Background:
A structurally diverse group of chemicals, including dioxins [e.g., 2,3,7,8-tetrachlorodibenzo-
p
-dioxin (TCDD)] and polycyclic aromatic hydrocarbons (PAHs), can xenobiotically activate the aryl hydrocarbon receptor (AHR) and contribute to adverse health effects in humans and wildlife. In the zebrafish model, repression of
sox9b
has a causal role in several AHR-mediated toxic responses, including craniofacial cartilage malformations; however, the mechanism of
sox9b
repression remains unknown. We previously identified a long noncoding RNA,
sox9b
long intergenic noncoding RNA (
slincR
), which is increased (in an AHR-dependent manner) by multiple AHR ligands and is required for the AHR-activated repression of
sox9b
.
Objective:
Using the zebrafish model, we aimed to enhance our understanding of the signaling events downstream of AHR activation that contribute to toxic responses by identifying:
a
) whether
slincR
is enriched on the
sox9b
locus,
b
)
slincR
’s functional contributions to TCDD-induced toxicity,
c
) PAHs that increase
slincR
expression, and
d
) mammalian orthologs of
slincR
.
Methods:
We used capture hybridization analysis of RNA targets (CHART), qRT-PCR, RNA sequencing, morphometric analysis of cartilage structures, and hemorrhaging screens.
Results:
The
slincR
transcript was enriched at the 5′ untranslated region (UTR) of the
sox9b
locus. Transcriptome profiling and human ortholog analyses identified processes related to skeletal and cartilage development unique to TCDD-exposed controls, and angiogenesis and vasculature development unique to TCDD-exposed zebrafish that were injected with a splice-blocking morpholino targeting
slincR
. In comparison to TCDD exposed control morphants,
slincR
morphants exposed to TCDD resulted in abnormal cartilage structures and a smaller percentage of animals displaying the hemorrhaging phenotype. In addition,
slincR
expression was significantly increased in six out of the sixteen PAHs we screened.
Conclusion:
Our study establishes that in zebrafish,
slincR
is recruited to the
sox9b
5′ UTR to repress transcription, can regulate cartilage development, has a causal role in the TCDD-induced hemorrhaging phenotype, and is up-regulated by multiple environmentally relevant PAHs. These findings have important implications for understanding the ligand...