Computational identification of mutually homologous Zika virus miRNAs that target microcephaly genes

Figures & data

Table 1. MCPH genes, their location, and homologous miRNA.

Locus	Gene	Cytoband	Cellular location	miRNA
MCPH1	Microcephalin	8p23.1	Nucleus	miR-627–5
MCPH2	WDR62	19q13.12	Nucleus/Centrosomes/Neuronal precursors/Post-mitotic neurons	miR-4646
MCPH3	CDK5RAP2	9q33.2	Centrosome	miR-627–5, miR-1304
MCPH4	CASC5	15q15.1	Kinetochore	miR-1304
MCPH5	ASPM	1q31.3	Pericentrosomal	miR-627–5,miR-1304
MCPH6	CENPJ	13q12.12	Centrosome/neuropithelium of the frontal cortex	hsa-miR-6771
MCPH7	STIL	1p33	Pericentrosomal	miR-4528
MCPH8	CEP135	4q12	Centrosome	miR-1304
MCPH9	CEP135	15q21.1	Centrosome	miR-1304
MCPH10	ZNF335	20q13.12	Nucleus	miR-1304
MCPH11	PHC1	12p13.31	Nucleus	miR-3198
MCPH12	CDK6	7q21.11	Cytoplasmic/nuclear	miR-1304

Figure 1. Locations of miRNA to ZIKV and MCPH. The upper panel illustrates the 10.79KB genomic map of ZIKV while the lower panel presents the 12 MCPH genes involved in microcephaly primary heredity (MCPH) or autosomal recessive primary microcephaly. Six miRNAs aligned perfectly at the seed sequences (shown in the middle panel) with the ZIKV and 12 MCPH genomes. Of note, miR-1304 targets six out of 12 MCPH genes.

Table 2. Summary of neurological disease and behavior genes, their location, and associated role with miRNA-1304.

Gene	Cytoband	Function	References
GABRE	Xq28	Subjects with schizophrenia, major depression and bipolar disorder, migraine susceptibility	[2,5]
VPS26A	10q21.1	Involved in retrograde transport of proteins from endosomes to the trans-Golgi network.	[4]
DSEL	18q22.1	Associated with chromosome 18q-linked bipolar disorder, depressive disorder	[1,4]
ERK	22q11.22	Plays major role in neurotrophin signaling pathway	[1,3]
MAP3k14	17q21.31	Participates in an NF-kappaB-inducing signaling cascade common to receptors of the tumor-necrosis/nerve-growth factor(TNF/NGF)	[4,6]
ITSN1	21q22.11	Required for neuroblastoma tumorigenesis and reduction leads to apoptosis	[5]
NF2	22q12.2	Mutation in this gene is associated with neurofibromatosis and glioblastoma	[3,4]
TTBK1	6p21.1	Induces aggregation of TAU, related for Alzheimer’s diseases risk.	[1,2,5]
C20orf194	20p13	Linked with spinocerebellar ataxia	[2]
DAG1	3p21.31	Associated with muscle-eye-brain diseases and glioma	[2,4,6]

Notes: GABRE: Gamma-aminobutyric acid (GABA) A receptor, epsilon; VPS26A: Vacuolar protein sorting-associated protein 26A; DSEL: Dermatan sulfate epimerase-like; ERK: Extracellular signal-regulated kinases; MAP3k14: Mitogen-activated protein kinase kinase kinase 14; ITSN1: Intersectin 1; NF2: Neurofibromin 2; TTBK1: Tau tubulin kinase 1; C20orf194: Chromosome 20 open reading frame 194; DAG1: Dystrophin-associated glycoprotein-1.

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