Complete mitochondrial genomes of Taenia multiceps, T. hydatigena and T. pisiformis: Additional molecular markers for a tapeworm genus of human and animal health significance

BMC Genomics

Volumn 11, Issue 1, 2010, Pages

  Jia, Wan Zhong ^a   Yan, Hong Bin ^a   Guo, Ai Jiang ^a   Zhu, Xing Quan ^a   Wang, Yu Chao ^a   Shi, Wan Gui ^b   Chen, Hao Tai ^a   Zhan, Fang ^b   Zhang, Shao Hua ^a   Fu, Bao Quan ^a   Littlewood, D Timothy J ^c   Cai, Xue Peng ^a  

^a INSTITUTE OF PLANT PROTECTION   (China)

^b Gansu Provincial Control for Animal Disease Control and Prevention   (China)

^c DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ATP SYNTHASE SUBUNIT 6; HELMINTH PROTEIN; LARGE SUBUNIT RIBOSOMAL RNA; MITOCHONDRIAL DNA; MOLECULAR MARKER; NICOTINAMIDE ADENINE DINUCLEOTIDE; NICOTINAMIDE ADENINE DINUCLEOTIDE SUBUNIT 1; NICOTINAMIDE ADENINE DINUCLEOTIDE SUBUNIT 2; NICOTINAMIDE ADENINE DINUCLEOTIDE SUBUNIT 3; NICOTINAMIDE ADENINE DINUCLEOTIDE SUBUNIT 5; NICOTINAMIDE ADENINE DINUCLEOTIDE SUBUNIT 6; PRIMER DNA; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE; SMALL SUBUNIT RIBOSOMAL RNA; UNCLASSIFIED DRUG; TRANSFER RNA;

AMINO ACID ANALYSIS; ARTICLE; COMPUTER MODEL; CONTROLLED STUDY; GENE IDENTIFICATION; GENETIC MARKER; GENETIC VARIABILITY; GENOME ANALYSIS; GENOMIC FRAGMENT; GENUS; MITOCHONDRIAL GENOME; MOLECULAR PHYLOGENY; MOLECULAR SIZE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENETIC TREE; POLYMERASE CHAIN REACTION; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES COMPARISON; START CODON; STOP CODON; TAENIA; TAENIA HYDATIGENA; TAENIA MULTICEPS; TAENIA PISIFORMIS; ANIMAL; CLASSIFICATION; GENETICS; HUMAN; PHYLOGENY;

ANIMALIA; PLATYHELMINTHES; TAENIA; TAENIA HYDATIGENA; TAENIA MULTICEPS; TAENIA PISIFORMIS;

ANIMALS; GENETIC VARIATION; GENOME, MITOCHONDRIAL; HUMANS; PHYLOGENY; RNA, TRANSFER; TAENIA;

EID: 77954768343     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-11-447     Document Type: Article

References (79)

