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ARS Home » Southeast Area » Auburn, Alabama » Aquatic Animal Health Research » Research » Publications at this Location » Publication #428084
Research Project: Improving Warmwater Finfish Health through Pathogen Characterization, Vaccination, and Natural Feed Additives

Location: Aquatic Animal Health Research

Title: Single-nuclei transcriptome analysis of IGM+ cells isolated from channel catfish spleen

Author
item ALDERSEY, JOHANNA - Orise Fellow
item Lange, Miles
item Beck, Benjamin
item Abernathy, Jason

Submitted to: NIH Gene Expression Omnibus (GEO) Database
Publication Type: Database / Dataset
Publication Acceptance Date: 10/7/2024
Publication Date: 4/9/2025
Citation: Aldersey, J., Lange, M.D., Beck, B.H., Abernathy, J.W. 2025. Single-nuclei transcriptome analysis of IGM+ cells isolated from channel catfish spleen. NIH Gene Expression Omnibus (GEO) Database. GSE278995.

Interpretive Summary:

Technical Abstract: Channel catfish, Ictalurus punctatus, are the primary cultured species of the catfish industry. Significant losses in production are attributed to bacterial diseases which are challenging to control and new interventions need to be developed. To gain insight into the in situ catfish immune system, we used single-nuclei RNA sequencing. Single-nuclei libraries were prepared using the 10X Genomics Chromium X system and sequenced on an Illumina sequencer. The resultant sequencing reads were aligned to the reference genome (Ip Coco_2.0) using cellranger. We produced single-nuclei B-cell atlases from three individual catfish using flow cytometry sorted IgM+ splenic cells. These data will be a valuable resource will be for examining the immunome of channel catfish. Raw sequencing data as well as processed gene expression files have been submitted to the NCBI Gene Expression Omnibus (GEO) and are available to the public under the accession number GSE278995.