Zihao Zhu
@zihaozhu.bsky.social
plant (epi)genomics | ecophysiology | evolution & conservation | barley & more 🌾🌈
Pinned
Zihao Zhu
@zihaozhu.bsky.social
· Oct 11
Epigenome and interactome profiling uncovers principles of distal regulation in the barley genome
Navratilova et al. profiled several epigenetic features across three stages of barley
embryo and leaves and predicted regulatory potential for 1.4% of the barley genome.
Using HiChIP, they linked part...
www.cell.com
Great to be part of this! The barley epigenome and interactome are now online 🌾🧬 time to explore them via the interactive epigenome browser and stay tuned for more genotypes in the pan-epigenome…
www.cell.com/cell-genomic...
www.cell.com/cell-genomic...
Reposted by Zihao Zhu
Out today, our take on 6-methyladenine #6mA evolution in Eukaryotes @natgenet.nature.com. We asked a simple question, is really DNA 6mA common across the eukaryotes? The answer is "yes" if you're a unicellular eukaryote 🦠, not so if you're multicellular 🐝🌱🍄. www.nature.com/articles/s41... 1/9
Adenine DNA methylation associated with transcriptionally permissive chromatin is widespread across eukaryotes - Nature Genetics
Long-read sequencing in 18 unicellular eukaryotes reveals that 6mA is widespread across eukaryotes and is enriched at transcriptionally permissive regions, which are also marked by H3K4me3.
www.nature.com
November 18, 2025 at 12:00 PM
Out today, our take on 6-methyladenine #6mA evolution in Eukaryotes @natgenet.nature.com. We asked a simple question, is really DNA 6mA common across the eukaryotes? The answer is "yes" if you're a unicellular eukaryote 🦠, not so if you're multicellular 🐝🌱🍄. www.nature.com/articles/s41... 1/9
Reposted by Zihao Zhu
🌱 Postdoc position in Plant Genomics/Bioinformatics!
Love genome plasticity, computational methods, and solving big questions in plant biology? Join our newly established Institute for Crop Biology at HHU Düsseldorf.
More info on schneebergerlab.org/career/
Apply by Nov. 30 | 3-year position
Love genome plasticity, computational methods, and solving big questions in plant biology? Join our newly established Institute for Crop Biology at HHU Düsseldorf.
More info on schneebergerlab.org/career/
Apply by Nov. 30 | 3-year position
Career – Schneeberger Lab
schneebergerlab.org
November 11, 2025 at 9:50 AM
🌱 Postdoc position in Plant Genomics/Bioinformatics!
Love genome plasticity, computational methods, and solving big questions in plant biology? Join our newly established Institute for Crop Biology at HHU Düsseldorf.
More info on schneebergerlab.org/career/
Apply by Nov. 30 | 3-year position
Love genome plasticity, computational methods, and solving big questions in plant biology? Join our newly established Institute for Crop Biology at HHU Düsseldorf.
More info on schneebergerlab.org/career/
Apply by Nov. 30 | 3-year position
Reposted by Zihao Zhu
Postdomestication selection of MKK3 shaped seed dormancy and end-use traits in barley
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Postdomestication selection of MKK3 shaped seed dormancy and end-use traits in barley
Anthropogenic selection of grain traits such as dormancy has shaped the developmental trajectories of crops. In cereals, shortening dormancy provides rapid and even post-harvest germination, but incre...
www.science.org
November 7, 2025 at 7:52 AM
Postdomestication selection of MKK3 shaped seed dormancy and end-use traits in barley
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Zihao Zhu
Our latest paper has just been published in Cell!
doi.org/10.1016/j.ce...
We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.
doi.org/10.1016/j.ce...
We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.
November 5, 2025 at 5:20 PM
Our latest paper has just been published in Cell!
doi.org/10.1016/j.ce...
We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.
doi.org/10.1016/j.ce...
We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.
Great to be part of this! The barley epigenome and interactome are now online 🌾🧬 time to explore them via the interactive epigenome browser and stay tuned for more genotypes in the pan-epigenome…
www.cell.com/cell-genomic...
www.cell.com/cell-genomic...
Epigenome and interactome profiling uncovers principles of distal regulation in the barley genome
Navratilova et al. profiled several epigenetic features across three stages of barley
embryo and leaves and predicted regulatory potential for 1.4% of the barley genome.
