Molecular Changes in Opisthorchis viverrini (Southeast Asian Liver Fluke) during the Transition from the Juvenile to the Adult Stage

PLoS Neglected Tropical Diseases

Volumn 6, Issue 11, 2012, Pages

  Jex, Aaron R ^a   Young, Neil D ^a   Sripa, Jittiyawadee ^b   Hall, Ross S ^a   Scheerlinck, Jean Pierre ^a   Laha, Thewarach ^c   Sripa, Banchob ^c   Gasser, Robin B ^a  

^a UNIVERSITY OF MELBOURNE   (Australia)

^b UBON RATCHATHANI UNIVERSITY   (Thailand)

^c KHON KAEN UNIVERSITY   (Thailand)

Author keywords

[No Author keywords available]

Indexed keywords

CATHEPSIN; MESSENGER RNA; TRANSCRIPTOME;

ARTICLE; CLONORCHIS SINENSIS; GENETIC TRANSCRIPTION; HAMSTER; JUVENILE; MOLECULAR BIOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; OPISTHORCHIS VIVERRINI; PHYLOGENY; PROTEIN PURIFICATION; RNA SEQUENCE; TREMATODE;

ANIMALS; CRICETINAE; CYSTEINE ENDOPEPTIDASES; EVOLUTION, MOLECULAR; MESOCRICETUS; OPISTHORCHIS; SEQUENCE ANALYSIS, RNA; TRANSCRIPTOME;

EID: 84870736459     PISSN: 19352727     EISSN: 19352735     Source Type: Journal    
DOI: 10.1371/journal.pntd.0001916     Document Type: Article

References (62)

