New insights from Opisthorchis felineus genome: update on genomics of the epidemiologically important liver flukes

BMC Genomics

Xun Xu¹  He Zhang¹  Huanming Yang¹  An Xiao¹  Xin Liu¹  Guangyi Fan²  Svetlana Tsygankova³  Eugenia Boulygina³  Nikolay Chekanov⁴  Alexander Mazur⁴  Konstantin G. Skryabin⁵  Egor B. Prokhortchouk⁶  Victor Solovyev⁷  Simon Ming-Yuen Lee⁸  Ekaterina Khrameeva⁹  Kirill Ustyantsev^1,10  Viatcheslav A. Mordvinov^1,10  Mikhail A. Genaev^1,10  Konstantin V. Gunbin^1,10  Alexander G. Blinov^1,10  Nikita I. Ershov^1,10  Mariya Y. Pakharukova^1,11  Dmitry A. Afonnikov^1,11 

[1] 0000 0001 2034 1839, grid.21155.32, BGI-Shenzhen, 11 Beishan Industrial Zone, Yantian District, 518083, Shenzhen, China;0000 0001 2034 1839, grid.21155.32, BGI-Shenzhen, 11 Beishan Industrial Zone, Yantian District, 518083, Shenzhen, China;State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China;0000000406204151, grid.18919.38, Federal Research Center Kurchatov Institute, Moscow, Russia;Russian Federal Research Center for Biotechnology, 33/2 Leninsky prospect, 119071, Moscow, Russia;Russian Federal Research Center for Biotechnology, 33/2 Leninsky prospect, 119071, Moscow, Russia;0000000406204151, grid.18919.38, Federal Research Center Kurchatov Institute, Moscow, Russia;Russian Federal Research Center for Biotechnology, 33/2 Leninsky prospect, 119071, Moscow, Russia;ZAO Genoanalytica, 1 Leninskie Gory street, 119234, Moscow, Russia;Softberry Inc., 116 Radio Circle, Suite 400, 10549, Mount Kisco, NY, USA;State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China;ZAO Genoanalytica, 1 Leninskie Gory street, 119234, Moscow, Russia;grid.418953.2, Institute of Cytology and Genetics SB RAS, 10 Lavrentiev Ave, 630090, Novosibirsk, Russia;grid.418953.2, Institute of Cytology and Genetics SB RAS, 10 Lavrentiev Ave, 630090, Novosibirsk, Russia;0000000121896553, grid.4605.7, Novosibirsk State University, 2 Pirogova Str, 630090, Novosibirsk, Russia;

关键词: Opisthorchiidae;    Opisthorchis felineus;    Genome;    Trans-splicing;    Microintrons;    Liver flukes;    Transcriptome;    Metacercariae;   

DOI  :  10.1186/s12864-019-5752-8

来源: publisher

【 摘 要 】

BackgroundThe three epidemiologically important Opisthorchiidae liver flukes Opisthorchis felineus, O. viverrini, and Clonorchis sinensis, are believed to harbour similar potencies to provoke hepatobiliary diseases in their definitive hosts, although their populations have substantially different ecogeographical aspects including habitat, preferred hosts, population structure. Lack of O. felineus genomic data is an obstacle to the development of comparative molecular biological approaches necessary to obtain new knowledge about the biology of Opisthorchiidae trematodes, to identify essential pathways linked to parasite-host interaction, to predict genes that contribute to liver fluke pathogenesis and for the effective prevention and control of the disease.ResultsHere we present the first draft genome assembly of O. felineus and its gene repertoire accompanied by a comparative analysis with that of O. viverrini and Clonorchis sinensis. We observed both noticeably high heterozygosity of the sequenced individual and substantial genetic diversity in a pooled sample. This indicates that potency of O. felineus population for rapid adaptive response to control and preventive measures of opisthorchiasis is higher than in O. viverrini and C. sinensis. We also have found that all three species are characterized by more intensive involvement of trans-splicing in RNA processing compared to other trematodes.ConclusionAll revealed peculiarities of structural organization of genomes are of extreme importance for a proper description of genes and their products in these parasitic species. This should be taken into account both in academic and applied research of epidemiologically important liver flukes. Further comparative genomics studies of liver flukes and non-carcinogenic flatworms allow for generation of well-grounded hypotheses on the mechanisms underlying development of cholangiocarcinoma associated with opisthorchiasis and clonorchiasis as well as species-specific mechanisms of these diseases.

【 授权许可】

CC BY