1. Hoberg EP. Phylogeny of Taenia: species definitions and origins of human parasites. Parasitol Int 2006, 55:S23-S30. 10.1016/j.parint.2005.11.049, 16371252.
2. Murell KD. Epidemiology of taeniosis and cysticercosis. WHO/FAO/OIE Guidelines for the Surveillance, Prevention and Control of Taeniosis/Cysticercosis 2005, 27-44. Paris: OIE, Murell KD.
3. Carabin H, Budke C, Cowan L, Willingham A, Torgerson P. Methods for assessing the burden of parasitic zoonoses: echinococcosis and cysticercosis. Trends Parasitol 2005, 21:327-333. 10.1016/j.pt.2005.05.009, 15922667.
4. García HH, Evans CA, Nash TE, Takayanagui OM, White AC, Botero D, Rajshekhar V, Tsang VC, Schantz PM, Allan JC, Flisser A, Correa D, Sarti E, Friedland JS, Martinez SM, Gonzalez AE, Gilman RH, Del Brutto OH. Current consensus guidelines for treatment of neurocysticercosis. Clin Microbiol Rev 2002, 15:747-756. 10.1128/CMR.15.4.747-756.2002, 126865, 12364377.
5. Hotez PJ. One world health: neglected tropical diseases in a flat world. PLoS Negl Trop Dis 2009, 3:e405. 10.1371/journal.pntd.0000405, 2668801, 19399165.
6. Hoberg EP, Jones A, Rausch RL, Eom KS, Gardner SL. A phylogenetic hypothesis for species of the genus Taenia (Eucestoda: Taeniidae). J Parasitol 2000, 86:89-98.
7. Abuladze KI. Taeniata of animals and man and the diseases caused by them. Essentials of cestodology, volume 4. Akademiia Nauk SSSR, Gel'mintologicheskaia Laboratoriia, Isdatel'stvo Nauka, Moskva. [English Translation. Jerusalem: Israel Program for Scientific Translations, 1970. 549 pp]. 1964,
8. Loos-Frank B. An up-date of Verster's (1969) 'Taxonomic revision of the genus Taenia Linnaeus' (Cestoda) in table format. Syst Parasitol 2000, 45:155-183. 10.1023/A:1006219625792, 10768761.
9. Rausch RL. Family Taeniidae. Keys to the Cestode Parasites of Vertebrates 1994, 665-672. Wallingford: CAB International, Khalil LF, Jones A, Bray RA.
10. Verster A. A taxonomic revision of the genus Taenia Linnaeus, 1758 s. str. Onderstepoort J Vet Res 1969, 36:3-58.
11. Jenkins DJ, Romig T, Thompson RCA. Emergence/re-emergence of Echinococcus spp. - a global update. Int J Parasitol 2005, 35:1205-1219. 10.1016/j.ijpara.2005.07.014, 16157340.
12. McManus DP, Zhang WB, Li J, Bartley PB. Echinococcosis. Lancet 2003, 362:1295-1304. 10.1016/S0140-6736(03)14573-4, 14575976.
13. Thompson RCA. The taxonomy, phylogeny and transmission of Echinococcus. Exp Parasitol 2008, 119:439-446. 10.1016/j.exppara.2008.04.016, 18539274.
14. Flisser A, Correa D, Avilla G, Marvilla P. Biology of Taenia solium, Taenia saginata and Taenia saginata asiatica. WHO/FAO/OIE Guidelines for the Surveillance, Prevention and Control of Taeniosis/Cysticercosis 2005, 14-22. Paris: OIE, Murell KD.
15. Le TH, Pearson MS, Blair D, Dai N, Zhang LH, McManus DP. Complete mitochondrial genomes confirm the distinctiveness of the horse-dog and sheep-dog strains of Echinococcus granulosus. Parasitology 2002, 124:97-112. 10.1017/S0031182001008976, 11811807.
16. Thompson RCA, McManus DP. Aetiology: parasites and life-cycles. WHO/OIE manual on echinococcosis in humans and animals: a public health problem of global concern 2001, 1-19. Paris: WHO, Eckert J, Gemmell M, Meslin F-X, Pawlowski ZS.
17. Hajibabaei M, Singer GAC, Hebert PDN, Hickey DA. DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet 2007, 23:167-172. 10.1016/j.tig.2007.02.001, 17316886.
18. Hebert PDN, Gregory TR. The promise of DNA barcoding for taxonomy. Syst Biol 2005, 54:852-859. 10.1080/10635150500354886, 16243770.
19. Will KW, Mishler BD, Wheeler QD. The perils of DNA barcoding and the need for integrative taxonomy. Syst Biol 2005, 54:844-851. 10.1080/10635150500354878, 16243769.
20. González LM, Montero E, Morakote N, Puente S, Díaz De Tuesta JL, Serra T, López-Velez R, McManus DP, Harrison LJ, Parkhouse RM, Gárate T. Differential diagnosis of Taenia saginata and Taenia saginata asiatica taeniasis through PCR. Diagn Microbiol Infect Dis 2004, 49:183-188. 10.1016/j.diagmicrobio.2004.03.013, 15246508.
