (OLEDs) on a nanoscale – that’s around a hundred times smaller than a human cell. This not only enables ultra-sharp screens ...
ethz.ch
November 24, 2025 at 9:40 AM
Researchers have manufactured organic light-emitting diodes (OLED) on a nanoscale – that’s around a hundred times smaller than a human cell. This not only enables ultra-sharp screens and microscopes, but also opens up entirely novel possibilities for wave optics applications. ethz.ch/en/news-and-...
Reposted by Omar Kamileen
How does messenger RNA (mRNA) get out of the nucleus to become a protein? Eukaryotic mRNA is packaged, exported, and then translated in the cytoplasm. But how do these steps work? And what are open questions? Check out our new review for our take: www.annualreviews.org/content/jour... (1/3)
November 21, 2025 at 5:37 PM
How does messenger RNA (mRNA) get out of the nucleus to become a protein? Eukaryotic mRNA is packaged, exported, and then translated in the cytoplasm. But how do these steps work? And what are open questions? Check out our new review for our take: www.annualreviews.org/content/jour... (1/3)
Reposted by Omar Kamileen
And now we have Arabidopsis plants with 8 chromosomes instead of 10 and no obvious phenotypic differences, this week in @science.org
#PlantScience
Paper here: www.science.org/doi/10.1126/...
Perspective here:
www.science.org/doi/10.1126/...
#PlantScience
Paper here: www.science.org/doi/10.1126/...
Perspective here:
www.science.org/doi/10.1126/...
CRISPR-Cas–mediated heritable chromosome fusions in Arabidopsis
The genome of Arabidopsis thaliana consists of 10 chromosomes. By inducing CRISPR-Cas–mediated breaks at subcentromeric and subtelomeric sequences, we fused entire chromosome arms, obtaining two eight...
www.science.org
November 21, 2025 at 10:20 AM
And now we have Arabidopsis plants with 8 chromosomes instead of 10 and no obvious phenotypic differences, this week in @science.org
#PlantScience
Paper here: www.science.org/doi/10.1126/...
Perspective here:
www.science.org/doi/10.1126/...
#PlantScience
Paper here: www.science.org/doi/10.1126/...
Perspective here:
www.science.org/doi/10.1126/...
Reposted by Omar Kamileen
Multimodal learning enables chat-based exploration of single-cell data - @bocklab.bsky.social @cemm.oeaw.ac.at @meduniwien.ac.at go.nature.com/3WPGJnW
Multimodal learning enables chat-based exploration of single-cell data - Nature Biotechnology
CellWhisperer uses multimodal learning of transcriptomes and text to answer questions about single-cell RNA-sequencing data.
go.nature.com
November 11, 2025 at 4:58 PM
Multimodal learning enables chat-based exploration of single-cell data - @bocklab.bsky.social @cemm.oeaw.ac.at @meduniwien.ac.at go.nature.com/3WPGJnW
Reposted by Omar Kamileen
Tension, suspense, or narrative arc in a story is the stuff that keeps the reader going. But how do you introduce suspense in a scientific article? That is what my latest post is all about.
aboutacademicwritingandzo.substack.com/p/how-to-wri...
#AcademicWriting #WritingTips #NarrativeArc #Suspense
aboutacademicwritingandzo.substack.com/p/how-to-wri...
#AcademicWriting #WritingTips #NarrativeArc #Suspense
How to write your paper like a page turner
Working my way through scientific articles I often lose my focus.
aboutacademicwritingandzo.substack.com
November 6, 2025 at 1:22 PM
Tension, suspense, or narrative arc in a story is the stuff that keeps the reader going. But how do you introduce suspense in a scientific article? That is what my latest post is all about.
aboutacademicwritingandzo.substack.com/p/how-to-wri...
#AcademicWriting #WritingTips #NarrativeArc #Suspense
aboutacademicwritingandzo.substack.com/p/how-to-wri...
#AcademicWriting #WritingTips #NarrativeArc #Suspense
www.nature.com/articles/s41... Really fabulous work! Animal pigments engineered in bacteria.
Growth-coupled microbial biosynthesis of the animal pigment xanthommatin - Nature Biotechnology
A growth-coupled biosynthetic pathway enables xathommatin synthesis in the soil bacterium Pseudomonas putida.
www.nature.com
November 3, 2025 at 10:09 PM
www.nature.com/articles/s41... Really fabulous work! Animal pigments engineered in bacteria.
