Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers
Vespa mandarinia found in the forests of East Asia, including Korea, occupies the highest rank in the arthropod food web within its geographical range. It serves as a source of nutrition in the form of Vespa amino acid mixture and is listed as a threatened species, although no conservation measures...
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| Format: | Article |
| Language: | English |
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Wiley
2016-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2016/4169587 |
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| author | Bharat Bhusan Patnaik So Young Park Se Won Kang Hee-Ju Hwang Tae Hun Wang Eun Bi Park Jong Min Chung Dae Kwon Song Changmu Kim Soonok Kim Jae Bong Lee Heon Cheon Jeong Hong Seog Park Yeon Soo Han Yong Seok Lee |
| author_facet | Bharat Bhusan Patnaik So Young Park Se Won Kang Hee-Ju Hwang Tae Hun Wang Eun Bi Park Jong Min Chung Dae Kwon Song Changmu Kim Soonok Kim Jae Bong Lee Heon Cheon Jeong Hong Seog Park Yeon Soo Han Yong Seok Lee |
| author_sort | Bharat Bhusan Patnaik |
| collection | DOAJ |
| description | Vespa mandarinia found in the forests of East Asia, including Korea, occupies the highest rank in the arthropod food web within its geographical range. It serves as a source of nutrition in the form of Vespa amino acid mixture and is listed as a threatened species, although no conservation measures have been implemented. Here, we performed de novo assembly of the V. mandarinia transcriptome by Illumina HiSeq 4000 sequencing. Over 60 million raw reads and 59,184,811 clean reads were obtained. After assembly, a total of 66,837 unigenes were clustered, 40,887, 44,455, and 22,390 of which showed homologous matches against the PANM, Unigene, and KOG databases, respectively. A total of 15,675 unigenes were assigned to Gene Ontology terms, and 5,132 unigenes were mapped to 115 KEGG pathways. The zinc finger domain (C2H2-like), serine/threonine/dual specificity protein kinase domain, and RNA recognition motif domain were among the top InterProScan domains predicted for V. mandarinia sequences. Among the unigenes, we identified 534,922 cDNA simple sequence repeats as potential markers. This is the first transcriptomic analysis of the wasp V. mandarinia using Illumina HiSeq 4000. The obtained datasets should promote the search for new genes to understand the physiological attributes of this wasp. |
| format | Article |
| id | doaj-art-99c6989d8db5448ba999a3e9c08f31cd |
| institution | OA Journals |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2016-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-99c6989d8db5448ba999a3e9c08f31cd2025-08-20T02:20:15ZengWileyInternational Journal of Genomics2314-436X2314-43782016-01-01201610.1155/2016/41695874169587Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR MarkersBharat Bhusan Patnaik0So Young Park1Se Won Kang2Hee-Ju Hwang3Tae Hun Wang4Eun Bi Park5Jong Min Chung6Dae Kwon Song7Changmu Kim8Soonok Kim9Jae Bong Lee10Heon Cheon Jeong11Hong Seog Park12Yeon Soo Han13Yong Seok Lee14Department of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaNational Institute of Biological Resources, 42 Hwangyeong-ro, Seo-gu, Incheon 22689, Republic of KoreaNational Institute of Biological Resources, 42 Hwangyeong-ro, Seo-gu, Incheon 22689, Republic of KoreaKorea Zoonosis Research Institute (KOZRI), Chonbuk National Institute, 820-120 Hana-ro, Iksan, Jeollabuk-do 54528, Republic of KoreaHampyeong County Insect Institute, Hampyeong County Agricultural Technology Center, 90 Hakgyohwasan-gil, Hakgyo-myeon, Jeollanam-do 57158, Republic of KoreaResearch Institute, GnC BIO Co., Ltd., 621-6 Banseok-dong, Yuseong-gu, Daejeon 34069, Republic of KoreaCollege of Agriculture and Life Sciences, Chonnam National University, 77 Yongbong-ro, Buk-gu, Gwangju 61186, Republic of KoreaDepartment of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunhyangro, Shinchang-myeon, Asan, Chungchungnam-do 31538, Republic of KoreaVespa mandarinia found in the forests of East Asia, including Korea, occupies the highest rank in the arthropod food web within its geographical range. It serves as a source of nutrition in the form of Vespa amino acid mixture and is listed as a threatened species, although no conservation measures have been implemented. Here, we performed de novo assembly of the V. mandarinia transcriptome by Illumina HiSeq 4000 sequencing. Over 60 million raw reads and 59,184,811 clean reads were obtained. After assembly, a total of 66,837 unigenes were clustered, 40,887, 44,455, and 22,390 of which showed homologous matches against the PANM, Unigene, and KOG databases, respectively. A total of 15,675 unigenes were assigned to Gene Ontology terms, and 5,132 unigenes were mapped to 115 KEGG pathways. The zinc finger domain (C2H2-like), serine/threonine/dual specificity protein kinase domain, and RNA recognition motif domain were among the top InterProScan domains predicted for V. mandarinia sequences. Among the unigenes, we identified 534,922 cDNA simple sequence repeats as potential markers. This is the first transcriptomic analysis of the wasp V. mandarinia using Illumina HiSeq 4000. The obtained datasets should promote the search for new genes to understand the physiological attributes of this wasp.http://dx.doi.org/10.1155/2016/4169587 |
| spellingShingle | Bharat Bhusan Patnaik So Young Park Se Won Kang Hee-Ju Hwang Tae Hun Wang Eun Bi Park Jong Min Chung Dae Kwon Song Changmu Kim Soonok Kim Jae Bong Lee Heon Cheon Jeong Hong Seog Park Yeon Soo Han Yong Seok Lee Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers International Journal of Genomics |
| title | Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers |
| title_full | Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers |
| title_fullStr | Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers |
| title_full_unstemmed | Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers |
| title_short | Transcriptome Profile of the Asian Giant Hornet (Vespa mandarinia) Using Illumina HiSeq 4000 Sequencing: De Novo Assembly, Functional Annotation, and Discovery of SSR Markers |
| title_sort | transcriptome profile of the asian giant hornet vespa mandarinia using illumina hiseq 4000 sequencing de novo assembly functional annotation and discovery of ssr markers |
| url | http://dx.doi.org/10.1155/2016/4169587 |
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