1. Keiser J, Utzinger J, (2005) Emerging foodborne trematodiasis. Emerg Infect Dis 11: 1507-1514.
2. WHO (1995) Control of foodborne trematode infections. Report of a WHO Study Group. World Health Organization Technical Report Series 849: 1-157.
3. Traub RJ, Macaranas J, Mungthin M, Leelayoova S, Cribb T, et al. (2009) A new PCR-based approach indicates the range of Clonorchis sinensis now extends to Central Thailand. PLoS Negl Trop Dis 3: e367.
4. Kaewkes S, (2003) Taxonomy and biology of liver flukes. Acta Tropica 88: 177-186.
5. Sripa B, Kaewkes S, Sithithaworn P, Mairiang E, Laha T, et al. (2007) Liver fluke induces cholangiocarcinoma. PLoS Medicine 4: e201.
6. Muller R (2002) Worms and human disease. Wallingford, UK: CABI Publishing.
7. Parkin DM, Whelan SL, Ferlay J, Teppo L, Thomas DBE, (2002) Cancer incidence in five continents International Agency for Research on Cancer: Lyon. pp. 1-781.
8. Bouvard V, Baan R, Straif K, Grosse Y, Secretan B, et al. (2009) A review of human carcinogens-Part B: biological agents. Lancet Oncology 10: 321-322.
9. Geerts S, Gryseels B, (2000) Drug Resistance in Human Helminths: Current Situation and Lessons from Livestock. Clin Microbiol Rev 13: 207-222.
10. Cantacessi C, Jex AR, Hall RS, Young ND, Campbell BE, et al. (2010) A practical, bioinformatic workflow system for large data sets generated by next-generation sequencing. Nucleic Acids Res 38: e171.
11. Cantacessi C, Campbell BE, Jex AR, Young ND, Hall RS, et al. (2012) Bioinformatics Meets Parasitology. Parasite Immunol 34: 265-275.
12. Young ND, Campbell BE, Hall RS, Jex AR, Cantacessi C, et al. (2010) Unlocking the transcriptomes of two carcinogenic parasites, Clonorchis sinensis and Opisthorchis viverrini. PLoS Negl Trop Dis 4: e719.
13. Bentley DR, Balasubramanian S, Swerdlow HP, Smith GP, Milton J, et al. (2008) Accurate whole human genome sequencing using reversible terminator chemistry. Nature 456: 53-59.
14. Laha T, Pinlaor P, Mulvenna J, Sripa B, Sripa M, et al. (2007) Gene discovery for the carcinogenic human liver fluke, Opisthorchis viverrini. BMC Genomics 8: 189.
15. Gasser RB, (2006) Molecular technologies in parasitology, with an emphasis on genomic approaches for investigating parasitic nematodes. Parassitologia 48: 9-11.
16. Bowles J, Blair D, McManus DP, (1995) A molecular phylogeny of the human schistosomes. Mol Phylogenet Evol 4: 103-109.
17. Young ND, Jex AR, Li B, Liu S, Yang L, et al. (2012) Whole-genome sequence of Schistosoma haematobium. Nat Genet 44: 221-225.
18. Schulz MH, Zerbino DR, Vingron M, Birney E, (2012) Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics doi:10.1093/bioinformatics/bts094.
19. Young ND, Hall RS, Jex AR, Cantacessi C, Gasser RB, (2010) Elucidating the transcriptome of Fasciola hepatica- a key to fundamental and biotechnological discoveries for a neglected parasite. Biotechnol Adv 28: 222-231.
20. Young ND, Jex AR, Cantacessi C, Hall RS, Campbell BE, et al. (2011) A portrait of the transcriptome of the neglected trematode, Fasciola gigantica-biological and biotechnological implications. PLoS Negl Trop Dis 5: e1004.
21. SJGSFAC (2009) The Schistosoma japonicum genome reveals features of host-parasite interplay. Nature 460: 345-351.
22. Berriman M, Haas BJ, LoVerde PT, Wilson RA, Dillon GP, et al. (2009) The genome of the blood fluke Schistosoma mansoni. Nature 460: 352-358.
23. The Universal Protein Resource (UniProt) in 2010. Nucleic Acids Res 38: D142-148.
24. Zdobnov EM, Apwiler R, (2001) InterProScan- an integration platform for the signature-recognition methods in InterPro. Bioinformatics 17: 847-848.
25. Wu J, Mao X, Cai T, Luo J, Wei L, (2006) KOBAS server: a web-based platform for automated annotation and pathway identification. Nucleic Acids Res 34: W720-724.
26. Kall L, Krogh A, Sonnhammer EL, (2007) Advantages of combined transmembrane topology and signal peptide prediction-the Phobius web server. Nucleic Acids Res 35: W429-432.
27. Chen Y, Zhang Y, Yin Y, Gao G, Li S, et al. (2005) SPD-a web-based secreted protein database. Nucleic Acids Res 33: D169-173.
28. Jex AR, Liu S, Li B, Young ND, Hall RS, et al. (2011) Ascaris suum draft genome. Nature 479: 529-533.
29. Rawlings ND, Barrett AJ, Bateman A, (2010) MEROPS: the peptidase database. Nucleic Acids Res 38: D227-233.
30. Saier MH Jr, Yen MR, Noto K, Tamang DG, Elkan C, (2009) The Transporter Classification Database: recent advances. Nucleic Acids Res 37: D274-278.
31. Kuzniar A, Roeland CHJvH, Pongor S, Leunissen JAM, (2010) The quest for orthologs: finding the corresponding gene across genomes. Trends Genet 24: 539-551.
32. Li H, Durbin R, (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760.
33. Balzer S, Malde K, Jonassen I, (2011) Systematic exploration of error sources in pyrosequencing flowgram data. Bioinformatics 27: i304-309.
