• 2016-10 — 2017-09
  美国密歇根大学
  医学院
  国家公派联合培养博士
• 2012-09 — 2018-01
  中国海洋大学
  水生生物学
  理学博士学位
• 2008-09 — 2012-07
  中国海洋大学
  生物科学
  理学学士

• 2022-01 — 至今
   山东大学，海洋学院 
  教授（杰出中青年学者）
• 2018-04 — 2021-09
   美国哥伦比亚大学，遗传发育系 
  博士后/副研究员

• 2025-12 — 至今
  SCI期刊 Marine Life Science & Technology（中科院一区 Top）编委
• 2019-05 — 2021-09
  纽约科学院（New York Academy of Sciences）成员
• 2017-07 — 至今
  国际原生生物学家学会（International Society of Protistologists）成员

细胞稳态的表观遗传调控与进化

多种癌症和遗传疾病由表观遗传因子突变导致的细胞稳态维持机制失效所引发，而目前治疗相关疾病的最大障碍是对其稳态维持机制的理解不足。增进对细胞稳态维持的表观遗传调控机制及其进化路径的了解，将有助于发现相关疾病的新靶点，为提出高效、可靠的诊疗策略奠定基础。

陈晓课题组目前聚焦的科学问题是：细胞在急性扰动后如何通过表观遗传调控实现稳态维持，并进一步形成胁迫记忆和快速响应？

1.细胞稳态的表观遗传调控与进化

(1) [Molecular Phylogenetics and Evolution, 2026] Algae-to-host horizontal gene transfer in Paramecium bursaria is associated with host adaptation during endosymbiosis

(2) [Zoological Research, 2026] Deciphering ribosomal frameshifting determinants across species with a semi-supervised hybrid learning framework

(3) [mBio, 2026] Molecular basis of the short- and long-term osmoregulation capability in the euryhaline unicellular eukaryote Paramecium calkinsi（封面文章）

(4) [mSystems, 2026] Probing the genomic and proteomic basis of encystment in Oxytricha granulifera（封面文章）

(5) [European Journal of Protistology, 2026] FScanR reveals widespread programmed ribosomal frameshifting consistent with neutral evolution in a ciliate model

(6) [Current Research in Microbial Sciences, 2026] Protrichocysts: a hybrid defense extrusive organelle bridging mechanical projection and chemical secretion in ciliates

(7) [Gene & Development, 2026] SMARCAL1 is a candidate therapeutic target for ALT-positive tumors

(8) [Nature Genetics, 2026] H3K27me3 spreading organizes canonical PRC1 chromatin architecture to regulate developmental programs

(9) [Nucleic Acids Research, 2025] Comprehensive genome annotation of the model ciliate Tetrahymena thermophila by in-depth epigenetic and transcriptomic profiling

(10) [Science China Life Sciences, 2025] Unveiling an ancient whole-genome duplication event in Stentor, the model unicellular eukaryotes

(11) [Cell, 2024] SMARCAL1 is a dual regulator of innate immune signaling and PD-L1 expression that promotes tumor immune evasion

(12) [Science Advances, 2024] Epigenetic regulation of p63 blocks squamous-to-neuroendocrine transdifferentiation in esophageal development and malignancy

(13) [Nature Communications, 2024] Rosiglitazone and trametinib exhibit potent anti-tumor activity in a mouse model of muscle invasive bladder cancer

(14) [Science China Life Sciences, 2024] Genes and proteins expressed at different life cycle stages in the model protist Euplotes vannus revealed by both transcriptomic and proteomic approaches

(15) [Cell Reports, 2024] Metabolic reprogramming by histone deacetylase inhibition preferentially targets NRF2-activated tumors

(16) [BMC Genomics, 2024] Decryption of the survival "black box": gene family expansion promotes the encystment in ciliated protists

(17) [BMC Biology, 2024] Genomic insights into the cellular specialization of predation in raptorial protists

(18) [European Journal of Protistology, 2024] Single-cell transcriptomic analysis reveals genome evolution in predatory litostomatean ciliates

(19) [Cell, 2023] Single substitution in H3.3G34 alters DNMT3A recruitment to cause progressive neurodegeneration

(20) [Nature Communications, 2023] Context-defined cancer co-dependency mapping identifies a functional interplay between PRC2 and MLL-MEN1 complex in lymphoma

(21) [Nucleic Acids Research, 2023] Annotation and evaluation of base editing outcomes in multiple cell types using CRISPRbase

(22) [Molecular Phylogenetics and Evolution, 2023] New evidence of consistency between phylogeny and morphology for two taxa in ciliated protists, the subclasses Oligotrichia and Choreotrichia (Protista, Ciliophora)

(23) [Marine Life Science & Technology, 2023] Invasion by exogenous RNA: cellular defense strategies and implications for RNA inference

(24) [Marine Life Science & Technology, 2023] Comparative genome analysis of three euplotid protists provides insights into the evolution of nanochromosomes in unicellular eukaryotic organisms

(25) [European Journal of Protistology, 2023] Single-cell transcriptome reveals cell division-regulated hub genes in unicellular eukaryote Paramecium

