The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource
The tea aphid, Aphis aurantii, has become one of the destructive pests in tea plantations in the tropics and subtropics. Very few functional studies have so far focused on the developmental and reproductive biology at a molecular level, because of the lack of comprehensive genetic information. Full-...
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Frontiers Media S.A.
2020-11-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2020.558394/full |
| _version_ | 1818547370518904832 |
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| author | Feng Hong Feng Hong Si-Hua Mo Xing-Yu Lin Jinzhi Niu Jinzhi Niu Jian Yin Dong Wei Dong Wei |
| author_facet | Feng Hong Feng Hong Si-Hua Mo Xing-Yu Lin Jinzhi Niu Jinzhi Niu Jian Yin Dong Wei Dong Wei |
| author_sort | Feng Hong |
| collection | DOAJ |
| description | The tea aphid, Aphis aurantii, has become one of the destructive pests in tea plantations in the tropics and subtropics. Very few functional studies have so far focused on the developmental and reproductive biology at a molecular level, because of the lack of comprehensive genetic information. Full-length transcriptomes represent a very highly efficient approach to obtain reference gene sequences in non-model insects. In the present study, the transcriptome of A. aurantii was comprehensively sequenced using PacBio Iso-Seq technology. A total of 46.8 Gb nucleotides and 15,938 non-redundant full-length transcripts were obtained, 13,498 (84.69%) of which were annotated into seven databases. Of these transcripts, 2,029 alternative splicing events and 15,223 simple sequence repeats were detected. Among these transcripts, 4,571 (28.68%) and 11,367 (71.32%) were long non-coding RNAs (lncRNAs) and protein-coding genes, respectively. Five hundred and ninety transcription factors were detected. The first full-length transcriptome represents a significant increase in the known genetic information of A. aurantii. It will assist the future functional study of genes involved in its development and reproduction. |
| first_indexed | 2024-12-12T08:05:52Z |
| format | Article |
| id | doaj.art-bfe2a9bd1fc7466f969fb7ff4c444364 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-12T08:05:52Z |
| publishDate | 2020-11-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Genetics |
| spelling | doaj.art-bfe2a9bd1fc7466f969fb7ff4c4443642022-12-22T00:31:59ZengFrontiers Media S.A.Frontiers in Genetics1664-80212020-11-011110.3389/fgene.2020.558394558394The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference ResourceFeng Hong0Feng Hong1Si-Hua Mo2Xing-Yu Lin3Jinzhi Niu4Jinzhi Niu5Jian Yin6Dong Wei7Dong Wei8College of Agriculture, Xinyang Agriculture and Forestry University, Xinyang, ChinaChongqing Key Laboratory of Entomology and Pest Control Engineering, College of Plant Protection, Southwest University, Chongqing, ChinaChongqing Key Laboratory of Entomology and Pest Control Engineering, College of Plant Protection, Southwest University, Chongqing, ChinaCollege of Agriculture, Xinyang Agriculture and Forestry University, Xinyang, ChinaChongqing Key Laboratory of Entomology and Pest Control Engineering, College of Plant Protection, Southwest University, Chongqing, ChinaState Cultivation Base of Crop Stress Biology for Southern Mountainous Land, Academy of Agricultural Sciences, Southwest University, Chongqing, ChinaCollege of Agriculture, Xinyang Agriculture and Forestry University, Xinyang, ChinaChongqing Key Laboratory of Entomology and Pest Control Engineering, College of Plant Protection, Southwest University, Chongqing, ChinaState Cultivation Base of Crop Stress Biology for Southern Mountainous Land, Academy of Agricultural Sciences, Southwest University, Chongqing, ChinaThe tea aphid, Aphis aurantii, has become one of the destructive pests in tea plantations in the tropics and subtropics. Very few functional studies have so far focused on the developmental and reproductive biology at a molecular level, because of the lack of comprehensive genetic information. Full-length transcriptomes represent a very highly efficient approach to obtain reference gene sequences in non-model insects. In the present study, the transcriptome of A. aurantii was comprehensively sequenced using PacBio Iso-Seq technology. A total of 46.8 Gb nucleotides and 15,938 non-redundant full-length transcripts were obtained, 13,498 (84.69%) of which were annotated into seven databases. Of these transcripts, 2,029 alternative splicing events and 15,223 simple sequence repeats were detected. Among these transcripts, 4,571 (28.68%) and 11,367 (71.32%) were long non-coding RNAs (lncRNAs) and protein-coding genes, respectively. Five hundred and ninety transcription factors were detected. The first full-length transcriptome represents a significant increase in the known genetic information of A. aurantii. It will assist the future functional study of genes involved in its development and reproduction.https://www.frontiersin.org/articles/10.3389/fgene.2020.558394/fullIso-seqSMRT sequencingAphis aurantiireference resourcelong non-coding RNAsimple sequence repeat |
| spellingShingle | Feng Hong Feng Hong Si-Hua Mo Xing-Yu Lin Jinzhi Niu Jinzhi Niu Jian Yin Dong Wei Dong Wei The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource Frontiers in Genetics Iso-seq SMRT sequencing Aphis aurantii reference resource long non-coding RNA simple sequence repeat |
| title | The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource |
| title_full | The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource |
| title_fullStr | The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource |
| title_full_unstemmed | The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource |
| title_short | The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource |
| title_sort | pacbio full length transcriptome of the tea aphid as a reference resource |
| topic | Iso-seq SMRT sequencing Aphis aurantii reference resource long non-coding RNA simple sequence repeat |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2020.558394/full |
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