34. Robinson MD, Oshlack A, (2010) A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol 11: R25.
35. Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B, (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 5: 621-628.
36. Audic S, Claverie JM, (1997) The significance of digital gene expression profiles. Genome Res 7: 986-995.
37. Edgar RC, (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
38. Huelsenbeck JP, Ronquist F, (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
39. Renslo AR, McKerrow JH, (2006) Drug discovery and development for neglected parasitic diseases. Nat Chem Biol 2: 701-710.
40. Kasny M, Mikes L, Hampl V, Dvorak J, Caffrey CR, et al. (2009) Chapter 4. Peptidases of trematodes. Adv Parasitol 69: 205-297.
41. Laha T, Sripa J, Sripa B, Pearson M, Tribolet L, et al. (2008) Asparaginyl endopeptidase from the carcinogenic liver fluke, Opisthorchis viverrini, and its potential for serodiagnosis. Int J Infect Dis 12: e49-59.
42. Adisakwattana P, Viyanant V, Chaicumpa W, Vichasri-Grams S, Hofmann A, et al. (2007) Comparative molecular analysis of two asparaginyl endopeptidases and encoding genes from Fasciola gigantica. Mol Biochem Parasitol 156: 102-116.
43. Robinson MW, Dalton JP, Donnelly S, (2008) Helminth pathogen cathepsin proteases: it's a family affair. Trends Biochem Sci 33: 601-608.
44. Li Y, Hu X, Liu X, Xu J, Hu F, et al. (2009) Molecular cloning and analysis of stage and tissue-specific expression of Cathepsin L-like protease from Clonorchis sinensis. Parasitol Res 105: 447-452.
45. Norbury LJ, Beckham S, Pike RN, Grams R, Spithill TW, et al. (2011) Adult and juvenile Fasciola cathepsin L proteases: different enzymes for different roles. Biochimie 93: 604-611.
46. Brady CP, Dowd AJ, Brindley PJ, Ryan T, Day SR, et al. (1999) Recombinant expression and localization of Schistosoma mansoni cathepsin L1 support its role in the degradation of host hemoglobin. Infect Immun 67: 368-374.
47. Ashton PD, Harrop R, Shah B, Wilson RA, (2001) The schistosome egg: development and secretions. Parasitology 122: 329-338.
48. Fitzpatrick JM, Hirai Y, Hirai H, Hoffmann KF, (2007) Schistosome egg production is dependent upon the activities of two developmentally regulated tyrosinases. FASEB J 21: 823-835.
49. Chen JM, Rawlings ND, Stevens RA, Barrett AJ, (1998) Identification of the active sited of legumain links it to caspases, costripain and gingipains in a new clan of cysteine endopeptidases. FEBS Letters 441: 361-365.
50. Dalton JP, Brindley PJ, (1996) Schistosome asparaginyl endopeptidase SM32 in hemoglobin digestion. Parasitol Today 12: 125.
51. Dalton JP, Hola-Jamriska L, Brindley PJ, (1995) Asparaginyl endopeptidase activity in adult Schistosoma mansoni. Parasitology 111 (Pt 5):: 575-580.
52. Sajid M, McKerrow JH, Hansell E, Mathieu MA, Lucas KD, et al. (2003) Functional expression and characterization of Schistosoma mansoni cathepsin B and its trans-activation by an endogenous asparaginyl endopeptidase. Mol Biochem Parasitol 131: 65-75.
53. Kalinna BH, Brindley PJ, (2007) Manipulating the manipulators: advances in parasitic helminth transgenesis and RNAi. Trends Parasitol 23: 197-204.
54. Tchoubrieva E, Kalinna B, (2010) Advances in mRNA silencing and transgene expression: a gateway to functional genomics in schistosomes. Biotechnol Genet Eng Rev 26: 261-280.
55. Pellettieri J, Fitzgerald P, Watanabe S, Mancuso J, Green DR, et al. (2010) Cell death and tissue remodeling in planarian regeneration. Dev Biol 338: 76-85.
56. Sanchez Alvarado A, (2007) Stem cells and the Planarian Schmidtea mediterranea. C R Biol 330: 498-503.
57. Sanchez Alvarado A, Newmark PA, Robb SM, Juste R, (2002) The Schmidtea mediterranea database as a molecular resource for studying platyhelminthes, stem cells and regeneration. Development 129: 5659-5665.
58. Palakodeti D, Smielewska M, Lu YC, Yeo GW, Graveley BR, (2008) The PIWI proteins SMEDWI-2 and SMEDWI-3 are required for stem cell function and piRNA expression in planarians. RNA 14: 1174-1186.
59. Savitski MM, Scholten A, Sweetman G, Mathieson T, Bantscheff M, (2010) Evaluation of data analysis strategies for improved mass spectrometry-based phosphoproteomics. Anal Chem 82: 9843-9849.
60. Wang Z, Gerstein M, Snyder M, (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10: 57-63.
61. Sripa J, Laha T, To J, Brindley PJ, Sripa B, et al. (2010) Secreted cysteine proteases of the carcinogenic liver fluke, Opisthorchis viverrini: regulation of cathepsin F activation by autocatalysis and trans-processing by cathepsin B. Cell Microbiol 12: 781-795.
62. Pinlaor P, Kaewpitoon N, Laha T, Sripa B, Kaewkes S, et al. (2009) Cathepsin F cysteine protease of the human liver fluke, Opisthorchis viverrini. PLoS Negl Trop Dis 3: e398.