Table 2 of Esquerdo-Barragán, Mol Vis 2019; 25:800-813.


Table 2. Data summary of the 12 pre-selected genes as plausible candidates to contribute to retinal development.

   DUB    RNA-seq on total RETINA a ChIP-seqb    RNA-seq on TISSUES c    PHENOTYPEd    BIOLOGIC PROCESS
   JOSD1    Decrease during development in whole retina and in rods, but not in cones.    CRX    Adrenal Gland, Cerebellum, Spleen, Thymus    3 dpf: eyes shape, abnormal retinotectal projection (ZF)    Involved in endocytosis. Almost no bibliography
   OTUD7B    Low expression throughout development, small increase from P10. Continuous expression in rods.    —    Testis    —    Involved in NFκB signaling. Role as oncogene: via deubiquitination of EGFR
   PAN2 (USP52)    Highly expressed in the retina. Shut down in rods at P21, but maintenance in cones.    CRX    Cerebellum, CNS, Testis, Cortical Plate, Frontal Cortex, Limb, Liver, Placenta, Testis, Urinary Bladder    —    mRNA Deadenylation.
   USP10    Decrease in rods from P10, but not in cones.    CRX, NRL    Cerebellum, CNS, Cortical Plate, Female Gonad, Frontal Cortex, Limb    CNS necrosis (ZF)    DNA damage. Tumour-associated marker in grastrocarcinoma, and Adrenal tumors, Regulation of NFκB signaling via p53.
   USP11    Strong shut down in rods and not in cones    —    Cerebellum, CNS, Cortical Plate, Frontal Cortex, Gonadal Fat Pad, Kidney, Large Intestine, Placenta, Testis    —    Transport to the Golgi, Protein folding; NFκB signaling; DNA repair after double-strand DNA breaks. Possibly related to X-linked retinal disorders.
   USP14    Stable expression in retina, with a slight shut down only in rods.    Cerebellum, CNS, Cortical Plate, Frontal Cortex, Liver, Placenta, Testis, Neuronal phenotype slower adults, early death (D).
   Reduced USP14 levels cause tremors, abnormal brain morphology, altered synaptic transmission and increased apoptosis (H)    Involved in Parkinson. Role as oncogene in breast, hepatolcellular carcinoma, lung adenocarcinoma. Decreases apoptosis.
   USP15    Stable expression in retina, with a slight shut down only in rods    NRL    Adrenal Gland, Cerebellum, CNS, Colon, Cortical Plate, Heart, Kidney, Large Intestine, Limb, Testis    2dpf: small eyes, and at 4dpf: deformed eyes (ZF).    Interferon signaling. Involved in mitophagy. Role as oncogene via TGFβ.
   USP20    Very low levels of expression in retina, with a slight shut down in rods from P10.    —    Kidney, Thymus Earlier adult death (D).
   3dpf: small eyes (ZF).    NFκB signaling. β2 adrenergic receptor recycling. Tyroid hormone activation.
   USP22    Highly expressed throughout development with a shut down in rods from P10.    CRX    Testis (Neuronal) slower adults, early death (D).
   −/− Homozygotes are embryonic lethal (M) Role as oncogene in liver, colon, lung, gastric, nasopharyngeal, pancreas (via histone and p53 regulation).
   USP39    Slight shut down both in retina and rods from P10, but not in cones.    CRX    CNS, Limb, Testis Larval death (D).
   2dpf: small eyes (ZF)    Role in cancer, promotes cell proliferation.
   USP46    Low expression in rods with a final strong shut down. Moderate-high expression in postnatal cones.    —    Adrenal Gland, Duodenum, Adipocytes, Thymus, Kidney, Spleen, Female Gonad, Mammal Gland, Colon    —    Role in neurotransmission circuitry, involved in behavior.
   USP48    Strong difference between rods (low) and cones (high) expression.    CRX    Cerebellum, CNS; Placenta    3dpf: small eyes (ZF)    DNA repair in Fanconi Anemiae. Corticoph adenomesf