A De Novo Whole Genome Assembly and Annotation of Parelaphostrongylus tenuis
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Mar 14, 2024
About this article
Article Category: Research Paper
Published Online: Mar 14, 2024
Received: Dec 02, 2022
DOI: https://doi.org/10.2478/jofnem-2024-0009
Keywords
© 2024 Tyler J. Garwood et al., published by Sciendo
This work is licensed under the Creative Commons Attribution 4.0 International License.
Quality measures and descriptive statistics for our genome assembly and annotation of Parelaphostrongylus tenuis_
| Scaffolds (no.) | 7,285 |
| N50 (bp) | 158,736 |
| N75 (bp) | 73,872 |
| Total length (bp) | 491,304,140 |
| Longest scaffold (bp) | 1,543,493 |
| GC content (%) | 40.07 |
| Complete Genome BUSCOs (no./%) | 2,818/90 |
| Complete Genome single-copy BUSCOs (no./%) | 2724/87 |
| Complete and duplicated Genome BUSCOs (no./%) | 94/3 |
| Fragmented Genome BUSCOs (no./%) | 54/1 |
| Missing Genome BUSCOs (no./%) | 259/8.3 |
| Protein-coding genes (no.) | 29,657 |
| Non-coding tRNA genes (no.) | 9,623 |
| Complete Proteome BUSCOs (no./%) | 2,224/71 |
| Fragmented Proteome BUSCOs (no./%) | 54/7.1 |
| Missing Proteome BUSCOs (no./%) | 259/21.9 |
A comparison of descriptive statistics of the Stronglyid family genomes available in WormBase ParaSite_
| Parelaphostronglus tenuis | Our genome (University of Minnesota) | GCA_019055375.1 | Protostrongylidae | 7,414 | 491.3 Mb | 158.7 kb | 1.5 Mb | 40.1 |
| Ancyclostoma caninum | McDonnell Genome Institute | GCA_003336725.1 | Ancylostomatidae | 25,335 | 465.7 Mb | 256.7 kb | 5.5 Mb | 42.5 |
| Ancylostoma ceylanicum | Cornell University | GCA_000688135.1 | Ancylostomatidae | 1,736 | 313.1 Mb | 668.4 kb | 4.8 Mb | 43.4 |
| Ancylostoma duodenale | McDonnell Genome Institute | GCA_000816745.1 | Ancylostomatidae | 100,268 | 332.9 Mb | 10.1 kb | 0.3 Mb | 42.5 |
| Angiostrongylus cantonensis | Sun Yat-sen University | GCA_009735665.1 | Angiostrongylidae | 35,378 | 293.3 Mb | 860.8 kb | 4.7 Mb | 41.5 |
| Angiostrongylus costaricensis | Wellcome Sanger Institute | GCA_900624975.1 | Angiostrongylidae | 6,384 | 262.8 Mb | 112.5 kb | 0.8 Mb | 41.2 |
| Angiostrongylus vasorum | University of Zurich | GCA_018806985.1 | Angiostrongylidae | 468 | 279.9 Mb | 1,700 kb | 7.3 Mb | 41.6 |
| Cylicostephanus goldi | Wellcome Sanger Institute | GCA_900617965.1 | Cyathostominae | 154,509 | 173.4 Mb | 1.2 kb | 0.02 Mb | 40.2 |
| Dictyocaulus viviparus | The Genome Institute | GCA_000816705.1 | Dictyocaulidae | 7,157 | 161 Mb | 225.7 kb | 2.2 Mb | 34.5 |
| Haemonchus contortus | Wellcome Sanger Institute | GCA_000469685.2 | Trichostrongylidae | 191 | 283.4 Mb | 47,400 kb | 51.8 Mb | 43.1 |
| Haemonchus placei | Wellcome Sanger Institute | GCA_900617895.1 | Trichostrongylidae | 24,923 | 259.1 Mb | 37.6 kb | 0.3 Mb | 42.8 |
| Heligmosomoides polygyrus | Wellcome Sanger Institute | GCA_900618505.1 | Heligmosomidae | 44,726 | 560.7 Mb | 35.8 kb | 0.4 Mb | 42.0 |
| Heterorhabditis bacteriophora | McDonnell Genome Institute | GCA_000223415.1 | Rhabditidae | 1,240 | 77 Mb | 102 kb | 2.2 Mb | 33.3 |
| Necator americanus | McDonnell Research Institute | GCF_000507365.1 | Ancylostomatidae | 11,864 | 244.1 Mb | 211.9 kb | 1.9 Mb | 40.2 |
| Nippostrongylus brasiliensis | Wellcome Sanger Institute | GCA_900618405.1 | Heligosomidae | 44,362 | 294.4 Mb | 33.5 kb | 0.4 Mb | 42.7 |
| Oesophagostomum dentatum | McDonnell Genome Institue | GCA_00079755.1 | Chabertiidae | 64,255 | 443 Mb | 26.5 kb | 1.6 Mb | 41.4 |
| Strongylus vulgaris | Wellcome Sanger Institute | GCA_900624965.1 | Strongylidae | 167,310 | 291.1 Mb | 2.4 kb | 0.09 Mb | 37.9 |
| Teladorsagia circumcincta | McDonnell Genome Institute | GCA_002352805.1 | Trichostrongylidae | 81,730 | 700.6 Mb | 47.1 kb | 1.5 Mb | 44.5 |