21. Yamasaki H, Allan JC, Sato MO, Nakao M, Sako Y, Nakaya K, Qiu D, Mamuti W, Craig PS, Ito A. DNA differential diagnosis of taeniasis and cysticercosis by multiplex PCR. J Clin Microbiol 2004, 42:548-553. 10.1128/JCM.42.2.548-553.2004, 344500, 14766815.
22. Criscione CD, Poulin R, Blouin MS. Molecular ecology of parasites: elucidating ecological and microevolutionary processes. Mol Ecol 2005, 14:2247-2257. 10.1111/j.1365-294X.2005.02587.x, 15969711.
23. McManus DP, Bowles J. Molecular genetic approaches to parasite identification: their value in diagnostic parasitology and systematics. Int J Parasitol 1996, 26:687-704. 10.1016/0020-7519(96)82612-9, 8894760.
24. Hu M, Jex AR, Campbell BE, Gasser RB. Long PCR amplification of the entire mitochondrial genome from individual helminths for direct sequencing. Nat Protocol 2007, 2:2339-2344.
25. Jex AR, Littlewood DTJ, Gasser RB. Toward next-generation sequencing of mitochondrial genomes - focus on parasitic worms of animals and biotechnological implications. Biotechnol Adv 2010, 28:151-159. 10.1016/j.biotechadv.2009.11.002, 19913084.
26. Littlewood DTJ. Platyhelminth systematics and the emergence of new characters. Parasite 2008, 15:333-341.
27. Park JK, Kim KH, Kang S, Kim W, Eom KS, Littlewood DTJ. A common origin of complex life cycles in parasitic flatworms: evidence from the complete mitochondrial genome of Microcotyle sebastis (Monogenea: Platyhelminthes). BMC Evol Biol 2007, 7:11. 10.1186/1471-2148-7-11, 1800851, 17270057.
28. Boore JL, Brown WM. Big trees from little genomes: mitochondrial gene order as a phylogenetic tool. Curr Opin Genet Dev 1998, 8:668-674. 10.1016/S0959-437X(98)80035-X, 9914213.
29. Boore JL. Animal mitochondrial genomes. Nucleic Acids Res 1999, 27:1767-1780. 10.1093/nar/27.8.1767, 148383, 10101183.
30. Littlewood DTJ, Lockyer AE, Webster BL, Johnston DA, Le TH. The complete mitochondrial genomes of Schistosoma haematobium and Schistosoma spindale and the evolutionary history of mitochondrial genome changes among parasitic flatworms. Mol Phylogenet Evol 2006, 39:452-467. 10.1016/j.ympev.2005.12.012, 16464618.
31. Huyse T, Buchmann K, Littlewood DTJ. The mitochondrial genome of Gyrodactylus derjavinoides (Platyhelminthes: Monogenea) - a mitogenomic approach for Gyrodactylus species and strain identification. Gene 2008, 417:27-34. 10.1016/j.gene.2008.03.008, 18448274.
32. Le TH, Blair D, Agatsuma T, Humair PF, Campbell NJH, Iwagami M, Littlewood DTJ, Peacock B, Johnston DA, Bartley J, Rollinson D, Herniou EA, Zarlenga DS, McManus DP. Phylogenies inferred from mitochondrial gene orders - a cautionary tale from the parasitic flatworms. Mol Biol Evol 2000, 17:1123-1125.
33. Le TH, Humair PF, Blair D, Agatsuma T, Littlewood DTJ, McManus DP. Mitochondrial gene content, arrangement and composition compared in African and Asian schistosomes. Mol Biochem Parasitol 2001, 117:61-71. 10.1016/S0166-6851(01)00330-9, 11551632.
34. Sato K, Sugita T, Kobayashi K, Fujita K, Fujii T, Matsumoto Y, Mikami T, Nishizuka N, Nishizuka S, Shojima K, Suda M, Takahashi G, Himeno H, Muto A, Ishida S. Localization of mitochondrial ribosomal RNA on the chromatoid bodies of marine planarian polyclad embryos. Dev Growth Differen 2001, 43:107-114.
35. Lupi R, Meo P, Picardi E, D'Antonio M, Paoletti D, Castrignanò T, Pesole G, Gissi C. MitoZoa: a curated mitochondrial genome database of metazoans for comparative genomics studies. Mitochondrion 2010, 10:192-199. 10.1016/j.mito.2010.01.004, 20080208.
36. Hermos JA, Healy GR, Schultz MG, Barlow J, Church WG. Fatal human cerebral coenurosis. J Am Med Assoc 1970, 213:1461-1464.
37. Cabrera PA, Haran G, Benavidez U, Valledor S, Perera G, Lloyd S, Gemmell MA, Baraibar M, Morana A, Maissonave J, Carballo M. Transmission dynamics of Echinococcus granulosus, Taenia hydatigena and Taenia ovis in sheep in Uruguay. Int J Parasitol 1995, 25:807-813. 10.1016/0020-7519(94)00209-7, 7558566.
