Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis.
BACKGROUND: The rice leaf folder (RLF), Cnaphalocrocis medinalis (Guenee) (Lepidoptera: Pyralidae), is one of the most destructive pests affecting rice in Asia. Although several studies have been performed on the ecological and physiological aspects of this species, the molecular mechanisms underlyi...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2012-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3501527?pdf=render |
| _version_ | 1818993668307025920 |
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| author | Shang-Wei Li Hong Yang Yue-Feng Liu Qi-Rong Liao Juan Du Dao-Chao Jin |
| author_facet | Shang-Wei Li Hong Yang Yue-Feng Liu Qi-Rong Liao Juan Du Dao-Chao Jin |
| author_sort | Shang-Wei Li |
| collection | DOAJ |
| description | BACKGROUND: The rice leaf folder (RLF), Cnaphalocrocis medinalis (Guenee) (Lepidoptera: Pyralidae), is one of the most destructive pests affecting rice in Asia. Although several studies have been performed on the ecological and physiological aspects of this species, the molecular mechanisms underlying its developmental regulation, behavior, and insecticide resistance remain largely unknown. Presently, there is a lack of genomic information for RLF; therefore, studies aimed at profiling the RLF transcriptome expression would provide a better understanding of its biological function at the molecular level. PRINCIPAL FINDINGS: De novo assembly of the RLF transcriptome was performed via the short read sequencing technology (Illumina). In a single run, we produced more than 23 million sequencing reads that were assembled into 44,941 unigenes (mean size = 474 bp) by Trinity. Through a similarity search, 25,281 (56.82%) unigenes matched known proteins in the NCBI Nr protein database. The transcriptome sequences were annotated with gene ontology (GO), cluster of orthologous groups of proteins (COG), and KEGG orthology (KO). Additionally, we profiled gene expression during RLF development using a tag-based digital gene expression (DGE) system. Five DGE libraries were constructed, and variations in gene expression were compared between collected samples: eggs vs. 3(rd) instar larvae, 3(rd) instar larvae vs. pupae, pupae vs. adults. The results demonstrated that thousands of genes were significantly differentially expressed during various developmental stages. A number of the differentially expressed genes were confirmed by quantitative real-time PCR (qRT-PCR). CONCLUSIONS: The RLF transcriptome and DGE data provide a comprehensive and global gene expression profile that would further promote our understanding of the molecular mechanisms underlying various biological characteristics, including development, elevated fecundity, flight, sex differentiation, olfactory behavior, and insecticide resistance in RLF. Therefore, these findings could help elucidate the intrinsic factors involved in the RLF-mediated destruction of rice and offer sustainable insect pest management. |
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| format | Article |
| id | doaj.art-387fd5bd268e40e1b68e68f7573a801a |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-20T20:45:43Z |
| publishDate | 2012-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-387fd5bd268e40e1b68e68f7573a801a2022-12-21T19:27:03ZengPublic Library of Science (PLoS)PLoS ONE1932-62032012-01-01711e4740110.1371/journal.pone.0047401Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis.Shang-Wei LiHong YangYue-Feng LiuQi-Rong LiaoJuan DuDao-Chao JinBACKGROUND: The rice leaf folder (RLF), Cnaphalocrocis medinalis (Guenee) (Lepidoptera: Pyralidae), is one of the most destructive pests affecting rice in Asia. Although several studies have been performed on the ecological and physiological aspects of this species, the molecular mechanisms underlying its developmental regulation, behavior, and insecticide resistance remain largely unknown. Presently, there is a lack of genomic information for RLF; therefore, studies aimed at profiling the RLF transcriptome expression would provide a better understanding of its biological function at the molecular level. PRINCIPAL FINDINGS: De novo assembly of the RLF transcriptome was performed via the short read sequencing technology (Illumina). In a single run, we produced more than 23 million sequencing reads that were assembled into 44,941 unigenes (mean size = 474 bp) by Trinity. Through a similarity search, 25,281 (56.82%) unigenes matched known proteins in the NCBI Nr protein database. The transcriptome sequences were annotated with gene ontology (GO), cluster of orthologous groups of proteins (COG), and KEGG orthology (KO). Additionally, we profiled gene expression during RLF development using a tag-based digital gene expression (DGE) system. Five DGE libraries were constructed, and variations in gene expression were compared between collected samples: eggs vs. 3(rd) instar larvae, 3(rd) instar larvae vs. pupae, pupae vs. adults. The results demonstrated that thousands of genes were significantly differentially expressed during various developmental stages. A number of the differentially expressed genes were confirmed by quantitative real-time PCR (qRT-PCR). CONCLUSIONS: The RLF transcriptome and DGE data provide a comprehensive and global gene expression profile that would further promote our understanding of the molecular mechanisms underlying various biological characteristics, including development, elevated fecundity, flight, sex differentiation, olfactory behavior, and insecticide resistance in RLF. Therefore, these findings could help elucidate the intrinsic factors involved in the RLF-mediated destruction of rice and offer sustainable insect pest management.http://europepmc.org/articles/PMC3501527?pdf=render |
| spellingShingle | Shang-Wei Li Hong Yang Yue-Feng Liu Qi-Rong Liao Juan Du Dao-Chao Jin Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. PLoS ONE |
| title | Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. |
| title_full | Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. |
| title_fullStr | Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. |
| title_full_unstemmed | Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. |
| title_short | Transcriptome and gene expression analysis of the rice leaf folder, Cnaphalocrosis medinalis. |
| title_sort | transcriptome and gene expression analysis of the rice leaf folder cnaphalocrosis medinalis |
| url | http://europepmc.org/articles/PMC3501527?pdf=render |
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