Reposted by Omar Kamileen
Agrobacterium-mediated transformation of plants and fungi is enhanced by plasmid copy number variants go.nature.com/3CdewQS
rdcu.be/eNaje
rdcu.be/eNaje
Binary vector copy number engineering improves Agrobacterium-mediated transformation - Nature Biotechnology
Agrobacterium-mediated transformation of plants and fungi is enhanced by plasmid copy number variants.
go.nature.com
October 31, 2025 at 3:04 AM
Agrobacterium-mediated transformation of plants and fungi is enhanced by plasmid copy number variants go.nature.com/3CdewQS
rdcu.be/eNaje
rdcu.be/eNaje
Reposted by Omar Kamileen
Excited to see our paper online! We combined scMS and scRNA-seq from the same plant cells 🌱 — a step toward true single-cell multi-omics in plants.
Overview 👇
Overview 👇
A research team from the @oconnorlab.bsky.social has made a breakthrough in elucidating the biosynthesis of plant natural products by combining scRNA-seq and scMS in the same plant cell. The study was published in @pnas.org. www.ice.mpg.de/516369/PR_Ka...
A glimpse into the cell factory: matching gene expression to metabolite production in single plant cells
A research team at the Max Planck Institute for Chemical Ecology has successfully combined single-cell RNA sequencing (scRNA-seq) and single-cell mass spectrometry (scMS) analysis on the same plant ce...
www.ice.mpg.de
October 27, 2025 at 6:32 PM
Excited to see our paper online! We combined scMS and scRNA-seq from the same plant cells 🌱 — a step toward true single-cell multi-omics in plants.
Overview 👇
Overview 👇
Reposted by Omar Kamileen
Discovery and engineering of the biosynthesis of rotenoids www.nature.com/articles/s44... @natsynth.nature.com
Discovery and engineering of the biosynthesis of rotenoids - Nature Synthesis
Rotenoids are natural insecticides from Fabaceae plants. Here the complete biosynthetic pathway to make rotenoids is elucidated in Amorpha fruticosa and Tephrosia vogelii, revealing a unique Fe(II)-de...
www.nature.com
October 21, 2025 at 8:41 PM
Discovery and engineering of the biosynthesis of rotenoids www.nature.com/articles/s44... @natsynth.nature.com
Reposted by Omar Kamileen
Very exciting to finally see our iridoid cyclase ICYC online @natplants.nature.com!
A joined effort with Robin Buell’s lab with Josh Wood generating snRNA-seq, and my student Chloée Tymen performing the initial experiment.
#natprod
#PlantScience
@mpi-ce.bsky.social
www.nature.com/articles/s41...
A joined effort with Robin Buell’s lab with Josh Wood generating snRNA-seq, and my student Chloée Tymen performing the initial experiment.
#natprod
#PlantScience
@mpi-ce.bsky.social
www.nature.com/articles/s41...
Discovery of iridoid cyclase completes the iridoid pathway in asterids - Nature Plants
Iridoids are terpenoid metabolites found in thousands of plants. Using single-cell transcriptomics, the authors discovered an unexpected enzyme that has been neofunctionalized to catalyse the cyclization required to form the iridoid scaffold.
www.nature.com
October 3, 2025 at 9:39 AM
Very exciting to finally see our iridoid cyclase ICYC online @natplants.nature.com!
A joined effort with Robin Buell’s lab with Josh Wood generating snRNA-seq, and my student Chloée Tymen performing the initial experiment.
#natprod
#PlantScience
@mpi-ce.bsky.social
www.nature.com/articles/s41...
A joined effort with Robin Buell’s lab with Josh Wood generating snRNA-seq, and my student Chloée Tymen performing the initial experiment.
#natprod
#PlantScience
@mpi-ce.bsky.social
www.nature.com/articles/s41...
Reposted by Omar Kamileen
Our new study in Nature Plants maps how "multi-tasking" enzymes in plants transfer nitrogen, a key step toward improving crop N use efficiency. 🌱
Big thanks to our collaborators from Max Planck, Hokkaido Univ, & MSU, and for support from @NSF and @DOE.
Learn more: rdcu.be/eFOFN
#PlantMetabolism
Big thanks to our collaborators from Max Planck, Hokkaido Univ, & MSU, and for support from @NSF and @DOE.
Learn more: rdcu.be/eFOFN
#PlantMetabolism
Mapping multi-substrate specificity of Arabidopsis aminotransferases
Nature Plants - Systematic characterization of Arabidopsis aminotransferase family enzymes uncovered many previously unrecognized activities and revealed their multi-substrate specificity, aspects...
rdcu.be
September 12, 2025 at 11:40 AM
Our new study in Nature Plants maps how "multi-tasking" enzymes in plants transfer nitrogen, a key step toward improving crop N use efficiency. 🌱
Big thanks to our collaborators from Max Planck, Hokkaido Univ, & MSU, and for support from @NSF and @DOE.
