Publisher Correction: Tracing the temporal-spatial transcriptome landscapes of the human fetal digestive tract using single-cell RNA-sequencing

Gao, Shuai; Yan, Liying; Wang, Rui; Li, Jingyun; Yong, Jun; Zhou, Xin; Yuan, Wei; Wu, Xinglong; Fan, Xiaoying; Yan, Jie; Zhi, Xu; Gao, Yun; Guo, Hongshan; Xiao, Jin; Wang, Wendong; Mao, Yunuo; Wang, Fengchao; Wen, Lu; Fu, Wei; Ge, Hao; Qiao, Jie; Tang, Fuchou

doi:10.1038/s41556-018-0165-5

Cited by 18 publications

(13 citation statements)

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“…Recent single-cell studies have been instrumental in interrogating critical events during intestinal development in humans, including intestinal regionalisation (Gao et al, 2018) and immune cell landscape development (Li et al, 2019;Schreurs et al, 2019). Here, we zoom-in on the first trimester development of the human intestine with the focus on epithelial cell type composition and dynamics during crypt-villus formation.…”

Section: Discussionmentioning

confidence: 99%

“…Recent advances in the field of single-cell sequencing (scRNAseq) have opened novel opportunities to shed further light on these complex processes. Recent studies have used scRNAseq to interrogate intestinal regional specification in mice and humans (Gao et al, 2018;Nowotschin et al, 2019). However, human crypt-villi formation and epithelial dynamics have not yet been explored.…”

Section: Introductionmentioning

confidence: 99%

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Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn’s disease

Elmentaite

Ross

James

et al. 2020

Preprint

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Human gut development requires the orchestrated interaction of various differentiating cell types. Here we generate an in-depth single-cell map of the developing human intestine at 6-10 weeks post-conception, a period marked by crypt-villus formation. Our analysis reveals the transcriptional profile of cycling epithelial precursor cells, which are distinct from LGR5expressing cells. We use computational analyses to show that these cells contribute to differentiated cell subsets directly and indirectly via the generation of LGR5-expressing stem cells and receive signals from the surrounding mesenchymal cells. Furthermore, we draw parallels between the transcriptomes of ex vivo tissues and in vitro fetal organoids, revealing the maturation of organoid cultures in a dish. Lastly, we compare scRNAseq profiles from paediatric Crohn's disease epithelium alongside matched healthy controls to reveal disease associated changes in epithelial composition. Contrasting these with the fetal profiles reveals re-activation of fetal transcription factors in Crohn's disease epithelium. Our study provides a unique resource, available at www.gutcellatlas.org, and underscores the importance of unravelling fetal development in understanding disease.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn’s disease

Elmentaite

Ross

James

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…Nevertheless, the cross-talk between epithelial cell subsets and other mucosal cell types, as well as cell lineage trajectories, remain unknown. Recent studies have used single-cell RNA sequencing (scRNA-seq) to interrogate intestinal regional specification and immune system development in mice and humans (Gao et al, 2018;Nowotschin et al, 2019;Czerwinski et al, 2020;Yu et al, 2020;Li et al, 2019;Schreurs et al, 2019). However, human villus formation and epithelial dynamics have not yet been explored in detail.…”

Section: Introductionmentioning

confidence: 99%

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s Disease

et al. 2020

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Summary Human gut development requires the orchestrated interaction of differentiating cell types. Here, we generate an in-depth single-cell map of the developing human intestine at 6–10 weeks post-conception. Our analysis reveals the transcriptional profile of cycling epithelial precursor cells; distinct from LGR5-expressing cells. We propose that these cells may contribute to differentiated cell subsets via the generation of LGR5-expressing stem cells and receive signals from surrounding mesenchymal cells. Furthermore, we draw parallels between the transcriptomes of ex vivo tissues and in vitro fetal organoids, revealing the maturation of organoid cultures in a dish. Lastly, we compare scRNA-seq profiles from pediatric Crohn’s disease epithelium alongside matched healthy controls to reveal disease-associated changes in the epithelial composition. Contrasting these with the fetal profiles reveals the re-activation of fetal transcription factors in Crohn’s disease. Our study provides a resource available at www.gutcellatlas.org , and underscores the importance of unraveling fetal development in understanding disease.

