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Fig. 1 | BMC Biology

Fig. 1

From: Hidden genomic features of an invasive malaria vector, Anopheles stephensi, revealed by a chromosome-level genome assembly

Fig. 1

Anopheles stephensi genome assembly. a Distribution of repeats, gene content, and synteny between An. stephensi (left, green) and An. gambiae (right, yellow) genomes. Each successive track from outside to inside represents TE density, satellite density (Additional file 1: Figures S2 and S3), and gene density across the chromosome arms in 500-kb windows. The innermost track describes the syntenic relationship between An. stephensi and An. gambiae chromosome arms. b Contiguities of published genome assemblies of Anopheles malaria vectors, Culex, Aedes aegypti, human (GRCh38.p13), and the model organism D. melanogaster. Among the mosquito vectors, An. stephensi assembly reported in the current study is the only genome that matches the Earth BioGenome Project (EBP) standard of the human and the Drosophila genomes [21]. c Hi-C contact map of the An. stephensi scaffolds. The density of Hi-C contacts is highest at the diagonals, suggesting consistency between assembly and the Hi-C map. d Identification of putative Y contigs using the density of male-specific k-mers on the x-axis and the ratio of male and female k-mers on the y-axis. e Transcripts of SYG7 and SYG8, two new Y-linked genes as revealed by the uniquely mapping Iso-seq reads. SYG7 has two isoforms. Inset: transcript abundance of SYG7 and SYG8 in male and female adults and larvae. As shown here, neither gene is expressed in females

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