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Single-nuclei transcriptome analysis of IgM+ cells isolated from channel catfish spleen

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posted on 2025-04-26, 03:57 authored by Aquatic Animal Health Research Unit, USDA-ARS
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 RNAseq. We produced two single-nuclei atlases from three individual catfish using flow cytometry sorted IgM+ splenic cells. Libraries were prepared using the 10X Genomics system and sequenced on an Illumina sequencer. The reads were aligned to the reference genome (Ip Coco_2.0) using Cell Ranger (v8.0.0). Overall design: Spleen samples from three adult catfish were collected and sorted for IgM+ cells to generate a channel catfish IgM+ cell transcriptome atlas.

History

Data contact name

BioProject Curation Staff

Publisher

National Center for Biotechnology Information

Temporal Extent Start Date

2024-10-07

Theme

  • Non-geospatial

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

transcriptome; gene expression

Pending citation

  • No

Public Access Level

  • Public

Accession Number

PRJNA1169889

Preferred dataset citation

It is recommended to cite the accession numbers that are assigned to data submissions, e.g. the GenBank, WGS or SRA accession numbers. If individual BioProjects need to be referenced, state that "The data have been deposited with links to BioProject accession number PRJNA1169889 in the NCBI BioProject database (https://www.ncbi.nlm.nih.gov/bioproject/)."

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