@Marand_Lab

Assistant Professor @UMich. Chromatin biology, cis-regulatory dynamics, plant genomes.

 Ann Arbor, MI
marand-lab.github.io/
Joined May 2017
  • Tweets1.4K
  • Following375
  • Followers976
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Alexandre Marand retweeted
Marina Oliva@molivarinaOct 22
Are plant roots really made up of concentric layers of homogeneous, differentiating cell types? In our new study, out now in @Nature, we show a more complex picture: two distinct cell states within root lineages, shaped in part by the environment. 🧵👇 nature.com/articles/s41586-0…

An environmentally regulated dichotomy in cell lineages of the root

Nature - An environment-regulated state is identified across multiple cell types at the root tip, revealing a shared dichotomy between cells with and without this state.

nature.com
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Alexandre Marand retweeted
Jonathan Weissman's Lab@JswLabOct 8
Thrilled to share that our work reconstructing a cell fate map of the mouse embryo is out now in @CellCellPress! doi.org/10.1016/j.cell.2026.…
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Alexandre Marand retweeted
Jay Shendure@JShendureOct 8
Exciting day for DNA Typewriter w/ 2 papers from the lab & SeaHub out today :) 1. Mouse lineage from E0 to E13.5 science.org/doi/10.1126/scie… 2. A fluctuation test for gastruloid heterogeneity cell.com/cell/fulltext/S0092… Paper #1 covered in quoted thread. More on paper #2 here. 1/n

A DNA Typewriter records the cell lineage history of a mouse, from zygote to late organogenesis

Mammalian biology unfolds over time, within tissues and organs opaque to our eyes and instruments. We applied DNA Typewriter, a sequential molecular recorder, to record the cell lineage of a mouse...

science.org
Jay Shendure@JShendureJul 31
Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote 1/n
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Alexandre Marand retweeted
Prof. Keiko Torii
@KeikoUToriiSep 24
I am proud to share my No-AI-assisted perspective review "Plant Peptide Hormones: Three Decades of Discovery and Emerging Paradigms" for the Centennial issue of @PlantPhys🌱🍅. It's OA, so everyone can access! 1/ academic.oup.com/plphys/adva…
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Alexandre Marand retweeted
Bob Schmitz@Schmitz_LabSep 24
Ever observe maize produce 90 leaves before flowering? See Mark's and Zuhaa's preprint for their new proposed flowering time model. Multimodal single cell analysis reveals a link between flowering and leaf initiation biorxiv.org/content/10.64898…
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Alexandre Marand retweeted
Piotr Ziolkowski@Piotraz1Sep 23
‼️A new story from our lab!🙌 We show that SNI1, a component of the SMC5/6 complex, acts as a temperature-dependent brake on class II crossovers, helping shape where genetic exchange occurs in Arabidopsis. Huge effort by Alex made it happen🙏
Alexandre Pelé@ARM_PeleSep 23
1/2 My very first post on X—and what better occasion than the publication of our paper in @NaturePlants! 🌱 We identify SNI1 as the first plant gene linking temperature to meiotic recombination, generating genetic diversity that may help plants adapt. nature.com/articles/s41477-0…
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Alexandre Marand retweeted
Fabio Gomez-Cano@FabioGomezCano1Sep 20
🚨How many reads in a single-cell barcode come from that cell? 🚨 We loaded maize and Arabidopsis nuclei into separate wells of the same scifi-ATAC plate. Arabidopsis barcode averaged 73% maize reads, yet standard QC looked normal! New preprint 🧵 biorxiv.org/content/10.64898… 1/10
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Alexandre Marand retweeted
Tatsuya Nobori@nobollySep 7
📣 Please share! We’re recruiting to build predictive models of gene regulation in plants. We’d love to hear from anyone with strong foundations in regulatory genomics or ML and fluency with coding agents. Any career stage; no plant background needed. noborilab.org 1/4

Nobori Lab | The Sainsbury Laboratory

Decoding the molecular and cellular basis of plant-microbe interactions. Single-cell and spatial omics of plant immunity.

