Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica
The chinstrap (Pygoscelis antarcticus) and gentoo (P. papua) penguins are distributed throughout Antarctica and the sub-Antarctic islands. In this study, high-quality de novo assemblies of blood transcriptomes from these penguins were generated using the Illumina MiSeq platform. A total of 22.2 and...
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BioMed Central
2019-03-01
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| Series: | Genomics & Informatics |
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| Online Access: | http://genominfo.org/upload/pdf/gi-2019-17-1-e5.pdf |
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| author | Bo-Mi Kim Jihye Jeong Euna Jo Do-Hwan Ahn Jeong-Hoon Kim Jae-Sung Rhee Hyun Park |
| author_facet | Bo-Mi Kim Jihye Jeong Euna Jo Do-Hwan Ahn Jeong-Hoon Kim Jae-Sung Rhee Hyun Park |
| author_sort | Bo-Mi Kim |
| collection | DOAJ |
| description | The chinstrap (Pygoscelis antarcticus) and gentoo (P. papua) penguins are distributed throughout Antarctica and the sub-Antarctic islands. In this study, high-quality de novo assemblies of blood transcriptomes from these penguins were generated using the Illumina MiSeq platform. A total of 22.2 and 21.8 raw reads were obtained from chinstrap and gentoo penguins, respectively. These reads were assembled using the Oases assembly platform and resulted in 26,036 and 21,854 contigs with N50 values of 929 and 933 base pairs, respectively. Functional gene annotations through pathway analyses of the Gene Ontology, EuKaryotic Orthologous Groups, and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases were performed for each blood transcriptome, resulting in a similar compositional order between the two transcriptomes. Ortholog comparisons with previously published transcriptomes from the Adélie (P. adeliae) and emperor (Aptenodytes forsteri) penguins revealed that a high proportion of the four penguins’ transcriptomes had significant sequence homology. Because blood and tissues of penguins have been used to monitor pollution in Antarctica, immune parameters in blood could be important indicators for understanding the health status of penguins and other Antarctic animals. In the blood transcriptomes, KEGG analyses detected many essential genes involved in the major innate immunity pathways, which are key metabolic pathways for maintaining homeostasis against exogenous infections or toxins. Blood transcriptome studies such as this may be useful for checking the immune and health status of penguins without sacrifice. |
| format | Article |
| id | doaj-art-ab3c841e16f64d97ae2a83bd546430f7 |
| institution | Kabale University |
| issn | 2234-0742 |
| language | English |
| publishDate | 2019-03-01 |
| publisher | BioMed Central |
| record_format | Article |
| series | Genomics & Informatics |
| spelling | doaj-art-ab3c841e16f64d97ae2a83bd546430f72025-02-02T05:29:04ZengBioMed CentralGenomics & Informatics2234-07422019-03-0117110.5808/GI.2019.17.1.e5544Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, AntarcticaBo-Mi Kim0Jihye Jeong1Euna Jo2Do-Hwan Ahn3Jeong-Hoon Kim4Jae-Sung Rhee5Hyun Park6 Unit of Polar Genomics, Korea Polar Research Institute, Incheon 21990, Korea Unit of Polar Genomics, Korea Polar Research Institute, Incheon 21990, Korea Unit of Polar Genomics, Korea Polar Research Institute, Incheon 21990, Korea Unit of Polar Genomics, Korea Polar Research Institute, Incheon 21990, Korea Department of Polar Life Science, Korea Polar Research Institute, Incheon 21990, Korea Department of Marine Science, College of Natural Sciences, Incheon National University, Incheon 22012, Korea Unit of Polar Genomics, Korea Polar Research Institute, Incheon 21990, KoreaThe chinstrap (Pygoscelis antarcticus) and gentoo (P. papua) penguins are distributed throughout Antarctica and the sub-Antarctic islands. In this study, high-quality de novo assemblies of blood transcriptomes from these penguins were generated using the Illumina MiSeq platform. A total of 22.2 and 21.8 raw reads were obtained from chinstrap and gentoo penguins, respectively. These reads were assembled using the Oases assembly platform and resulted in 26,036 and 21,854 contigs with N50 values of 929 and 933 base pairs, respectively. Functional gene annotations through pathway analyses of the Gene Ontology, EuKaryotic Orthologous Groups, and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases were performed for each blood transcriptome, resulting in a similar compositional order between the two transcriptomes. Ortholog comparisons with previously published transcriptomes from the Adélie (P. adeliae) and emperor (Aptenodytes forsteri) penguins revealed that a high proportion of the four penguins’ transcriptomes had significant sequence homology. Because blood and tissues of penguins have been used to monitor pollution in Antarctica, immune parameters in blood could be important indicators for understanding the health status of penguins and other Antarctic animals. In the blood transcriptomes, KEGG analyses detected many essential genes involved in the major innate immunity pathways, which are key metabolic pathways for maintaining homeostasis against exogenous infections or toxins. Blood transcriptome studies such as this may be useful for checking the immune and health status of penguins without sacrifice.http://genominfo.org/upload/pdf/gi-2019-17-1-e5.pdfbloodchinstrapgentooimmunitypenguintranscriptome |
| spellingShingle | Bo-Mi Kim Jihye Jeong Euna Jo Do-Hwan Ahn Jeong-Hoon Kim Jae-Sung Rhee Hyun Park Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica Genomics & Informatics blood chinstrap gentoo immunity penguin transcriptome |
| title | Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica |
| title_full | Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica |
| title_fullStr | Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica |
| title_full_unstemmed | Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica |
| title_short | Blood transcriptome resources of chinstrap () and gentoo () penguins from the South Shetland Islands, Antarctica |
| title_sort | blood transcriptome resources of chinstrap and gentoo penguins from the south shetland islands antarctica |
| topic | blood chinstrap gentoo immunity penguin transcriptome |
| url | http://genominfo.org/upload/pdf/gi-2019-17-1-e5.pdf |
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