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Series GSE155405 Query DataSets for GSE155405
Status Public on Jul 30, 2020
Title Kidney tertiary lymphoid structures in Lupus Nephritis develop into large interconnected networks and resembles lymph nodes in gene signature.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Immune aggregates organized as tertiary lymphoid structures (TLS) are observed within kidneys of systemic lupus erythematosus (SLE) patients with lupus nephritis (LN). We characterized renal TLS in lupus-prone (NZBxNZW) F1 mice with respect to cell composition and vessel formation. Ribonucleic acid (RNA) sequencing was performed on transcriptomes isolated from Lymph nodes (LyN), macro-dissected TLS from kidneys, and total kidneys of mice at different disease stages by using Ion Torrent Personal Genome Machine (Ion PGM) and RNAseq from Illumina. Formation of TLS was found in anti-dsDNA antibody positive mice and the structures were organized as interconnected large networks with distinct T and B cell zones with adjacent dendritic cells, macrophages, plasma cells, high endothelial venules, supporting follicular dendritic cells network, and functional germinal centers. Comparison of gene profiles of whole kidney, renal TLS and LyN revealed a similar gene signature of TLS and LyN. The upregulated genes within the kidneys of lupus-prone mice during the development of LN reflected the TLS formation, while the downregulated genes were involved in metabolic processes of the kidney cells. A comparison with human LN gene expression revealed similar upregulated genes as observed during the development of murine LN and TLS.  We conclude that kidney TLS have a similar cell composition, structure and gene signature as LyN, and therefore may function as a kidney specific type of LyN. 
Overall design Total RNA
Contributor(s) Fenton KA, Dorraji E, Fenton C, Stenersrød MR, Kanapathippillai P, Hovd AK, Ursvik A, Horvei KD, Thiagyaran D, Figenschau SL, Pedersen HL
Citation(s) 32818496
Submission date Jul 29, 2020
Last update date Oct 29, 2020
Contact name Kristin Andreassen Fenton
Phone 90775154
Organization name UiT Norges arktiske universitet
Department Medical Biology
Lab RNA and Molecular pathology
Street address MH Building
State/province Troms
ZIP/Postal code 9037
Country Norway
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL16331 Ion Torrent PGM (Mus musculus)
Samples (29)
GSM4703698 M1
GSM4703699 M2
GSM4703700 M3
BioProject PRJNA649586
SRA SRP274175

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Supplementary file Size Download File type/resource
GSE155405_GEN141016_F_Profiling_table.xlsx 12.2 Mb (ftp)(http) XLSX 562.9 Kb (ftp)(http) TAB
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Raw data are available in SRA
Processed data are available on Series record

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