noborilab.org
Tatsuya Nobori@nobollySep 3
Excited to launch our ERC project ImmuneCellState 🚀 We’ll study how individual plant cells respond to pathogens and explore new dimensions of plant immunity research by integrating single-cell/spatial omics, deep learning and genome editing. @TheSainsburyLab @ERC_Research
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Alexandre Marand retweeted
Tatsuya Nobori@nobollySep 3
Great work by Ingram & Zipfel labs. Congratulations, everyone! An embryo-derived peptide signal directs endosperm polarity in Arabidopsis science.org/doi/10.1126/scie…

An embryo-derived peptide signal directs endosperm polarity in Arabidopsis

Angiosperm seed formation requires the coordinated development of the products of double fertilization—the embryo and the endosperm. The endosperm mediates efficient nutrient transfer from surround...

science.org
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My MCDB Dept is hiring, again! Assistant Professor Faculty Search. Please Repost! Applications Due Oct 1st We welcome applications from all areas of cellular/molecular biology in prokaryotes, plants, and animals. More info can be found HERE: jobs.sciencecareers.org/job/…

Assistant Professor - Ann Arbor, Michigan

UNIVERSITY OF MICHIGAN FACULTY POSITION IN CELL & MOLECULAR BIOLOGY AND RELATED FIELDS   The Department of Molecular, Cellular, and Developmental B...

jobs.sciencecareers.org
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Alexandre Marand retweeted
Tatsuya Nobori@nobollyAug 12
Our new Review is online! Nutrients can act as spatial signals that organise plant-microbe interactions. We discuss emerging tools and propose a cell-state framework linking plant and microbial cell states through local nutrient landscapes. sciencedirect.com/science/ar…
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Alexandre Marand retweeted
Tatsuya Nobori@nobollyAug 20
Save the date! More details to follow soon 😃
PlantCellAtlas.bsky.social@CellAtlasAug 20
We are so excited to announce that applications are now being accepted for the 2027 Single-Cell Approaches in Plant Biology Gordon Research Conference! Learn More and Apply Now! grc.org/single-cell-approach…
Image of a Gordon Research Conference webpage for “Decoding Plant Cell Biology Through Integrated Single Cell ‘Omics,” taking place August 8–13, 2027, at the University of Southern Maine in Portland, Maine. The page lists Nicola Patron and Marc Libault as chairs and Tatsuya Nobori and Shao-Shan Carol C. Huang as vice chairs. On the left is a collage of colorful microscopic images of plant cells.

ALT Image of a Gordon Research Conference webpage for “Decoding Plant Cell Biology Through Integrated Single Cell ‘Omics,” taking place August 8–13, 2027, at the University of Southern Maine in Portland, Maine. The page lists Nicola Patron and Marc Libault as chairs and Tatsuya Nobori and Shao-Shan Carol C. Huang as vice chairs. On the left is a collage of colorful microscopic images of plant cells.

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Excited to share Mario’s latest manuscript, now up on bioRxiv! Using new single-locus multi-hormone reporters, Mario and the team dissected the spatially resolved Auxin-Cytokinin-Ethylene crosstalk hierarchy driving root growth inhibition in Arabidopsis. biorxiv.org/content/10.64898…

An Integrated Spatially Resolved Mechanistic Model of Hierarchical Auxin–Cytokinin–Ethylene...

Decoding how plants integrate multiple hormone signals to coordinate growth requires tools capable of resolving pathway interactions at cellular resolution in living tissue. Here we present ACE...

biorxiv.org
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Alexandre Marand retweeted
Caleb Lareau
@CalebLareauAug 19
Online today in @nature are the final correspondences on mtDNA lineage tracing, including our work with @Dana_peer, @livius_tacitus, @doctor_msc, @nawy_t, and @LeifLudwig, concluding a dialogue spanning 2+ years. A few final thoughts: 1/10 doi.org/10.1038/s41586-026-1…
doi.org/10.1038/s41586-026-10777-0

ALT doi.org/10.1038/s41586-026-10777-0

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Alexandre Marand retweeted
Gene Regulation@generegulationAug 18
Luo et al, 2026 (review). The roles of chromatin remodeling and 3D genome organization in cancers: from mechanistic insights to emerging treatment options link.springer.com/article/10… 🧐548 references!
Timeline of the discovery of key subunits of chromatin remodelers. SWI/SNF: switch/sucrose nonfermentable. ISWI: Imitation Switch. CHD: chromodomain-helicase DNA-binding. INO: Inositol-requiring mutant 80. The names of the subunits are mostly limited to mammals; several common alternative names from other model organisms were included.

