Cell Reports · 2020 · 38 citations · 63 references
Life SciencesGeneticsMolecular BiologyGene ExpressionGenome EditingTranscriptional RegulationGene Expression RegulationHemoglobin PhysiologyRed Blood Cell PhysiologyStress Response GenesStress-responsive Gene RegulationTranscriptomics Of Stress ResponsesCellular Stress AdaptationCellular Stress SignalingCrispr-cas Genome EditingCrispr-cas RegulationHemoglobin Gene RegulationHemoglobin Synthesis DefectsRna SequencingRna Sequencing (Rna-seq)
β-Hemoglobinopathies can trigger rapid production of red blood cells in a process known as stress erythropoiesis. Cellular stress prompts differentiating erythroid precursors to express high levels of fetal γ-globin. However, the mechanisms underlying γ-globin production during cellular stress are still poorly defined. Here, we use CRISPR-Cas genome editing to model the stress caused by reduced levels of adult β-globin. We find that decreased β-globin is sufficient to induce robust re-expression of γ-globin, and RNA sequencing (RNA-seq) of differentiating isogenic erythroid precursors implicates ATF4 as a causal regulator of this response. ATF4 binds within the HBS1L-MYB intergenic enhancer and regulates expression of MYB, a known γ-globin regulator. Overall, the reduction of ATF4 upon β-globin knockout decreases the levels of MYB and BCL11A. Identification of ATF4 as a key regulator of globin compensation adds mechanistic insight to the poorly understood phenomenon of stress-induced globin compensation and could inform strategies to treat hemoglobinopathies.
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Model-based Analysis of ChIP-Seq (MACS)
Yong Zhang, Tao Liu, Clifford A. Meyer et al. · Genome biology · 2008 · 19.9K citations · Full text
An integrated encyclopedia of DNA elements in the human genome
Near-optimal probabilistic RNA-seq quantification
Nicolas Bray, Harold Pimentel, Páll Melsted et al. · Nature Biotechnology · 2016 · 11K citations · Full text