A Specific Indel Marker for the Philippines Schistosoma Japonicum Revealed by Analysis of Mitochondrial Genome Sequences

Overview

Journal Parasitol Res

Specialty Parasitology

Date 2015 Apr 23

PMID 25899327

Citations 2

Authors

Juan Li

Fen Chen

Hiromu Sugiyama

David Blair

Rui-Qing Lin

Xing-Quan Zhu

Affiliations

Soon will be listed here.

Abstract

In the present study, near-complete mitochondrial (mt) genome sequences for Schistosoma japonicum from different regions in the Philippines and Japan were amplified and sequenced. Comparisons among S. japonicum from the Philippines, Japan, and China revealed a geographically based length difference in mt genomes, but the mt genomic organization and gene arrangement were the same. Sequence differences among samples from the Philippines and all samples from the three endemic areas were 0.57-2.12 and 0.76-3.85 %, respectively. The most variable part of the mt genome was the non-coding region. In the coding portion of the genome, protein-coding genes varied more than rRNA genes and tRNAs. The near-complete mt genome sequences for Philippine specimens were identical in length (14,091 bp) which was 4 bp longer than those of S. japonicum samples from Japan and China. This indel provides a unique genetic marker for S. japonicum samples from the Philippines. Phylogenetic analyses based on the concatenated amino acids of 12 protein-coding genes showed that samples of S. japonicum clustered according to their geographical origins. The identified mitochondrial indel marker will be useful for tracing the source of S. japonicum infection in humans and animals in Southeast Asia.

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References

Zhao G, Li J, Blair D, Li X, Elsheikha H, Lin R . Biotechnological advances in the diagnosis, species differentiation and phylogenetic analysis of Schistosoma spp. Biotechnol Adv. 2012; 30(6):1381-9. DOI: 10.1016/j.biotechadv.2012.02.008. View

Leonardo L, Rivera P, Saniel O, Villacorte E, Crisostomo B, Hernandez L . Prevalence survey of schistosomiasis in Mindanao and the Visayas, The Philippines. Parasitol Int. 2008; 57(3):246-51. DOI: 10.1016/j.parint.2008.04.006. View

Blas B, Rosales M, Lipayon I, Yasuraoka K, Matsuda H, Hayashi M . The schistosomiasis problem in the Philippines: a review. Parasitol Int. 2004; 53(2):127-34. DOI: 10.1016/j.parint.2004.01.003. View

Nairz K, Zipperlen P, Schneider M . FLP-Mapping: a universal, cost-effective, and automatable method for gene mapping. Methods Mol Biol. 2007; 396:419-32. DOI: 10.1007/978-1-59745-515-2_27. View

Xianyi C, Liying W, Jiming C, Xiaonong Z, Jiang Z, Jiagang G . Schistosomiasis control in China: the impact of a 10-year World Bank Loan Project (1992-2001). Bull World Health Organ. 2005; 83(1):43-8. PMC: 2623468. DOI: /S0042-96862005000100013. View

Zhao G, Li J, Song H, Li X, Chen F, Lin R . A specific PCR assay for the identification and differentiation of Schistosoma japonicum geographical isolates in mainland China based on analysis of mitochondrial genome sequences. Infect Genet Evol. 2012; 12(5):1027-36. DOI: 10.1016/j.meegid.2012.02.020. View

Ronquist F, Huelsenbeck J . MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics. 2003; 19(12):1572-4. DOI: 10.1093/bioinformatics/btg180. View

Chilton N, Gasser R, Beveridge I . Differences in a ribosomal DNA sequence of morphologically indistinguishable species within the Hypodontus macropi complex (Nematoda: Strongyloidea). Int J Parasitol. 1995; 25(5):647-51. DOI: 10.1016/0020-7519(94)00171-j. View

Beltran S, Galinier R, Allienne J, Boissier J . Cheap, rapid and efficient DNA extraction method to perform multilocus microsatellite genotyping on all Schistosoma mansoni stages. Mem Inst Oswaldo Cruz. 2008; 103(5):501-3. DOI: 10.1590/s0074-02762008000500017. View

10.

Hu M, Jex A, Campbell B, Gasser R . Long PCR amplification of the entire mitochondrial genome from individual helminths for direct sequencing. Nat Protoc. 2007; 2(10):2339-44. DOI: 10.1038/nprot.2007.358. View

11.

Wang W, Dai J, Liang Y, Huang Y, Coles G . Impact of the South-to-North Water Diversion Project on the transmission of Schistosoma japonicum in China. Ann Trop Med Parasitol. 2009; 103(1):17-29. DOI: 10.1179/136485909X384974. View

12.

Thompson J, Gibson T, Plewniak F, Jeanmougin F, Higgins D . The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 1998; 25(24):4876-82. PMC: 147148. DOI: 10.1093/nar/25.24.4876. View

13.

Abascal F, Zardoya R, Posada D . ProtTest: selection of best-fit models of protein evolution. Bioinformatics. 2005; 21(9):2104-5. DOI: 10.1093/bioinformatics/bti263. View

14.

Mullaney J, Mills R, Pittard W, Devine S . Small insertions and deletions (INDELs) in human genomes. Hum Mol Genet. 2010; 19(R2):R131-6. PMC: 2953750. DOI: 10.1093/hmg/ddq400. View

15.

Boore J . Animal mitochondrial genomes. Nucleic Acids Res. 1999; 27(8):1767-80. PMC: 148383. DOI: 10.1093/nar/27.8.1767. View

16.

Zhou Y, Liang S, Chen G, Rea C, He Z, Zhang Z . An integrated strategy for transmission control of Schistosoma japonicum in a marshland area of China: findings from a five-year longitudinal survey and mathematical modeling. Am J Trop Med Hyg. 2011; 85(1):83-8. PMC: 3122349. DOI: 10.4269/ajtmh.2011.10-0574. View

17.

Lv Z, Wu Z, Zhang L, Ji P, Cai Y, Luo S . Genome mining offers a new starting point for parasitology research. Parasitol Res. 2015; 114(2):399-409. DOI: 10.1007/s00436-014-4299-5. View

18.

Zhao G, Li J, Mo X, Li X, Lin R, Zou F . The second transcribed spacer rDNA sequence: an effective genetic marker for inter-species phylogenetic analysis of trematodes in the order Strigeata. Parasitol Res. 2012; 111(4):1467-72. DOI: 10.1007/s00436-012-2981-z. View

19.

Zarowiecki M, Huyse T, Littlewood D . Making the most of mitochondrial genomes--markers for phylogeny, molecular ecology and barcodes in Schistosoma (Platyhelminthes: Digenea). Int J Parasitol. 2007; 37(12):1401-18. DOI: 10.1016/j.ijpara.2007.04.014. View

20.

Olveda D, Li Y, Olveda R, Lam A, McManus D, Chau T . Bilharzia in the Philippines: past, present, and future. Int J Infect Dis. 2013; 18:52-6. DOI: 10.1016/j.ijid.2013.09.011. View