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“…We examined the aforementioned phenomena from the perspective of epigenetics. The process of differentiation of stem cells into adult cells is accompanied with dramatic phenotypic changes, and there are different regulationsof certain genes at the transcriptional and post-transcriptional level, whichare often closely related to different types of epigenetic regulation [24][25][26][27][28]. This study focused on a well-known epigenetic regulator, Yin yang-1 (YY1).YY1 was first cloned and defined by Park and Shi et al in 1991 [32].…”

Section: Discussionmentioning

confidence: 99%

“…Moreover, many studies have reported that with cell development or the directed differentiation of stem cells, the epigenetic regulations also change dramatically [24][25][26][27][28]. This change is usually accompanied by modifications in DNA hydroxymethylation and histone methylation [24][25][26][27][28]. YY1 and TET2 play a key role in the abovementioned epigenetic modifications.…”

Section: Introductionmentioning

confidence: 99%

miR-544 promotes maturity and antioxidation of stem cell-derived endothelial like cells by regulating the YY1/TET2 signalling axis

et al. 2020

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Background: Inflammation and oxidative stress induced by oxidized low density lipoprotein are the main causes of vascular endothelial injury and atherosclerosis. Endothelial cells are important for the formation and repair of blood vessels. However, the detailed mechanism underlying the regulation of maturity and antioxidation of stem cellderived endothelial like cells remains unclear. Besides, YY1 and TET2 play a key role on epigenetic modifications of proliferation and differentiation of stem cells. However, the regulatory mechanism of epigenetic modification induced by YY1 and TET2 on stem cells to iECICs is also not clear. Aim: Here, we want to investigate detailed mechanism underlying the regulation of maturity and antioxidation of stem cell-derived iECICs by by YY1 and TET2. Methods: The qPCR, Western blot, immunohistochemical staining and flow cytometric analysis were used to analyze the expression level of each gene. Luciferase reporter assay was used to detect the binding sites between microRNA and target genes. The hMeDIP-sequence, ChIP-PCR and dot blot were used to detect the 5hydroxymethylcytosine modification of genomic DNA. ATP, ROS, SOD assay were used to evaluate of oxidative stress in cells. The iECICs transplantation group The ApoE−/− mice were intravenous injected of iECICs to evaluation of therapeutic effect in vivo. Results: Our studies have found that as the differentiation of human amniotic epithelial cells (HuAECs) is directed towards iECICs in vitro, the expression levels of vascular endothelial cell markers and miR-544 increase significantly and the expression level of YinYang 1 (YY1) decreases significantly. The luciferase reporter assay suggests that Yy1 is one of the targets of miR-544. Hydroxymethylated DNA immunoprecipitation sequencing showed that compared with HuAECs, iECICs had 174 protein-coding DNA sequences with extensive hydroxymethylation modifications. Overexpression of miR-544 inhibits the activity of the YY1/PRC2 complex and promotes the transcription and expression of the ten-eleven translocation 2 (TET2) gene, thereby activating the key factors of the serotonergic synapse pathway, CACNA1F, and CYP2D6. In addition, it promotes ability of maturity, antioxidation and vascular formation in vitro. Meanwhile, transplantation for miR-544-iECICs can significantly relieve oxidative stress injury on ApoE−/− atherosclerotic mice in vivo.

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Publisher Correction: Tracing the temporal-spatial transcriptome landscapes of the human fetal digestive tract using single-cell RNA-sequencing

Cited by 18 publications

References 0 publications

Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn’s disease

Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn’s disease

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s Disease

miR-544 promotes maturity and antioxidation of stem cell-derived endothelial like cells by regulating the YY1/TET2 signalling axis

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