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Limb connective tissue is organized in a continuum of promiscuous fibroblast identities during development

ABSTRACT: Limb connective tissue is organized in a continuum of promiscuous fibroblast identities during development

PROVIDER: PRJNA1087332 | ENA |

REPOSITORIES: ENA

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Limb connective tissue is organized in a continuum of promiscuous fibroblast identities during development

Project description:Although connective tissues play critical roles in development, our understanding of connective tissue fibroblast developmental programs lag behind that of other components of the musculoskeletal system mainly because fibroblasts are highly heterogeneous and poorly characterized. Combining single-cell RNA-sequencing-based strategies, including trajectory inference, and in situ hybridization analyses, we address the diversity of connective tissue fibroblasts and their developmental trajectories during chicken limb foetal development. We show that fibroblasts switch from a positional information to a lineage diversification program during their development. Muscle connective tissue and tendon contain several fibroblast populations that emerge asynchronously. In fine, these populations map to distinct layers, prefiguring the adult fibroblast layers. Populations that are close in transcriptional identity are found in neighboring layers. Altogether, we propose that the limb connective tissue is organised in a continuum of promiscuous fibroblasts identities, allowing for the robust and efficient connection of highly different tissues such as muscle, bone and skin.

2024-07-19 | GSE261503 | GEO

Transcriptome profiling across the cell wall expansion continuum in the Arabidopsis primary stem

Project description:Comparison of full-genome transcriptome profiles of four stages along the cell wall expansion continuum of the elongating inflorescence primary stem of Arabiopdis thaliana; plants ranging in height from 10-15cm.

2012-01-26 | E-MEXP-3525 | biostudies-arrayexpress

land-sea continuum microcosm

Project description:land-sea continuum microcosm Raw sequence reads

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Genome-wide strategies identify downstream target genes of connective tissue-associated transcription factors [RNA-seq]

Project description:Connective tissues support organs and play crucial roles in development, homeostasis and fibrosis, yet our understanding of their formation is still limited. To gain insight into the molecular mechanisms of connective tissue specification, we selected five zinc finger transcription factors - OSR1, OSR2, EGR1, KLF2 and KLF4 - based on their expression patterns and/or known involvement in connective tissue subtype differentiation. RNA-seq and ChIP-seq profiling revealed a set of common genes regulated by all five transcription factors, which we propose as connective tissue core expression set. This common core was enriched in genes associated with axon guidance and myofibroblast signature, including fibrosis-related genes. In addition, each transcription factor regulated a specific set of signalling molecules and extracellular matrix components. This suggests a concept whereby local molecular niches can be created via the expression of specific transcription factors impinging on the specification of local microenvironments. The regulatory network established here identifies common and distinct molecular signatures of limb connective tissue subtypes, provides novel insight into the signalling pathways governing connective tissue specification, and serves as a resource for connective tissue development.

2017-07-19 | GSE100516 | GEO

RNAseq of cell populations across the pluripotency continuum

Project description:This project involved bulk-RNAseq analysis of four stages across the pluripotency continuum in two cell lines - ground state, naïve, early primitive ectoderm-like and epiblast stem cells

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Co-translational assembly counteracts promiscuous interactions - addendum

Project description:Co-translational assembly counteracts promiscuous interactions - addendum

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Genome-wide strategies identify downstream target genes of connective tissue-associated transcription factors [ChIP-seq TFs]

2017-07-19 | GSE100515 | GEO

Genome-wide strategies identify downstream target genes of connective tissue-associated transcription factors [ChIP-seq Histones]

2017-07-19 | GSE100514 | GEO

Epigenome analysis of adipose/connective tissue from thyroid-associated ophthalmopathy

Project description:Using Illumina Infinium MethylationEPIC 850K BeadChip, the genome-wide DNA methylation difference between adipose/connective tissue from TAO patients and normal subjects were compared

2021-09-29 | GSE175399 | GEO

A bacteriophage enzyme induces bacterial metabolic perturbation that confers a novel promiscuous function.

Project description:One key concept in the evolution of new functions is the ability of enzymes to perform promiscuous side-reactions that serve as a source of novelty that may become beneficial under certain conditions. Here, we identify a mechanism where a bacteriophage-encoded enzyme introduces novelty by inducing expression of a promiscuous bacterial enzyme. By screening for bacteriophage DNA that rescued an auxotrophic E. coli mutant carrying a deletion of the ilvA gene, we show that bacteriophage-encoded S-adenosylmethionine (SAM) hydrolases reduce SAM levels. Via this perturbation of bacterial metabolism, expression of the promiscuous bacterial enzyme MetB is increased, which in turn complements the absence of IlvA. These results demonstrate how foreign DNA can increase the metabolic capacity of bacteria, not only by transfer of bona fide new genes, but also by bringing cryptic bacterial functions to light via perturbations of cellular physiology.

2018-04-11 | GSE92601 | GEO

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