Learn more: rdcu.be/eFOFN
#PlantMetabolism
Big thanks to our collaborators from Max Planck, Hokkaido Univ, & MSU, and for support from @NSF and @DOE.
Learn more: rdcu.be/eFOFN
#PlantMetabolism
Reposted by Omar Kamileen
Beautiful work by Yaereen and former lab member Kevin! Learn more about the anti-cancer compound homoharringtonine and its'biosynthesis in plants here 🌿https://www.biorxiv.org/content/10.1101/2025.08.26.672243v1
Discovery of homoharringtonine pathway enzymes reveals a whole plant model for coordinated biosynthesis
Plants have evolved to produce diverse molecules that inhibit protein translation. A lead example is homoharringtonine (HHT), both a key tool for ribosomal profiling and an FDA-approved treatment for ...
www.biorxiv.org
September 2, 2025 at 10:13 PM
Beautiful work by Yaereen and former lab member Kevin! Learn more about the anti-cancer compound homoharringtonine and its'biosynthesis in plants here 🌿https://www.biorxiv.org/content/10.1101/2025.08.26.672243v1
Reposted by Omar Kamileen
The multilayered regulation of aromatic amino acid biosynthesis in plants: Trends in Biochemical Sciences www.cell.com/trends/bioch...
The multilayered regulation of aromatic amino acid biosynthesis in plants
The shikimate and aromatic amino acid (AAA) biosynthetic pathways are crucial for
the production of L-phenylalanine (Phe), L-tyrosine (Tyr), and L-tryptophan (Trp),
as well as vitamins, hormones, and ...
www.cell.com
August 28, 2025 at 12:20 AM
The multilayered regulation of aromatic amino acid biosynthesis in plants: Trends in Biochemical Sciences www.cell.com/trends/bioch...
Reposted by Omar Kamileen
Discovery happens less when you're trying to be the expert and more when you're trying to be the learner.
August 27, 2025 at 3:24 AM
Discovery happens less when you're trying to be the expert and more when you're trying to be the learner.
Reposted by Omar Kamileen
Protein Structural Phylogenetics academic.oup.com/gbe/article/...
Protein Structural Phylogenetics
Abstract. Protein structural phylogenetics is an interdisciplinary branch of molecular evolution that (i) uses 3D structural data to trace evolutionary his
academic.oup.com
August 26, 2025 at 4:33 PM
Protein Structural Phylogenetics academic.oup.com/gbe/article/...
Reposted by Omar Kamileen
Into natural product biosynthesis & tailoring enzymes? Frustrated by the lack of a dedicated resource to explore their functions? Tired of endless literature searches for reaction info? Meet the MITE database, freely available at mite.bioinformatics.nl. Preprint: doi.org/10.26434/che... (1/8)
August 21, 2025 at 10:52 AM
Into natural product biosynthesis & tailoring enzymes? Frustrated by the lack of a dedicated resource to explore their functions? Tired of endless literature searches for reaction info? Meet the MITE database, freely available at mite.bioinformatics.nl. Preprint: doi.org/10.26434/che... (1/8)
Reposted by Omar Kamileen
Inspired by natural molecular glues, drug hunters are chasing protein–protein interactions with next-gen small molecules tuned for enhanced tissue specificity and reduced toxicity www.nature.com/articles/s41...
rdcu.be/eAC91
rdcu.be/eAC91
Natural molecular glues spur next-gen small molecules for ‘undruggable’ targets - Nature Biotechnology
Inspired by natural molecular glues, drug hunters are chasing protein–protein interactions with next-gen small molecules tuned for enhanced tissue specificity and reduced toxicity.
www.nature.com
August 13, 2025 at 6:27 PM
Inspired by natural molecular glues, drug hunters are chasing protein–protein interactions with next-gen small molecules tuned for enhanced tissue specificity and reduced toxicity www.nature.com/articles/s41...
rdcu.be/eAC91
rdcu.be/eAC91
Reposted by Omar Kamileen
Couldn't have said it better! Great job @taralowensohn.bsky.social, Will, and Chun! Special thanks to the Gao lab at @stanford.edu #singlecell #plantbiology
A truly enabling new approach by @taralowensohn.bsky.social Will Cody and @sattelylab.bsky.social to probe plant genetics at scale.
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
August 7, 2025 at 10:37 PM
Couldn't have said it better! Great job @taralowensohn.bsky.social, Will, and Chun! Special thanks to the Gao lab at @stanford.edu #singlecell #plantbiology
Reposted by Omar Kamileen
A truly enabling new approach by @taralowensohn.bsky.social Will Cody and @sattelylab.bsky.social to probe plant genetics at scale.
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
August 7, 2025 at 8:51 PM
A truly enabling new approach by @taralowensohn.bsky.social Will Cody and @sattelylab.bsky.social to probe plant genetics at scale.