Using HiChIP, they linked part...
www.cell.com
October 11, 2025 at 6:28 AM
Great to be part of this! The barley epigenome and interactome are now online 🌾🧬 time to explore them via the interactive epigenome browser and stay tuned for more genotypes in the pan-epigenome…
www.cell.com/cell-genomic...
www.cell.com/cell-genomic...
Sustained cereal bowl amidst global warming: Trends in Plant Science www.cell.com/trends/plant...
Sustained cereal bowl amidst global warming
High day and night temperatures impair grain yield and quality in major cereal crops
such as rice, maize, and wheat, posing a major challenge under global warming. In
this review, we have highlighted ...
www.cell.com
October 8, 2025 at 7:52 AM
Sustained cereal bowl amidst global warming: Trends in Plant Science www.cell.com/trends/plant...
Reposted by Zihao Zhu
‼️ IBH Seminar Announcement ‼️
🔊 Klaus Pillen, Martin-Luther-University Halle, Germany
@unihalle.bsky.social
📜 Exploring Wild Barley Alleles to Improve Stress Tolerance in Elite Barley
⏰ Thursday, October 2, 2025 14:00 BST
🔌 hutton.webex.com/weblink/regi...
🔊 Klaus Pillen, Martin-Luther-University Halle, Germany
@unihalle.bsky.social
📜 Exploring Wild Barley Alleles to Improve Stress Tolerance in Elite Barley
⏰ Thursday, October 2, 2025 14:00 BST
🔌 hutton.webex.com/weblink/regi...
September 30, 2025 at 10:54 AM
‼️ IBH Seminar Announcement ‼️
🔊 Klaus Pillen, Martin-Luther-University Halle, Germany
@unihalle.bsky.social
📜 Exploring Wild Barley Alleles to Improve Stress Tolerance in Elite Barley
⏰ Thursday, October 2, 2025 14:00 BST
🔌 hutton.webex.com/weblink/regi...
🔊 Klaus Pillen, Martin-Luther-University Halle, Germany
@unihalle.bsky.social
📜 Exploring Wild Barley Alleles to Improve Stress Tolerance in Elite Barley
⏰ Thursday, October 2, 2025 14:00 BST
🔌 hutton.webex.com/weblink/regi...
Reposted by Zihao Zhu
Professorship in Plant Genetics at Kiel University, Germany
The Botanical Institute at Kiel University invites applications for a W2 Professorship in Plant Genetics. Focus: stress responses, epigenetics, and plant-environment interactions. Apply by 19 October 2025.
The Botanical Institute at Kiel University invites applications for a W2 Professorship in Plant Genetics. Focus: stress responses, epigenetics, and plant-environment interactions. Apply by 19 October 2025.
Professorship in Plant Genetics at Kiel University, Germany
The Botanical Institute at Kiel University invites applications for a W2 Professorship in Plant Genetics. Focus: stress responses, epigenetics, and plant-environment interactions. Apply by 19 October 2025.
agristok.net
September 28, 2025 at 2:19 AM
Professorship in Plant Genetics at Kiel University, Germany
The Botanical Institute at Kiel University invites applications for a W2 Professorship in Plant Genetics. Focus: stress responses, epigenetics, and plant-environment interactions. Apply by 19 October 2025.
The Botanical Institute at Kiel University invites applications for a W2 Professorship in Plant Genetics. Focus: stress responses, epigenetics, and plant-environment interactions. Apply by 19 October 2025.
Reposted by Zihao Zhu
🌱🧬 "Advances in seed omics" now published in its complete form @jxbotany.bsky.social
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
September 25, 2025 at 3:02 AM
🌱🧬 "Advances in seed omics" now published in its complete form @jxbotany.bsky.social
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
Reposted by Zihao Zhu
I am editing a collection on "plant epigenetic regulation" for BMC Plant Biology. If you think that your paper might fit there please contact me or send it through the submission system to our collection: www.biomedcentral.com/collections/...
Call for papers - Plant epigenetic regulation
www.biomedcentral.com
September 16, 2025 at 1:24 PM
I am editing a collection on "plant epigenetic regulation" for BMC Plant Biology. If you think that your paper might fit there please contact me or send it through the submission system to our collection: www.biomedcentral.com/collections/...
