run_metadata: 72133
This data as json
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| 72133 | SRR22258549 | SRX18235006 | SRS15731046 | 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. | 7day post cryoinjuried | 7day post cryoinjuried zebrafish heart tissues in PBS | PBS 7dpci 3 | strain:wild type AB|age:3 month to 1 year old|sex:male and female|tissue:heart|treatment:PBS|replicate:biological replicate 2|time point:7|BioSampleModel:Model organism or animal | PBS 7dpci replicate 2 | ST19 PZ02 | ST19 PZ02 | PBS 7day post cryoinjuried | RNA-Seq | TRANSCRIPTOMIC | Oligo-dT | PAIRED | ILLUMINA | Illumina HiSeq 2500 | SRP407292 | LTS19-PZ02_342bp_S1_L001_R1_001.fastq.gz LTS19-PZ02_342bp_S1_L001_R2_001.fastq.gz | fastq fastq | 4506352400.0 | 15784899.0 | LTS19 PZ02 342bp S1 L001 R1 001.fastq.gz | 0:142.75 1:142.73 | A:1192740332;C:1059366674;G:1055797909;T:1198088750;N:358735 | 142 | 142 | 1192740332 | 1059366674 | 1055797909 | 1198088750 | 358735 | SRX18235006 | SRS15731046 | SRA1538914 | Academia Sinica|Institute of Biomedical Sciences | Academia Sinica | 2 | 0.95404 | 0.9561 | 0.06073 | 0.0604 | 0.73996 | 0.74091 | 0.50416 | 0.51058 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | poly_a | unknown | bulk | bulk | bulk | Taiwan | 2022-11-10 | Adult | Adult | Heart | Cardiovascular System |