(26) [PNAS, 2022] CHAF1A/B mediate silencing of unintegrated HIV-1 DNAs early in infection

(27) [Molecular Cell, 2022] Histone methylation antagonism drives tumor immune evasion in squamous cell carcinomas

(28) [PLoS Genetics, 2022] The cAMP signaling pathway regulates Epe1 protein levels and heterochromatin assembly

(29) [Cell, 2021] Functional interrogation of DNA damage response variants with base editing screens

(30) [Nature Genetics, 2021] Two competing mechanisms of DNMT3A recruitment regulate the dynamics of de novo DNA methylation at PRC1-targeted CpG islands

(31) [PNAS, 2021] Depletion of H3K36me2 recapitulates epigenomic and phenotypic changes induced by the H3.3K36M oncohistone mutation

(32) [Molecular Cell, 2021] Histone H3.3 K27M and K36M mutations de-repress transposable elements through perturbation of antagonistic chromatin marks

(33) [Nature Communications, 2021] Pparg signaling controls bladder cancer subtype and immune exclusion

(34) [Cell Reports, 2021] Chromatin dysregulation associated with NSD1 mutation in head and neck squamous cell carcinoma

(35) [EMBO Reports, 2021] The interplay between DNA and histone methylation: molecular mechanisms and disease implications

(36) [Molecular Cancer Therapeutics, 2021] Growth inhibition and induction of innate immune signaling of chondrosarcomas with epigenetic inhibitors

(37) [Journal of Genetics and Genomics, 2021] Chromosome organization and gene expansion in the highly fragmented genome of the ciliate Strombidium stylifer

(38) [Cell Reports, 2020] The INO80 complex regulates epigenetic inheritance of heterochromatin

(39) [Marine Life Science & Technology, 2020] Functional analysis of the methyltransferase SMYD in the single‑cell model organism Tetrahymena thermophila

(40) [Nature, 2019] The histone mark H3K36me2 recruits DNMT3A and shapes the intergenic DNA methylation landscape

(41) [Nature Communications, 2019] Pparg promotes differentiation and regulates mitochondrial gene expression in bladder epithelial cells

(42) [Genes & Development, 2019] RNAi-dependent Polycomb repression controls transposable elements in Tetrahymena

(43) [Molecular Ecology Resources, 2019] Genome analyses of the new model protist Euplotes vannus focusing on genome rearrangement and resistance to environmental stressors

(44) [Marine Life Science & Technology, 2019] Our recent progress in epigenetic research using the model ciliate, Tetrahymena thermophila

(45) [Zoologica Scripta, 2019] Further analyses on the evolutionary "key-protist" Halteria (Protista, Ciliophora) based on transcriptomic data

(46) [Molecular Ecology Resources, 2018] GPSit: an automated method for evolutionary analysis of nonculturable ciliated microeukaryotes

(47) [Nucleic Acids Research, 2017] A germline-limited piggyBac transposase gene is required for precise excision in Tetrahymena genome rearrangement

(48) [Nucleic Acids Research, 2017] N6-adenine DNA methylation is associated with H2A.Z-containing well-positioned nucleosomes in Pol II-transcribed genes in Tetrahymena

(49) [European Journal of Protistology, 2017] A comparative study of genome organization and epigenetic mechanisms in model ciliates, with an emphasis on Tetrahymena, Paramecium and Oxytricha

(50) [Nucleic Acids Research, 2016] Dissecting relative contributions of cis- and trans-determinants to nucleosome distribution by comparing Tetrahymena macronuclear and micronuclear chromatin

(51) [Science China Life Sciences, 2016] Enzymatic and chemical mapping of nucleosome distribution in purified micro- and macronuclei of the ciliated model organism, Tetrahymena thermophila

(52) [Zoologica Scripta, 2016] New considerations on the phylogeny of cyrtophorian ciliates (Protozoa, Ciliophora): expanded sampling to understand their evolutionary relationships

(53) [Protein & Cell, 2015] Phylogenomics of non-model ciliates based on transcriptomic analyses

1. 2024/01 - 2026/12 国家海外高层次人才项目，主持

2. 2024/01 - 2028/12 山东大学“杰出中青年学者”项目，主持

3. 2023/01 - 2026/12 国家自然科学基金面上项目，主持

4. 2023/01 - 2025/12 山东省高等学校青创科技支持计划，主持

5. 2022/07 - 2025/06 江苏省自然科学基金青年科学基金项目，主持

6. 2022/01 - 2027/01 山东大学“齐鲁青年学者”项目，主持

1. 2023年 国家海外高层次人才

2. 2023年 山东大学“杰出中青年学者”

3. 2022年 青岛市科学技术奖自然科学奖一等奖

4. 2021年 山东大学“齐鲁青年学者”

5. 2019年 山东省优秀博士毕业论文

6. 2017年 国际原生生物学家学会“Holz-Conner”奖

1. Recognition of Histone Methylation and DNA by PWWP Domain: Mechanism and Function. In Chromatin Readers in Health and Disease.