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顶复门寄生虫堆型艾美耳球虫的染色体水平组装与功能注释

Chromosomal scale assembly and functional annotation of the apicomplexan parasite Eimeria acervulina.

作者信息

Srivastava Subodh K, Parker Carolyn C, Thompson Peter C, Tucker Matthew S, Rosenthal Benjamin M, Khan Asis, Valente Matthew J, Jenkins Mark C

机构信息

USDA ARS, Animal Parasitic Diseases Laboratory, Beltsville Agricultural Research Center, East, Building 1040, 10300 Baltimore Ave., Beltsville, MD, 20705, USA.

College of Osteopathic Medicine, Lake Erie College of Osteopathic Medicine, 5000 Lakewood Ranch Blvd, Bradenton, FL, 34202, USA.

出版信息

Sci Data. 2025 May 23;12(1):852. doi: 10.1038/s41597-025-04653-1.

DOI:10.1038/s41597-025-04653-1
PMID:40410160
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12102361/
Abstract

Apicomplexan parasites are single-celled obligate intracellular eukaryotic organisms that cause significant animal and human disease and pose a substantial health and socioeconomic burden worldwide. Eimeria acervulina is one such parasite of chickens, representative of several Eimeria species causing coccidiosis disease. A complete assembly of the E. acervulina genome may help identify markers of drug-resistance and design recombinant vaccines. We sequenced E. acervulina APU1 strain using Oxford Nanopore Sequencing and Illumina technology in combination with a Hi-C (Omni-C) proximity linkage library and achieved a chromosomal scale assembly using the MaSuRCA assembler. The final assembly was 52 Mb. with 15 chromosomes and 99% BUSCO completeness. A total of 7,621 genes were predicted using a pipeline of BRAKER3, GeneMark-ETP and AUGUSTUS, of which 4,647 (60.97%) have a predicted Pfam function and 1,962 (25.74%) have Gene Ontology (GO) terms matching molecular, biological, and functional classes. Stage-specific transcriptome analysis revealed 9,761 transcripts. This genome assembly and transcriptome analysis provides the foundation for identifying biologically important candidates for anticoccidial drug and vaccine development.

摘要

顶复门寄生虫是单细胞专性细胞内真核生物，可导致严重的动物和人类疾病，并在全球范围内造成重大的健康和社会经济负担。堆型艾美耳球虫就是鸡的一种此类寄生虫，是导致球虫病的几种艾美耳球虫属的代表。堆型艾美耳球虫基因组的完整组装可能有助于识别耐药性标记并设计重组疫苗。我们使用牛津纳米孔测序和Illumina技术结合Hi-C（全基因组染色质构象捕获）邻近连接文库对堆型艾美耳球虫APU1菌株进行了测序，并使用MaSuRCA组装器实现了染色体规模的组装。最终组装结果为52 Mb，有15条染色体，BUSCO完整性为99%。使用BRAKER3、GeneMark-ETP和AUGUSTUS管道共预测出7621个基因，其中4647个（60.97%）具有预测的Pfam功能，1962个（25.74%）具有与分子、生物学和功能类别匹配的基因本体（GO）术语。阶段特异性转录组分析揭示了9761个转录本。这种基因组组装和转录组分析为鉴定抗球虫药物和疫苗开发的生物学重要候选物提供了基础。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/7ab879ba62ea/41597_2025_4653_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/97385fa30d85/41597_2025_4653_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/0042508e46ed/41597_2025_4653_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/7ae64a2bc559/41597_2025_4653_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/7ab879ba62ea/41597_2025_4653_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/97385fa30d85/41597_2025_4653_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/0042508e46ed/41597_2025_4653_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/7ae64a2bc559/41597_2025_4653_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a0c3/12102361/7ab879ba62ea/41597_2025_4653_Fig4_HTML.jpg

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Aqueous Ozone Exposure Inhibits Sporulation in the Cyclospora cayetanensis Surrogate Eimeria acervulina.
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