Reposted by Zihao Zhu
MSU is great place to do plant science research. My lab will be a great place to develop new expertise in genomics and plant molecular biology.
Application instruction and link: careers.msu.edu/jobs/researc...
Please email me if you have any questions.
Application instruction and link: careers.msu.edu/jobs/researc...
Please email me if you have any questions.
Research Associate-Fixed Term - East Lansing, Michigan, United States
Position Summary
The Li lab in the Department of Plant Biology is recruiting a postdoctoral research associate to work on project(s) in plant molecular biology, biochemistry, and/or genomics. The idea...
careers.msu.edu
September 4, 2025 at 2:00 PM
MSU is great place to do plant science research. My lab will be a great place to develop new expertise in genomics and plant molecular biology.
Application instruction and link: careers.msu.edu/jobs/researc...
Please email me if you have any questions.
Application instruction and link: careers.msu.edu/jobs/researc...
Please email me if you have any questions.
In our recent work on CCT motif genes in the barley pangenome, we emphasize the importance of carefully verifying gene annotations for accurate gene family analysis. 1/5 acsess.onlinelibrary.wiley.com/doi/10.1002/...
Pangenome insights into structural variation and functional diversification of barley CCT motif genes
Gene family studies require genomic and transcriptomic integration to ensure accurate annotations. Barley pangenome reveals variation and diversification dynamics in CONSTANS, CONSTANS-LIKE, TIMING ...
acsess.onlinelibrary.wiley.com
September 1, 2025 at 8:16 AM
In our recent work on CCT motif genes in the barley pangenome, we emphasize the importance of carefully verifying gene annotations for accurate gene family analysis. 1/5 acsess.onlinelibrary.wiley.com/doi/10.1002/...
Reposted by Zihao Zhu
A chromosome-scale genome assembly of Hordeum erectifolium: genomic, transcriptomic and anatomical adaptations to drought in a wild barley relative
doi.org/10.1101/2025...
doi.org/10.1101/2025...
A chromosome-scale genome assembly of Hordeum
erectifolium: genomic, transcriptomic and anatomical
adaptations to drought in a wild barley relative
Wild crop relatives are valuable genetic resources for improving stress adaptation in cultivated species, but their effective use depends on high-quality reference genomes integrated with phenotypic a...
doi.org
September 1, 2025 at 5:13 AM
A chromosome-scale genome assembly of Hordeum erectifolium: genomic, transcriptomic and anatomical adaptations to drought in a wild barley relative
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Reposted by Zihao Zhu
Determining presence-absence variation (PAV) across reference genomes is a major goal of pangenome analysis. It turns out that A LOT of gene PAV is due to methodological artifacts.
We explore the causes of this in soybean and cotton datasets in our recent preprint: www.biorxiv.org/content/10.1...
We explore the causes of this in soybean and cotton datasets in our recent preprint: www.biorxiv.org/content/10.1...
August 18, 2025 at 4:51 PM
Determining presence-absence variation (PAV) across reference genomes is a major goal of pangenome analysis. It turns out that A LOT of gene PAV is due to methodological artifacts.
We explore the causes of this in soybean and cotton datasets in our recent preprint: www.biorxiv.org/content/10.1...
We explore the causes of this in soybean and cotton datasets in our recent preprint: www.biorxiv.org/content/10.1...
Reposted by Zihao Zhu
One more week to apply for this exciting Professorship in Plant Sciences at Uni Halle! Join our vibrant plant research community 🌱
Info 👉 wcms.itz.uni-halle.de/download.php...
@unihalle.bsky.social @snp2prot.bsky.social
Info 👉 wcms.itz.uni-halle.de/download.php...
@unihalle.bsky.social @snp2prot.bsky.social
wcms.itz.uni-halle.de
July 17, 2025 at 11:12 AM
One more week to apply for this exciting Professorship in Plant Sciences at Uni Halle! Join our vibrant plant research community 🌱
Info 👉 wcms.itz.uni-halle.de/download.php...
@unihalle.bsky.social @snp2prot.bsky.social
Info 👉 wcms.itz.uni-halle.de/download.php...