ALT Timeline of the discovery of key subunits of chromatin remodelers. SWI/SNF: switch/sucrose nonfermentable. ISWI: Imitation Switch. CHD: chromodomain-helicase DNA-binding. INO: Inositol-requiring mutant 80. The names of the subunits are mostly limited to mammals; several common alternative names from other model organisms were included.

Aberrant chromatin remodeling in cancer. Chromatin remodeling plays a critical role in DNA repair. First-level chromatin remodelers are recruited to double-strand break (DSB) sites, sustain DSB signaling, and can shift repair from homologous recombination (HR) to nonhomologous end joining (NHEJ), thereby facilitating DNA repair. Higher-order chromatin remodeling promotes DNA repair by segregating damaged chromatin. Aberrant chromatin remodeling leads to inefficient DNA repair and increases tumor cell sensitivity to DNA damage. Therefore, in tumors harboring inactivating mutations in chromatin remodelers, combination therapy with PARP inhibitors can achieve synthetic lethality.

ALT Aberrant chromatin remodeling in cancer. Chromatin remodeling plays a critical role in DNA repair. First-level chromatin remodelers are recruited to double-strand break (DSB) sites, sustain DSB signaling, and can shift repair from homologous recombination (HR) to nonhomologous end joining (NHEJ), thereby facilitating DNA repair. Higher-order chromatin remodeling promotes DNA repair by segregating damaged chromatin. Aberrant chromatin remodeling leads to inefficient DNA repair and increases tumor cell sensitivity to DNA damage. Therefore, in tumors harboring inactivating mutations in chromatin remodelers, combination therapy with PARP inhibitors can achieve synthetic lethality.

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Alexandre Marand retweeted
Anshul Kundaje@anshulkundajeAug 5
Very excited to announce ENCODE GRAMMAR (Genomic Regulatory Atlas of sequence Models, Motifs, Annotations & Rules): 3,865 experiment-specific deep learning model sets and sequence annotations for decoding human regulatory DNA. 1/
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Alexandre Marand retweeted
Bob Schmitz@Schmitz_LabAug 6
Mutational consequences of perturbing DNA repair and chromatin state in Arabidopsis biorxiv.org/content/10.64898… Fantastic job Cullan!

Mutational consequences of perturbing DNA repair and chromatin state in Arabidopsis

Mutation rate varies throughout an organism’s genome and correlates with many factors, including primary sequence, DNA methylation, gene content, chromatin accessibility, replication timing, and...

biorxiv.org
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Alexandre Marand retweeted
Bob Schmitz@Schmitz_LabAug 6
Here is a neat story led by Alex Tadros on the history of Arabidopsis laboratory stocks. They can be diverged by over 100 generations! Genetic and epigenetic divergence among Arabidopsis thaliana Col-0 laboratory lineages since the 1950s biorxiv.org/content/10.64898…

Genetic and epigenetic divergence among Arabidopsis thaliana Col-0 laboratory lineages since the...

The model plant Arabidopsis thaliana has been a workhorse of plant biology since the 1950s, when the Columbia-0 (Col-0) accession was widely adopted by the research community as a reference genotype....

biorxiv.org
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Alexandre Marand retweeted
Jay Shendure@JShendureJul 31
Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote 1/n
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Alexandre Marand retweeted
Joe Ecker@JoeEckerJul 30
Amazing convergence of finding using orthogonal approaches - congrats Julia et al!
Julia Belk
@juliabelkJul 30
Replying to @juliabelk
Serendipitously, Nathan Zemke, Bing Ren, and @JoeEcker discovered the same phenomenon using a different approach: single cell methylation. Collectively, these data show that the replacement of yolk sac microglia by monocytes starts in middle age and is ~complete by age ~80. 5/ science.org/doi/10.1126/scie…

Epigenetic and 3D genome reprogramming during the aging of the human hippocampus

Changes in gene expression have been observed in the aging human brain, but our understanding of the underlying regulatory mechanisms remains limited. To unravel these complexities, we analyzed...

science.org
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