run_metadata: 72126
This data as json
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| 72126 | SRR22366736 | SRX18337361 | SRS15826346 | SRP407292 | PRJNA900299 | Comparative single cell profiling reveals distinct cardiac resident macrophages essential for zebrafish heart regeneration | PRJNA900299 | Other | Zebrafish exhibit a robust ability to regenerate their hearts following injury and the immunesystem plays a key role in this process. We previously showed that delaying macrophage recruitmentby clodronate liposome CL treatment compromises neutrophil resolution and heart regeneration even when the infiltrating macrophage number was restored within the first xxx post injury Lai etal. 2017. Here we examined the molecular mechanisms underlying the cardiac repair of regenerativePBS control hearts vs. non regenerative CL treated hearts. Bulk transcriptomic analyses revealed thatCL treated hearts exhibited disrupted inflammatory resolution and energy metabolism during cardiacrepair. Temporal single cell profiling of inflammatory cells in regenerative vs. non regenerativeconditions further identified heterogenous macrophages and neutrophils with distinct infiltrationdynamics gene expression and cellular crosstalk. Among them two residential macrophagesubpopulations were enriched in regenerative hearts and barely recovered in non regenerative hearts.Early CL treatment at 8 days or even 1 month before cryoinjury led to the depletion of residentmacrophages without xxx the circulating macrophage recruitment to the injured area. Strikingly these resident macrophage deficient zebrafish still exhibited compromised neovascularization and scarresolution. Our results characterized the inflammatory cells of the zebrafish injured hearts andidentified key resident macrophage subpopulations prerequisite for successful heart regeneration. | single cell RNA seq of macrophage and neutrophil cells sorted from untouched zebrafish heart | single cell RNA seq of macrophage and neutrophil cells sorted from untouched zebrafish heart | sc UT | strain:wild type AB|age:3 month to 1 year old|sex:male and female|tissue:heart|cell type:macrophage and neutrophil|treatment:wild type heart|BioSampleModel:Model organism or animal | single cell RNA seq of macrophage and neutrophil cells sorted from zebrafish wild type heart | KO 10X GEX ZBNM WT | KO 10X GEX ZBNM WT | wild type | RNA-Seq | TRANSCRIPTOMIC SINGLE CELL | Oligo-dT | PAIRED | ILLUMINA | Illumina HiSeq 2500 | SRP407292 | KO_10X_GEX_ZBNM_WT_S5_L002_I1_001.fastq.gz KO_10X_GEX_ZBNM_WT_S5_L002_I2_001.fastq.gz KO_10X_GEX_ZBNM_WT_S5_L002_R1_001.fastq.gz KO_10X_GEX_ZBNM_WT_S5_L002_R2_001.fastq.gz | fastq fastq fastq fastq | 146800238142.0 | 461635969.0 | KO 10X GEX ZBNM WT S5 L002 I1 001.fastq.gz | 0:8 1:8 2:151 3:151 | A:60009342670;C:24155451853;G:23489314793;T:31758989136;N:964186 | 8 | 8 | 151 | 151 | 60009342670 | 24155451853 | 23489314793 | 31758989136 | 964186 | SRX18337361 | SRS15826346 | SRA1544923 | Academia Sinica|Institute of Biomedical Sciences | Academia Sinica | 2 | 0.0 | 0.90338 | 0.0 | 0.17611 | 1.0 | 0.83189 | 0.53987 | 151 | 151 | T | B | mate1 technical by mapping diff | illumina | hiseq_era | unknown | poly_a | unknown | sc | bulk | bulk | Taiwan | 2022-11-23 | Adult | Adult | Heart | Cardiovascular System |