@unihalle.bsky.social @snp2prot.bsky.social
Reposted by Zihao Zhu
Wild plants can contribute valuable genes to their domesticated relatives. An international research team led by the @leibnizipk.bsky.social constructed a pangenome of barley’s closest wild relative, Hordeum bulbosum. Results in @nature.com.
➡️PR: tinyurl.com/45ysmkys
➡️Paper: tinyurl.com/msm4sudb
➡️PR: tinyurl.com/45ysmkys
➡️Paper: tinyurl.com/msm4sudb
July 9, 2025 at 4:12 PM
Wild plants can contribute valuable genes to their domesticated relatives. An international research team led by the @leibnizipk.bsky.social constructed a pangenome of barley’s closest wild relative, Hordeum bulbosum. Results in @nature.com.
➡️PR: tinyurl.com/45ysmkys
➡️Paper: tinyurl.com/msm4sudb
➡️PR: tinyurl.com/45ysmkys
➡️Paper: tinyurl.com/msm4sudb
Reposted by Zihao Zhu
🎉 Good news! The paper ‘Hormonal regulation of root growth under moderately elevated temperatures’ in @annbot.bsky.social by Tilman Jacob and co-authors is now #free for a limited time 🧵(1/7)
👉 doi.org/ps8z
@unihalle.bsky.social @snp2prot.bsky.social
#AoBpapers #PlantScience #Roots #Botany
👉 doi.org/ps8z
@unihalle.bsky.social @snp2prot.bsky.social
#AoBpapers #PlantScience #Roots #Botany
July 3, 2025 at 12:20 PM
🎉 Good news! The paper ‘Hormonal regulation of root growth under moderately elevated temperatures’ in @annbot.bsky.social by Tilman Jacob and co-authors is now #free for a limited time 🧵(1/7)
👉 doi.org/ps8z
@unihalle.bsky.social @snp2prot.bsky.social
#AoBpapers #PlantScience #Roots #Botany
👉 doi.org/ps8z
@unihalle.bsky.social @snp2prot.bsky.social
#AoBpapers #PlantScience #Roots #Botany
Reposted by Zihao Zhu
Temperature is so important for plants that they have come up with many independent temperature sensors.
Curious? Read more in this review by former WeigelWorld members Sridevi Sureshkumar & Suresh Balasubramanian.
#plantscience
www.science.org/doi/10.1126/...
Curious? Read more in this review by former WeigelWorld members Sridevi Sureshkumar & Suresh Balasubramanian.
#plantscience
www.science.org/doi/10.1126/...
June 13, 2025 at 5:40 AM
Temperature is so important for plants that they have come up with many independent temperature sensors.
Curious? Read more in this review by former WeigelWorld members Sridevi Sureshkumar & Suresh Balasubramanian.
#plantscience
www.science.org/doi/10.1126/...
Curious? Read more in this review by former WeigelWorld members Sridevi Sureshkumar & Suresh Balasubramanian.
#plantscience
www.science.org/doi/10.1126/...
Reposted by Zihao Zhu
Plant Science Research Weekly: June 6, 2/2 plantae.org/plant-scienc... Stochastic gene expression in development; Cell wall controls cell fate; Transgenerational epigenetic cold tolerance; CCR1 regulates cluster root formation and root development; Molecular epidemiology of wheat powdery mildew
June 6, 2025 at 7:09 AM
Plant Science Research Weekly: June 6, 2/2 plantae.org/plant-scienc... Stochastic gene expression in development; Cell wall controls cell fate; Transgenerational epigenetic cold tolerance; CCR1 regulates cluster root formation and root development; Molecular epidemiology of wheat powdery mildew
Reposted by Zihao Zhu
The research group “Plant Architecture” is interested in questions concerning how cereal inflorescences develop and how this contributes to yield formation. If you have a PhD in agriculture, biology or any related field, we have a job offer!
➡️Read more: tinyurl.com/4fw5rk5y
➡️Read more: tinyurl.com/4fw5rk5y
May 15, 2025 at 9:36 AM
The research group “Plant Architecture” is interested in questions concerning how cereal inflorescences develop and how this contributes to yield formation. If you have a PhD in agriculture, biology or any related field, we have a job offer!
