Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum
文献类型：期刊论文
| 作者 | Liu, Qin4,5,6; Lei, Duan2,4,5,6; Guo, Yun-Hai4,5,6; Yang, Li-Min4,5,6; Zhang, Yi3,4,5,6; Li, Shi-Zhu3,4,5,6; Lv, Shan3,4,5,6; Hu, Wei2; Chen, Nan-Sheng1; Zhou, Xiao-Nong3,4,5,6 |
| 刊名 | INFECTIOUS DISEASES OF POVERTY
 |
| 出版日期 | 2024-02-27 |
| 卷号 | 13期号:1页码:11 |
| 关键词 | Schistosomiasis Schistosoma japonicum Oncomelania hupensis Chromosome-level genome |
| ISSN号 | 2095-5162 |
| DOI | 10.1186/s40249-024-01187-3 |
| 通讯作者 | Zhou, Xiao-Nong(zhouxn1@chinacdc.cn) |
| 英文摘要 | 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 from a common ancestor of Pomacea canaliculata and Bellamya purificata approximately 170 million years ago. Comparing the genome of O. hupensis with its most recent common ancestor, it showed 266 significantly expanded and 58 significantly contracted gene families (P < 0.05). Functional enrichment of the expanded gene families indicated that they were mainly involved with intracellular, DNA-mediated transposition, DNA integration and transposase activity. Conclusions Integrated use of multiple sequencing technologies, we have successfully constructed the genome at the chromosomal-level of O. hupensis. These data will not only provide the compressive genomic information, but also benefit future work on population genetics of this snail as well as evolutional studies between S. japonicum and the snail host. |
| WOS关键词 | INNATE IMMUNE-RESPONSE ; PHYLOGENETIC ANALYSIS ; PROTEIN ; EVOLUTION ; ALIGNMENT |
| 资助项目 | National Key Research and Development Program of China |
| WOS研究方向 | Infectious Diseases ; Parasitology ; Tropical Medicine |
| 语种 | 英语 |
| WOS记录号 | WOS:001174234900002 |
| 出版者 | BMC |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/184974]  |
| 专题 | 海洋研究所_海洋生态与环境科学重点实验室 |
| 通讯作者 | Zhou, Xiao-Nong |
| 作者单位 | 1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Shandong, Peoples R China 2.Fudan Univ, Sch Life Sci, Shanghai 200438, Peoples R China 3.Shanghai Jiao Tong Univ, Sch Med, Chinese Ctr Trop Dis Res, Sch Global Hlth, Shanghai, Peoples R China 4.Natl Key Lab Intelligent Tracking & Forecasting In, Shanghai 200025, Peoples R China 5.Natl Ctr Int Res Trop Dis, WHO Collaborating Ctr Trop Dis, NHC Key Lab Parasite & Vector Biol, Shanghai 200025, Peoples R China 6.Chinese Ctr Trop Dis Res, Chinese Ctr Dis Control & Prevent, Natl Inst Parasit Dis, Shanghai 200025, Peoples R China |
| 推荐引用方式 GB/T 7714 | Liu, Qin,Lei, Duan,Guo, Yun-Hai,et al. Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum[J]. INFECTIOUS DISEASES OF POVERTY,2024,13(1):11. |
| APA | Liu, Qin.,Lei, Duan.,Guo, Yun-Hai.,Yang, Li-Min.,Zhang, Yi.,...&Zhou, Xiao-Nong.(2024).Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum.INFECTIOUS DISEASES OF POVERTY,13(1),11. |
| MLA | Liu, Qin,et al."Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum".INFECTIOUS DISEASES OF POVERTY 13.1(2024):11. |
入库方式： OAI收割
来源：海洋研究所
浏览0
下载0
收藏0
其他版本
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。