ENAapplication/xmlftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/093/SRR29111793/SRR29111793.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/094/SRR29111794/SRR29111794.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/089/SRR29111789/SRR29111789.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/092/SRR29111792/SRR29111792.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/090/SRR29111790/SRR29111790.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR291/091/SRR29111791/SRR29111791.fastq.gzprimaryOK200GenomicsAquatic Animal Health Research Unit, USDA-ARShttps://www.ebi.ac.uk/ena/browser/view/PRJNA1114391Ictalurus punctatusxref:PubMed:39325796Channel catfish, Ictalurus punctatus, is an important model U.S. aquaculutre species. Given its role in food production, the catfish immune response to industry-relevant pathogens has been extensively studied and has provided crucial information on innate and adaptive immune function during disease progression. To further examine the channel catfish immune system, single-nuclei RNA sequencing on whole spleens from three adult individuals was performed. Spleen cell suspensions were prepared by passing tissues through cell sieves. Single-cell RNAseq libraries were then prepared using the 10X Genomics Chromium X with the Next GEM Single Cell 3’ Reagents and sequenced 2x150bp on an Illumina sequencer. Each demultiplexed library was aligned to the CoCo_2.0 channel catfish reference assembly, filtered, and counted to generate feature-barcode matrices. Cluster analysis allowed for the identification of multiple cell types including erythrocytes, hematopoietic stem cells, B cells, T/NK cells, myeloid lineage derivatives, plasma cells and endothelial cells. The majority of cells detected were erythrocytes, which are nucleated in teleost fish. Overall design: Whole spleen samples from three adult catfish were collected to generate a channel catfish spleen cell atlas.ENAfalseGene expression profiling at the single nuclei level of channel catfish spleenGene expression profiling at the single nuclei level of channel catfish spleen2025-09-242024-10-04PRJNA1114391GSE268023799839325796