Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda
Abstract Phortica okadai, known as the vector of Thelazia callipaeda in Asia, is of concern to public health in the past few decades. We generated a high-quality chromosome-level genome assembly of P. okadai with a size of 263.82 Mb and a contig N50 of 15 Mb, scaffold N50 of 47.45 Mb, combining PacB...
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| Format: | Article |
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Nature Portfolio
2024-12-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-04239-3 |
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| author | Lingjun Wang Hongsong Yu Bo Luo Rong Yan Juan Zhou Hui Liu Ze Zhang Wei Sun |
| author_facet | Lingjun Wang Hongsong Yu Bo Luo Rong Yan Juan Zhou Hui Liu Ze Zhang Wei Sun |
| author_sort | Lingjun Wang |
| collection | DOAJ |
| description | Abstract Phortica okadai, known as the vector of Thelazia callipaeda in Asia, is of concern to public health in the past few decades. We generated a high-quality chromosome-level genome assembly of P. okadai with a size of 263.82 Mb and a contig N50 of 15 Mb, scaffold N50 of 47.45 Mb, combining PacBio HiFi, Illumina short-reads, and Hi-C sequencing data. Approximately 98.5% of 100 contigs could be properly ordered and oriented into 6 pseudo-chromosomes and a total of 15,052 protein-coding genes were obtained from the P. okadai genome, of which 91.76% were functionally annotated. BUSCO analysis revealed that 96.20% of 1315 predicted genes were clearly covered the conserved invertebrate genes within the database. Additionally, 302 rRNAs, 377 tRNAs, 52 miRNAs, 40 snRNAs and 21 snoRNAs were detected. In conclusion, this high-quality chromosome level reference genome will be a valuable resource for furthering the fields of ecology, genetics, evolution and functional genomics of P. okadai. |
| format | Article |
| id | doaj-art-d491e9c7f19a4be1a10d9c320073787a |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-d491e9c7f19a4be1a10d9c320073787a2024-12-22T12:14:05ZengNature PortfolioScientific Data2052-44632024-12-0111111210.1038/s41597-024-04239-3Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaedaLingjun Wang0Hongsong Yu1Bo Luo2Rong Yan3Juan Zhou4Hui Liu5Ze Zhang6Wei Sun7Laboratory of Evolutionary and Functional Genomics, School of Life Sciences, Chongqing UniversityDepartment of Immunology, Special Key Laboratory of Ocular Diseases of Guizhou Province, Zunyi Medical UniversityDepartment of Parasitology, Zunyi Medical UniversityDepartment of Parasitology, Zunyi Medical UniversityDepartment of Parasitology, Zunyi Medical UniversityDepartment of Parasitology, Zunyi Medical UniversityLaboratory of Evolutionary and Functional Genomics, School of Life Sciences, Chongqing UniversityLaboratory of Evolutionary and Functional Genomics, School of Life Sciences, Chongqing UniversityAbstract Phortica okadai, known as the vector of Thelazia callipaeda in Asia, is of concern to public health in the past few decades. We generated a high-quality chromosome-level genome assembly of P. okadai with a size of 263.82 Mb and a contig N50 of 15 Mb, scaffold N50 of 47.45 Mb, combining PacBio HiFi, Illumina short-reads, and Hi-C sequencing data. Approximately 98.5% of 100 contigs could be properly ordered and oriented into 6 pseudo-chromosomes and a total of 15,052 protein-coding genes were obtained from the P. okadai genome, of which 91.76% were functionally annotated. BUSCO analysis revealed that 96.20% of 1315 predicted genes were clearly covered the conserved invertebrate genes within the database. Additionally, 302 rRNAs, 377 tRNAs, 52 miRNAs, 40 snRNAs and 21 snoRNAs were detected. In conclusion, this high-quality chromosome level reference genome will be a valuable resource for furthering the fields of ecology, genetics, evolution and functional genomics of P. okadai.https://doi.org/10.1038/s41597-024-04239-3 |
| spellingShingle | Lingjun Wang Hongsong Yu Bo Luo Rong Yan Juan Zhou Hui Liu Ze Zhang Wei Sun Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda Scientific Data |
| title | Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda |
| title_full | Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda |
| title_fullStr | Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda |
| title_full_unstemmed | Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda |
| title_short | Chromosome-level genome assembly of Phortica okadai, a vector of Thelazia callipaeda |
| title_sort | chromosome level genome assembly of phortica okadai a vector of thelazia callipaeda |
| url | https://doi.org/10.1038/s41597-024-04239-3 |
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