Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum

作者：Qin Liu, Lei Duan, Yun-Hai Guo, Limin Yang, Yi Zhang, Shi‐Zhu Li, Shan Lv, Wei Hu, Nan-Sheng Chen, Xiao‐Nong Zhou · 发表于：Infectious Diseases of Poverty · 年份：2024 · DOI：10.1186/s40249-024-01187-3 · 被引用次数：10 · 研究领域：Parasites and Host Interactions、Parasite Biology and Host Interactions、Genomics and Phylogenetic Studies

BACKGROUND: Schistosoma japonicum is a parasitic flatworm that causes human schistosomiasis, which is a significant cause of morbidity in China, the Philippines and Indonesia. Oncomelania hupensis (Gastropoda: Pomatiopsidae) is the unique intermediate host of S. japonicum. A complete genome sequence of O. hupensis will enable the fundamental understanding of snail biology as well as its co-evolution with the S. japonicum parasite. Assembling a high-quality reference genome of O. hupehensis will provide data for further research on the snail biology and controlling the spread of S. japonicum. METHODS: The draft genome was de novo assembly using the long-read sequencing technology (PacBio Sequel II) and corrected with Illumina sequencing data. Then, using Hi-C sequencing data, the genome was assembled at the chromosomal level. CAFE was used to do analysis of contraction and expansion of the gene family and CodeML module in PAML was used for positive selection analysis in protein coding sequences. RESULTS: A total length of 1.46 Gb high-quality O. hupensis genome with 17 unique full-length chromosomes (2n = 34) of the individual including a contig N50 of 1.35 Mb and a scaffold N50 of 75.08 Mb. Additionally, 95.03% of these contig sequences were anchored in 17 chromosomes. After scanning the assembled genome, a total of 30,604 protein-coding genes were predicted. Among them, 86.67% were functionally annotated. Further phylogenetic analysis revealed that O. hupensis was separated ...