➡️Read more: tinyurl.com/4fw5rk5y
➡️Read more: tinyurl.com/4fw5rk5y
Reposted by Zihao Zhu
"Epigenetic perspectives on wheat speciation, adaptation, and development"
by Jun Xiao and colleagues
FREE till June 28th using this link:
authors.elsevier.com/a/1l3k5cQbJF...
by Jun Xiao and colleagues
FREE till June 28th using this link:
authors.elsevier.com/a/1l3k5cQbJF...
May 12, 2025 at 3:14 PM
"Epigenetic perspectives on wheat speciation, adaptation, and development"
by Jun Xiao and colleagues
FREE till June 28th using this link:
authors.elsevier.com/a/1l3k5cQbJF...
by Jun Xiao and colleagues
FREE till June 28th using this link:
authors.elsevier.com/a/1l3k5cQbJF...
Reposted by Zihao Zhu
Please share: Two PhD positions in Plant Photobiology in our lab @w-u-r.bsky.social in Wageningen University, the Netherlands:
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
PhD candidate Plant Light Signalling
www.wur.nl
May 12, 2025 at 12:54 PM
Please share: Two PhD positions in Plant Photobiology in our lab @w-u-r.bsky.social in Wageningen University, the Netherlands:
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
Reposted by Zihao Zhu
Early Flowering 3 (ELF3) inhibits hypocotyl phototropism in light-grown Arabidopsis seedlings. https://www.biorxiv.org/content/10.1101/2025.04.09.647958v1
April 15, 2025 at 8:02 PM
Early Flowering 3 (ELF3) inhibits hypocotyl phototropism in light-grown Arabidopsis seedlings. https://www.biorxiv.org/content/10.1101/2025.04.09.647958v1
Reposted by Zihao Zhu
𝐍𝐞𝐰 𝐢𝐧𝐬𝐢𝐠𝐡𝐭𝐬 𝐢𝐧𝐭𝐨 𝐫𝐢𝐜𝐞 𝐠𝐫𝐚𝐢𝐧 𝐬𝐢𝐳𝐞! 🌾
Time-course transcriptome & chromatin accessibility analyses reveal the dynamic transcriptional regulation shaping spikelet hull size
📖 doi.org/10.1111/tpj.70141
by Chen et al
RNAseq & ATACseq➡️chromatin dynamics&transcription networks shape spikelet hull size
Time-course transcriptome & chromatin accessibility analyses reveal the dynamic transcriptional regulation shaping spikelet hull size
📖 doi.org/10.1111/tpj.70141
by Chen et al
RNAseq & ATACseq➡️chromatin dynamics&transcription networks shape spikelet hull size
Time‐course transcriptome and chromatin accessibility analyses reveal the dynamic transcriptional regulation shaping spikelet hull size
In this study, we applied time-course RNA-seq and ATAC-seq analyses to characterize the transcriptional and chromatin accessibility dynamics during the development of the spikelet hull. Our results p...
doi.org
April 11, 2025 at 10:21 AM
𝐍𝐞𝐰 𝐢𝐧𝐬𝐢𝐠𝐡𝐭𝐬 𝐢𝐧𝐭𝐨 𝐫𝐢𝐜𝐞 𝐠𝐫𝐚𝐢𝐧 𝐬𝐢𝐳𝐞! 🌾
Time-course transcriptome & chromatin accessibility analyses reveal the dynamic transcriptional regulation shaping spikelet hull size
📖 doi.org/10.1111/tpj.70141
by Chen et al
RNAseq & ATACseq➡️chromatin dynamics&transcription networks shape spikelet hull size
Time-course transcriptome & chromatin accessibility analyses reveal the dynamic transcriptional regulation shaping spikelet hull size
📖 doi.org/10.1111/tpj.70141
by Chen et al
RNAseq & ATACseq➡️chromatin dynamics&transcription networks shape spikelet hull size
Reposted by Zihao Zhu
We are looking for a postdoc to study the impact of interspecific variation of ELF3 at the #mlu-halle within the EU-funded research consortium #ValuePlant. www.verwaltung.uni-halle.de/dezern3/Auss... Please share within your networks!
www.verwaltung.uni-halle.de
March 11, 2025 at 8:35 AM
We are looking for a postdoc to study the impact of interspecific variation of ELF3 at the #mlu-halle within the EU-funded research consortium #ValuePlant. www.verwaltung.uni-halle.de/dezern3/Auss... Please share within your networks!