38. Scala A, Varcasia A. Updates on morphobiology, epidemiology and molecular characterization of coenurosis in sheep. Parassitologia 2006, 48:61-63.
39. Wang CR, Qiu JH, Zhao JP, Xu LM, Yu WC, Zhu XQ. Prevalence of helminthes in adult dogs in Heilongjiang Province, the People's Republic of China. Parasitol Res 2006, 99:627-630. 10.1007/s00436-006-0219-7, 16715234.
40. Eom KS, Jeon HK, Rim HJ. Geographical distribution of Taenia asiatica and related species. Kor J Parasitol 2009, 47:S115-S124.
41. Li T, Craig PS, Ito A, Chen XW, Qiu DC, Qiu JM, Sato MO, Wandra T, Bradshaw H, Li L, Yang Y, Wang Q. Taeniasis cysticercosis in a Tibetan population in Sichuan Province, China. Acta Trop 2006, 100:223-231. 10.1016/j.actatropica.2006.11.003, 17166477.
42. Mathis A, Deplazes P. Copro-DNA tests for diagnosis of animal taeniid cestodes. Parasitol Int 2006, 55 Suppl:S87-90. 10.1016/j.parint.2005.11.012, 16325459.
43. Jeon HK, Kim KH, Eom KS. Complete sequence of the mitochondrial genome of Taenia saginata: comparison with T. solium and T. asiatica. Parasitol Int 2007, 56:243-246. 10.1016/j.parint.2007.04.001, 17499016.
44. Jeon HK, Lee KH, Kim KH, Hwang UN, Eom KS. Complete sequence and structure of the mitochondrial genome of the human tapeworm, Taenia asiatica (Platyhelminthes; Cestoda). Parasitology 2005, 130:717-726. 10.1017/S0031182004007164, 15977909.
45. Yap KW, Thompson RCA, Rood JI, Pawlowski ID. Taenia hydatigena: isolation of mitochondrial DNA, molecular cloning, and physical mitochondrial genome mapping. Exp Parasitol 1987, 63:288-294. 10.1016/0014-4894(87)90175-5, 3034656.
46. Johnston DA. Genomes and genomics of parasitic flatworms. Parasitic Flatworms: Molecular Biology, Biochemistry, Immunology and Physiology 2006, 37-80. Wallingford: CAB International, Maule AG, Marks NJ.
47. von Nickisch-Rosenegk M, Brown WM, Boore JL. Complete sequence of the mitochondrial genome of the tapeworm Hymenolepis diminuta: gene arrangements indicate that platyhelminths are eutrochozoans. Mol Biol Evol 2001, 18:721-730.
48. Nakao M, McManus DP, Schantz PM, Craig PS, Ito A. A molecular phylogeny of the genus Echinococcus inferred from complete mitochondrial genomes. Parasitology 2007, 134:713-722. 10.1017/S0031182006001934, 17156584.
49. Nakao M, Sako Y, Ito A. The mitochondrial genome of the tapeworm Taenia solium: a finding of the abbreviated stop codon U. J Parasitol 2003, 89:633-635. 10.1645/0022-3395(2003)089[0633:TMGOTT]2.0.CO;2, 12880275.
50. Nakao M, Yokoyama N, Sako Y, Fukunaga M, Ito A. The complete mitochondrial DNA sequence of the cestode Echinococcus multilocularis (Cyclophyllidea: Taeniidae). Mitochondrion 2002, 1:497-509. 10.1016/S1567-7249(02)00040-5, 16120302.
51. Nakao M, Sako Y, Yokoyama N, Fukunaga M, Ito A. Mitochondrial genetic code in cestodes. Mol Biochem Parasitol 2000, 111:415-424. 10.1016/S0166-6851(00)00334-0, 11163447.
52. Telford MJ, Herniou EA, Russell RB, Littlewood DTJ. Changes in mitochondrial genetic codes as phylogenetic characters: two examples from the flatworms. Proc Natl Acad Sci USA 2000, 97:11359-11364. 10.1073/pnas.97.21.11359, 17205, 11027335.
53. Nakao M, Abmed D, Yamasaki H, Ito A. Mitochondrial genomes of the human broad tapeworms Diphyllobothrium latum and Diphyllobothrium nihonkaiense (Cestoda: Diphyllobothriidae). Parasitol Res 2007, 101:233-236. 10.1007/s00436-006-0433-3, 17252274.
54. Park JK, Kim KH, Kang S, Jeon HK, Kim JH, Littlewood DTJ, Eom KS. Characterization of the mitochondrial genome of Diphyllobothrium latum (Cestoda: Pseudophyllidea) - implications for the phylogeny of eucestodes. Parasitology 2007, 134:749-759. 10.1017/S003118200600206X, 17214910.
55. Laslett D, Canback B. ARWEN: a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences. Bioinformatics 2008, 24:172-175. 10.1093/bioinformatics/btm573, 18033792.
56. Wolstenholme DR. Animal mitochondrial DNA: structure and evolution. Int Rev Cytol 1992, 141:173-216. 10.1016/S0074-7696(08)62066-5, 1452431.
