The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes
Clonorchis sinensis (C. sinensis), an important food-borne parasite that inhabits the intrahepatic bile duct and causes clonorchiasis, is of interest to both the public health field and the scientific research community. To learn more about the migration, parasitism and pathogenesis of C. sinensis...
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| Format: | Online |
| Language: | English |
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Public Library of Science
2013
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| Online Access: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3559784/ |
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pubmed-35597842013-02-04 The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes Huang, Yan Chen, Wenjun Wang, Xiaoyun Liu, Hailiang Chen, Yangyi Guo, Lei Luo, Fang Sun, Jiufeng Mao, Qiang Liang, Pei Xie, Zhizhi Zhou, Chenhui Tian, Yanli Lv, Xiaoli Huang, Lisi Zhou, Juanjuan Hu, Yue Li, Ran Zhang, Fan Lei, Huali Li, Wenfang Hu, Xuchu Liang, Chi Xu, Jin Li, Xuerong Yu, Xinbing Research Article Clonorchis sinensis (C. sinensis), an important food-borne parasite that inhabits the intrahepatic bile duct and causes clonorchiasis, is of interest to both the public health field and the scientific research community. To learn more about the migration, parasitism and pathogenesis of C. sinensis at the molecular level, the present study developed an upgraded genomic assembly and annotation by sequencing paired-end and mate-paired libraries. We also performed transcriptome sequence analyses on multiple C. sinensis tissues (sucker, muscle, ovary and testis). Genes encoding molecules involved in responses to stimuli and muscle-related development were abundantly expressed in the oral sucker. Compared with other species, genes encoding molecules that facilitate the recognition and transport of cholesterol were observed in high copy numbers in the genome and were highly expressed in the oral sucker. Genes encoding transporters for fatty acids, glucose, amino acids and oxygen were also highly expressed, along with other molecules involved in metabolizing these substrates. All genes involved in energy metabolism pathways, including the β-oxidation of fatty acids, the citrate cycle, oxidative phosphorylation, and fumarate reduction, were expressed in the adults. Finally, we also provide valuable insights into the mechanism underlying the process of pathogenesis by characterizing the secretome of C. sinensis. The characterization and elaborate analysis of the upgraded genome and the tissue transcriptomes not only form a detailed and fundamental C. sinensis resource but also provide novel insights into the physiology and pathogenesis of C. sinensis. We anticipate that this work will aid the development of innovative strategies for the prevention and control of clonorchiasis. Public Library of Science 2013-01-30 /pmc/articles/PMC3559784/ /pubmed/23382950 http://dx.doi.org/10.1371/journal.pone.0054732 Text en © 2013 Huang et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
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Open Access Journal |
| institution_category |
Foreign Institution |
| institution |
US National Center for Biotechnology Information |
| building |
NCBI PubMed |
| collection |
Online Access |
| language |
English |
| format |
Online |
| author |
Huang, Yan Chen, Wenjun Wang, Xiaoyun Liu, Hailiang Chen, Yangyi Guo, Lei Luo, Fang Sun, Jiufeng Mao, Qiang Liang, Pei Xie, Zhizhi Zhou, Chenhui Tian, Yanli Lv, Xiaoli Huang, Lisi Zhou, Juanjuan Hu, Yue Li, Ran Zhang, Fan Lei, Huali Li, Wenfang Hu, Xuchu Liang, Chi Xu, Jin Li, Xuerong Yu, Xinbing |
| spellingShingle |
Huang, Yan Chen, Wenjun Wang, Xiaoyun Liu, Hailiang Chen, Yangyi Guo, Lei Luo, Fang Sun, Jiufeng Mao, Qiang Liang, Pei Xie, Zhizhi Zhou, Chenhui Tian, Yanli Lv, Xiaoli Huang, Lisi Zhou, Juanjuan Hu, Yue Li, Ran Zhang, Fan Lei, Huali Li, Wenfang Hu, Xuchu Liang, Chi Xu, Jin Li, Xuerong Yu, Xinbing The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| author_facet |
Huang, Yan Chen, Wenjun Wang, Xiaoyun Liu, Hailiang Chen, Yangyi Guo, Lei Luo, Fang Sun, Jiufeng Mao, Qiang Liang, Pei Xie, Zhizhi Zhou, Chenhui Tian, Yanli Lv, Xiaoli Huang, Lisi Zhou, Juanjuan Hu, Yue Li, Ran Zhang, Fan Lei, Huali Li, Wenfang Hu, Xuchu Liang, Chi Xu, Jin Li, Xuerong Yu, Xinbing |
| author_sort |
Huang, Yan |
| title |
The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| title_short |
The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| title_full |
The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| title_fullStr |
The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| title_full_unstemmed |
The Carcinogenic Liver Fluke, Clonorchis sinensis: New Assembly, Reannotation and Analysis of the Genome and Characterization of Tissue Transcriptomes |
| title_sort |
carcinogenic liver fluke, clonorchis sinensis: new assembly, reannotation and analysis of the genome and characterization of tissue transcriptomes |
| description |
Clonorchis sinensis (C. sinensis), an important food-borne parasite that inhabits the intrahepatic bile duct and causes clonorchiasis, is of interest to both the public health field and the scientific research community. To learn more about the migration, parasitism and pathogenesis of C. sinensis at the molecular level, the present study developed an upgraded genomic assembly and annotation by sequencing paired-end and mate-paired libraries. We also performed transcriptome sequence analyses on multiple C. sinensis tissues (sucker, muscle, ovary and testis). Genes encoding molecules involved in responses to stimuli and muscle-related development were abundantly expressed in the oral sucker. Compared with other species, genes encoding molecules that facilitate the recognition and transport of cholesterol were observed in high copy numbers in the genome and were highly expressed in the oral sucker. Genes encoding transporters for fatty acids, glucose, amino acids and oxygen were also highly expressed, along with other molecules involved in metabolizing these substrates. All genes involved in energy metabolism pathways, including the β-oxidation of fatty acids, the citrate cycle, oxidative phosphorylation, and fumarate reduction, were expressed in the adults. Finally, we also provide valuable insights into the mechanism underlying the process of pathogenesis by characterizing the secretome of C. sinensis. The characterization and elaborate analysis of the upgraded genome and the tissue transcriptomes not only form a detailed and fundamental C. sinensis resource but also provide novel insights into the physiology and pathogenesis of C. sinensis. We anticipate that this work will aid the development of innovative strategies for the prevention and control of clonorchiasis. |
| publisher |
Public Library of Science |
| publishDate |
2013 |
| url |
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3559784/ |
| _version_ |
1611951108548198400 |