Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages
Background Red palm weevil, Rhynchophorus ferrugineus Olivier, is one of the most destructive pests harming palm trees. However, genomic resources for R. ferrugineus are still lacking, limiting the ability to discover molecular and genetic means of pest control. Methods In this study, PacBio Iso-Seq...
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PeerJ Inc.
2020-11-01
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| Online Access: | https://peerj.com/articles/10223.pdf |
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| author | Hongjun Yang Danping Xu Zhihang Zhuo Jiameng Hu Baoqian Lu |
| author_facet | Hongjun Yang Danping Xu Zhihang Zhuo Jiameng Hu Baoqian Lu |
| author_sort | Hongjun Yang |
| collection | DOAJ |
| description | Background Red palm weevil, Rhynchophorus ferrugineus Olivier, is one of the most destructive pests harming palm trees. However, genomic resources for R. ferrugineus are still lacking, limiting the ability to discover molecular and genetic means of pest control. Methods In this study, PacBio Iso-Seq and Illumina RNA-seq were used to generate transcriptome from three developmental stages of R. ferrugineus (pupa, 7th-instar larva, adult) to increase the understanding of the life cycle and molecular characteristics of the pest. Results Sequencing generated 625,983,256 clean reads, from which 63,801 full-length transcripts were assembled with N50 of 3,547 bp. Expression analyses revealed 8,583 differentially expressed genes (DEGs). Moreover, gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis revealed that these DEGs were mainly related to the peroxisome pathway which associated with metabolic pathways, material transportation and organ tissue formation. In summary, this work provides a valuable basis for further research on the growth and development, gene expression and gene prediction, and pest control of R. ferrugineus. |
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| language | English |
| last_indexed | 2024-03-09T08:18:04Z |
| publishDate | 2020-11-01 |
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| spelling | doaj.art-dc6b8d25d17d4ac2942a118e5e40d3a52023-12-02T22:00:25ZengPeerJ Inc.PeerJ2167-83592020-11-018e1022310.7717/peerj.10223Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stagesHongjun Yang0Danping Xu1Zhihang Zhuo2Jiameng Hu3Baoqian Lu4College of Life Science, China West Normal University, Nanchong, Sichuan, ChinaCollege of Life Science, China West Normal University, Nanchong, Sichuan, ChinaCollege of Life Science, China West Normal University, Nanchong, Sichuan, ChinaKey Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Key Laboratory of Germplasm Resources Biology of Tropical Special Ornamental Plants of Hainan Province, College of Forestry, Hainan University, Haikou, Hainan, ChinaKey Laboratory of Integrated Pest Management on Tropical Crops, Ministry of Agriculture China, Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, ChinaBackground Red palm weevil, Rhynchophorus ferrugineus Olivier, is one of the most destructive pests harming palm trees. However, genomic resources for R. ferrugineus are still lacking, limiting the ability to discover molecular and genetic means of pest control. Methods In this study, PacBio Iso-Seq and Illumina RNA-seq were used to generate transcriptome from three developmental stages of R. ferrugineus (pupa, 7th-instar larva, adult) to increase the understanding of the life cycle and molecular characteristics of the pest. Results Sequencing generated 625,983,256 clean reads, from which 63,801 full-length transcripts were assembled with N50 of 3,547 bp. Expression analyses revealed 8,583 differentially expressed genes (DEGs). Moreover, gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis revealed that these DEGs were mainly related to the peroxisome pathway which associated with metabolic pathways, material transportation and organ tissue formation. In summary, this work provides a valuable basis for further research on the growth and development, gene expression and gene prediction, and pest control of R. ferrugineus.https://peerj.com/articles/10223.pdfSingle-molecule sequencingRNA-SeqTranscriptomeDifferent developmental stageDifferentially expressed genes |
| spellingShingle | Hongjun Yang Danping Xu Zhihang Zhuo Jiameng Hu Baoqian Lu Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages PeerJ Single-molecule sequencing RNA-Seq Transcriptome Different developmental stage Differentially expressed genes |
| title | Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages |
| title_full | Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages |
| title_fullStr | Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages |
| title_full_unstemmed | Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages |
| title_short | Transcriptome and gene expression analysis of Rhynchophorus ferrugineus (Coleoptera: Curculionidae) during developmental stages |
| title_sort | transcriptome and gene expression analysis of rhynchophorus ferrugineus coleoptera curculionidae during developmental stages |
| topic | Single-molecule sequencing RNA-Seq Transcriptome Different developmental stage Differentially expressed genes |
| url | https://peerj.com/articles/10223.pdf |
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