57. De Queiroz A, Alkire N. The phylogenetic placement of Taenia cestodes that parasitize humans. J Parasitol 1998, 84:379-383. 10.2307/3284501, 9576516.
58. Lavikainen A, Haukisalmi V, Lehtinen MJ, Henttonen H, Oksanen A, Meri S. A phylogeny of members of the family Taeniidae based on the mitochondrial cox1 and nad1 gene data. Parasitology 2008, 135:1457-1467. 10.1017/S003118200800499X, 18937885.
59. Gasser RB, Zhu XQ, McManus DP. NADH dehydrogenase subunit 1 and cytochrome c oxidase subunit I sequences compared for members of the genus Taenia (Cestoda). Int J Parasitol 1999, 29:1965-1970. 10.1016/S0020-7519(99)00153-8, 10961852.
60. Okamoto M, Nakao M, Blair D, Anantaphruti MT, Waikagul J, Ito A. Evidence of hybridization between Taenia saginata and Taenia asiatica. Parasitol Int 2010, 59:70-74. 10.1016/j.parint.2009.10.007, 19874910.
61. Lockyer AE, Olson PD, Littlewood DTJ. Utility of complete large and small subunit rRNA genes in resolving the phylogeny of the Neodermata (Platyhelminthes): implications and a review of the cercomer theory. Int J Dairy Technol 2003, 78:155-171.
62. Myadagsuren N, Davaajav A, Wandra T, Sandar T, Ichinkhorloo P, Yamasaki H, Sako Y, Nakao M, Sato MO, Nakaya K, Ito A. Taeniasis in Mongolia, 2002-2006. Am J Trop Med Hyg 2007, 77:342-346.
63. Tsubota K, Nakatsuji S, Matsumoto M, Fujihira S, Yoshizawa K, Okazaki Y, Murakami Y, Anagawa A, Oku Y, Oishi Y. Abdominal cysticercosis in a cynomolgus monkey. Vet Parasitol 2009, 161:339-341. 10.1016/j.vetpar.2009.01.024, 19251371.
64. Rozas J, Sánchez-DelBarrio JC, Messeguer X, Rozas R. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 2003, 19:2496-2497. 10.1093/bioinformatics/btg359, 14668244.
65. McManus DP. Molecular discrimination of taeniid cestodes. Parasitol Int 2006, 55 Suppl:S31-37. 10.1016/j.parint.2005.11.004, 16337179.
66. Nkouawa A, Sako Y, Nakao M, Nakaya K, Ito A. Loop-mediated isothermal amplification method for differentiation and rapid detection of Taenia species. J Clin Microbiol 2009, 47:168-174. 10.1128/JCM.01573-08, 2620829, 19005142.
67. Fredslund J, Schauser L, Madsen LH, Sandal N, Stougaard J. PriFi: using a multiple alignment of related sequences to find primers for amplification of homologs. Nucleic Acids Res 2005, (33 web Server):W516-520. 10.1093/nar/gki425, 1160186, 15980525.
68. Huang XQ, Madan A. CAP3: a DNA sequence assembly program. Genome Res 1999, 9:868-877. 10.1101/gr.9.9.868, 310812, 10508846.
69. Mathews DH. Predicting a set of minimal free energy RNA secondary structures common to two sequences. Bioinformatics 2005, 21:2246-2253. 10.1093/bioinformatics/bti349, 15731207.
70. Mathews DH, Disney MD, Childs JL, Schroeder SJ, Zuker M, Turner DH. Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure. Proc Natl Acad Sci USA 2004, 101:7287-7292. 10.1073/pnas.0401799101, 409911, 15123812.
71. Maddison WP, Maddison DR. MacClade. Version 3. 1992, Sunderland, Massachusetts: Sinauer Associates.
72. Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 2000, 17:540-552.
73. Xia XH, Xie Z, Salemi M, Chen L, Wang Y. An index of substitution saturation and its application. Mol Phylogenet Evol 2003, 26:1-7. 10.1016/S1055-7903(02)00326-3, 12470932.
74. Xia XH, Xie Z. Dambe: software package for data analysis in molecular biology and evolution. J Heredity 2001, 92:371-373.
75. Huelsenbeck JP, Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17:754-755. 10.1093/bioinformatics/17.8.754, 11524383.
76. Rota-Stabelli O, Yang Z, Telford MJ. MtZoa: A general mitochondrial amino acid substitutions model for animal evolutionary studies. Mol Phylogenet Evol 2009, 52:268-272. 10.1016/j.ympev.2009.01.011, 19475713.
77. Posada D, Crandall KA. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818. 10.1093/bioinformatics/14.9.817, 9918953.
78. Drummond AJ, Ho SYW, Phillips MJ, Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol 2006, 4:e88. 10.1371/journal.pbio.0040088, 1395354,1395354, 16683862.
79. Swofford DL. PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). 2003, Sunderland, MA: Sinauer Associates, 4.