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
Single-gene-per-cell delivery coupled to an effective transcriptional selection system
www.biorxiv.org/content/10.1...
Reposted by Omar Kamileen
Ingenane biosynthesis enzymes in @newphyt.bsky.social by @matildeflorean.bsky.social, @carstenschotte.bsky.social from @oconnorlab.bsky.social @mpi-ce.bsky.social in collaboration with Ian Graham lab members.
#natprod
#PlantScience
doi.org/10.1111/nph....
#natprod
#PlantScience
doi.org/10.1111/nph....
Identification of BAHD‐acyltransferase enzymes involved in ingenane diterpenoid biosynthesis
The plant family Euphorbiaceae is an abundant source of structurally complex diterpenoids, many of which have reported anticancer, anti-HIV, and anti-inflammatory activities. Among these, ingenol-3-...
doi.org
July 21, 2025 at 1:38 PM
Ingenane biosynthesis enzymes in @newphyt.bsky.social by @matildeflorean.bsky.social, @carstenschotte.bsky.social from @oconnorlab.bsky.social @mpi-ce.bsky.social in collaboration with Ian Graham lab members.
#natprod
#PlantScience
doi.org/10.1111/nph....
#natprod
#PlantScience
doi.org/10.1111/nph....
Reposted by Omar Kamileen
Here, the authors @oconnorlab.bsky.social @mpi-ce.bsky.social uncover the mechanism of epimerization behind uncommon 3R-containing alkaloids in Mitragyna speciosa (Kratom) and study their inclusion in downstream biosynthesis #PlantScience #natprod
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Enzymatic epimerization of monoterpene indole alkaloids in kratom - Nature Chemical Biology
Monoterpene indole alkaloids are formed via a 3S stereoselective condensation between secologanin and tryptamine. Here the authors uncover the mechanism of epimerization behind uncommon 3R-containing ...
www.nature.com
July 16, 2025 at 7:19 PM
Here, the authors @oconnorlab.bsky.social @mpi-ce.bsky.social uncover the mechanism of epimerization behind uncommon 3R-containing alkaloids in Mitragyna speciosa (Kratom) and study their inclusion in downstream biosynthesis #PlantScience #natprod
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Omar Kamileen
SynBio: it’s what plants crave
doi.org/10.1093/jxb/...
J Exp Bot Insights article from *Dan Hong Loh* - she discusses the impacts of Rubisco SynBio tool expansions from Archer et al. 2025 (doi.org/10.1093/jxb/...).
doi.org/10.1093/jxb/...
J Exp Bot Insights article from *Dan Hong Loh* - she discusses the impacts of Rubisco SynBio tool expansions from Archer et al. 2025 (doi.org/10.1093/jxb/...).
A SynBio explosion: a whole new world for Rubisco engineering
This article comments on:Archer J, Kathpalia M, Lee B, Li S, Wang T. 2025. Effects of chaperone selectivity on the assembly of plant Rubisco orthologs in E
doi.org
July 3, 2025 at 5:05 PM
SynBio: it’s what plants crave
doi.org/10.1093/jxb/...
J Exp Bot Insights article from *Dan Hong Loh* - she discusses the impacts of Rubisco SynBio tool expansions from Archer et al. 2025 (doi.org/10.1093/jxb/...).
doi.org/10.1093/jxb/...
J Exp Bot Insights article from *Dan Hong Loh* - she discusses the impacts of Rubisco SynBio tool expansions from Archer et al. 2025 (doi.org/10.1093/jxb/...).
Reposted by Omar Kamileen
Heron is a new intuitive software tool that helps researchers design complex experiments even if they don’t have in-depth technical expertise.
🔗
🔗
Streamlining experimental setups
A new software tool called Heron helps researchers to design and run complex experimental systems without needing in-depth technical expertise.
buff.ly
July 17, 2025 at 10:28 PM
Heron is a new intuitive software tool that helps researchers design complex experiments even if they don’t have in-depth technical expertise.
🔗
🔗
Reposted by Omar Kamileen
July Issue. Read FREE: Sequencing historical RNA: unrealized potential to increase understanding of the plant tree of life (see cover); Decoding the evolution of C4 photosynthesis; Transcellular regulation of ETI-induced cell death; & much more
www.cell.com/trends/plant...
#plantscience
www.cell.com/trends/plant...
#plantscience
July 14, 2025 at 7:09 PM
July Issue. Read FREE: Sequencing historical RNA: unrealized potential to increase understanding of the plant tree of life (see cover); Decoding the evolution of C4 photosynthesis; Transcellular regulation of ETI-induced cell death; & much more
www.cell.com/trends/plant...
#plantscience
www.cell.com/trends/plant...
#plantscience