Genome analysis and comparative genomics of a Giardia intestinalis assemblage E isolate

BMC Genomics

Research Article

Staffan G Svärd¹  Jon Jerlström-Hultqvist¹  Johan Ankarklev¹  Björn Andersson²  Oscar Franzén²  Jan O Andersson³  Feifei Xu³  Eva Nohýnková⁴ 

[1] Department of Cell and Molecular Biology, BMC, Box 596, Uppsala University, SE-751 24, Uppsala, Sweden;Department of Cell and Molecular Biology, Karolinska Institutet, Box 285, SE-171 77, Stockholm, Sweden;Science for Life Laboratory, KISP, Tomtebodavägen 23A, 171 65, Solna, Sweden;Department of Evolution, Genomics and Systematics, EBC, Uppsala University, SE-752 36, Uppsala, Sweden;Department of Tropical Medicine, 1st Faculty of Medicine, Charles University, 128 00, Prague 2, Czech Republic;

关键词: Core Proteome;    Giardia Isolate;    Giardia Intestinalis;    Giardia Assemblage;    Giardia Genome;   

DOI  :  10.1186/1471-2164-11-543

 received in 2010-04-07, accepted in 2010-10-07,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundGiardia intestinalis is a protozoan parasite that causes diarrhea in a wide range of mammalian species. To further understand the genetic diversity between the Giardia intestinalis species, we have performed genome sequencing and analysis of a wild-type Giardia intestinalis sample from the assemblage E group, isolated from a pig.ResultsWe identified 5012 protein coding genes, the majority of which are conserved compared to the previously sequenced genomes of the WB and GS strains in terms of microsynteny and sequence identity. Despite this, there is an unexpectedly large number of chromosomal rearrangements and several smaller structural changes that are present in all chromosomes. Novel members of the VSP, NEK Kinase and HCMP gene families were identified, which may reveal possible mechanisms for host specificity and new avenues for antigenic variation. We used comparative genomics of the three diverse Giardia intestinalis isolates P15, GS and WB to define a core proteome for this species complex and to identify lineage-specific genes. Extensive analyses of polymorphisms in the core proteome of Giardia revealed differential rates of divergence among cellular processes.ConclusionsOur results indicate that despite a well conserved core of genes there is significant genome variation between Giardia isolates, both in terms of gene content, gene polymorphisms, structural chromosomal variations and surface molecule repertoires. This study improves the annotation of the Giardia genomes and enables the identification of functionally important variation.

【 授权许可】

Unknown   
© Jerlström-Hultqvist et al; licensee BioMed Central Ltd. 2010. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.