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SRX20748464: GSM7505563: MTM1_set_3_S13; Danio rerio; RNA-Seq
2 ILLUMINA (NextSeq 2000) runs: 46M spots, 9.3G bases, 3.1Gb downloads

External Id: GSM7505563_r1
Submitted by: Hospital for Sick Children
Study: Loss of Mtm1 causes cholestatic liver disease in a model of X-linked myotubular myopathy
show Abstracthide Abstract
X-linked myotubular myopathy (XLMTM) is a fatal congenital disorder caused by mutations in the MTM1 gene. Currently, there are no approved treatments, though AAV8-mediated gene transfer therapy has shown promise in animal models and preliminarily in patients. However, four patients with XLMTM treated with gene therapy have died from progressive liver failure, and hepatobiliary disease has now been recognized more broadly in association with XLMTM. In an attempt to understand whether loss of MTM1 itself is associated with liver pathology, we have characterized a novel liver phenotype in a zebrafish model of this disease. Specifically, we have found that loss-of-function mutations in mtm1 lead to severe liver abnormalities including impaired bile flux, structural abnormalities of the bile canaliculus, and improper endosomal-mediated trafficking of canalicular transporters. Using a reporter tagged Mtm1 zebrafish line, we have established localization of Mtm1 in the liver in association with Rab11 and canalicular transport proteins, and demonstrated that hepatocyte specific re-expression of Mtm1 can rescue the cholestatic phenotype. Lastly, we completed a targeted chemical screen, and found that Dynasore, a dynamin II inhibitor, is able to partially restore bile flow and transporter localization to the canalicular membrane. In summary, we demonstrate for the first time liver abnormalities that are directly caused by MTM1 mutation in a pre-clinical model, thus establishing the critical framework for better understanding and comprehensive treatment of the human disease. Overall design: Total mRNAs were extracted from pools of dissected livers from 6 dpf abcb11b mutants and WT siblings, 20 livers per replicate and 3 replicates per genotype, by using Arcturus PicoPure RNA isolation kit (Applied Biosystems, KIT0204). Samples were submitted to Novogene Co for library preparation and RNA-sequencing using the vendor's standard protocol. Bioinformatic analysis was performed as described above.
Sample: MTM1_set_3_S13
SAMN35840518 • SRS18037865 • All experiments • All runs
Organism: Danio rerio
Library:
Name: GSM7505563
Instrument: NextSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total mRNAs were extracted from pools of dissected livers from 6 dpf abcb11b mutants and WT siblings, 20 livers per replicate and 3 replicates per genotype, by using Arcturus PicoPure RNA isolation kit (Applied Biosystems, KIT0204). For the 40 livers per replicate (4-5 replicates per group) were dissected under a brightfield microscope at 7dpf and then pooled prior to RNA extraction using the Qiagen RNAeasy Micro kit. Animals in the overfed group were provided with six times the normal amount of food at each feeding from day 5 to 7 while EtOH treated animals were exposed to 2% ethanol for 32 hours prior to sample collection. The presence of hepatic steatosis was confirmed in both groups. WT and abcb11b mutants samples were submitted to Novogene Co for library preparation and RNA-sequencing using the vendor's standard protocol. The 40 samples were submitted to the Centre for Applied Genomics (TCAG, Toronto, Canada). SMART-Seq v4 Ultra Low Input RNA kit was used for the cDNA conversion. Library preparation followed the protocol of Nextera XT library prep kit. Libraries were quality controlled (QC)ed (run on the Bioanalyzer DNA High Sensitivity chip to check for size and quantified by qPCR using Kapa Library Quantification Illumina/ABI Prism Kit protocol). All libraries were pooled and sequenced on 2 lanes on the NovaSeq SP flowcell paired-end 2x100bp.
Runs: 2 runs, 46M spots, 9.3G bases, 3.1Gb
Run# of Spots# of BasesSizePublished
SRR2499248123,188,9454.7G1.6Gb2023-08-10
SRR2499248422,825,7484.6G1.5Gb2023-08-10

ID:
28179150

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