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 a...

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Autores principales:	Yan Huang, Wenjun Chen, Xiaoyun Wang, Hailiang Liu, Yangyi Chen, Lei Guo, Fang Luo, Jiufeng Sun, Qiang Mao, Pei Liang, Zhizhi Xie, Chenhui Zhou, Yanli Tian, Xiaoli Lv, Lisi Huang, Juanjuan Zhou, Yue Hu, Ran Li, Fan Zhang, Huali Lei, Wenfang Li, Xuchu Hu, Chi Liang, Jin Xu, Xuerong Li, Xinbing Yu
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/d7af33a5eb924ac195bb122d1e32c6d7
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spelling	oai:doaj.org-article:d7af33a5eb924ac195bb122d1e32c6d72021-11-18T07:59:31ZThe carcinogenic liver fluke, Clonorchis sinensis: new assembly, reannotation and analysis of the genome and characterization of tissue transcriptomes.1932-620310.1371/journal.pone.0054732https://doaj.org/article/d7af33a5eb924ac195bb122d1e32c6d72013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23382950/?tool=EBIhttps://doaj.org/toc/1932-6203Clonorchis 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.Yan HuangWenjun ChenXiaoyun WangHailiang LiuYangyi ChenLei GuoFang LuoJiufeng SunQiang MaoPei LiangZhizhi XieChenhui ZhouYanli TianXiaoli LvLisi HuangJuanjuan ZhouYue HuRan LiFan ZhangHuali LeiWenfang LiXuchu HuChi LiangJin XuXuerong LiXinbing YuPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 1, p e54732 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yan Huang Wenjun Chen Xiaoyun Wang Hailiang Liu Yangyi Chen Lei Guo Fang Luo Jiufeng Sun Qiang Mao Pei Liang Zhizhi Xie Chenhui Zhou Yanli Tian Xiaoli Lv Lisi Huang Juanjuan Zhou Yue Hu Ran Li Fan Zhang Huali Lei Wenfang Li Xuchu Hu Chi Liang Jin Xu Xuerong Li Xinbing Yu The 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.
format	article
author	Yan Huang Wenjun Chen Xiaoyun Wang Hailiang Liu Yangyi Chen Lei Guo Fang Luo Jiufeng Sun Qiang Mao Pei Liang Zhizhi Xie Chenhui Zhou Yanli Tian Xiaoli Lv Lisi Huang Juanjuan Zhou Yue Hu Ran Li Fan Zhang Huali Lei Wenfang Li Xuchu Hu Chi Liang Jin Xu Xuerong Li Xinbing Yu
author_facet	Yan Huang Wenjun Chen Xiaoyun Wang Hailiang Liu Yangyi Chen Lei Guo Fang Luo Jiufeng Sun Qiang Mao Pei Liang Zhizhi Xie Chenhui Zhou Yanli Tian Xiaoli Lv Lisi Huang Juanjuan Zhou Yue Hu Ran Li Fan Zhang Huali Lei Wenfang Li Xuchu Hu Chi Liang Jin Xu Xuerong Li Xinbing Yu
author_sort	Yan Huang
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.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/d7af33a5eb924ac195bb122d1e32c6d7
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The carcinogenic liver fluke, Clonorchis sinensis: new assembly, reannotation and analysis of the genome and characterization of tissue transcriptomes.

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