Molecular genetic approaches to parasite identification: their value in diagnostic parasitology and systematics

Adams, 1982, The estimation of phylogenetic relationships from DNA restriction patterns and selection of endonuclease cleavage sites, 79, 3560 Allendorf, 1977, Electromorphs or alleles, Genetics, 87, 821, 10.1093/genetics/87.4.821 Anderson, 1982, Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian mitochondrial genome, Journal of Molecular Biology, 156, 683, 10.1016/0022-2836(82)90137-1 Anderson, 1993, Genetic structure and epidemiology of Ascaris populations: patterns of host affiliation in Guatemala, Parasitology, 107, 319, 10.1017/S0031182000079294 Andrews, 1992, Selection of specific genotypes of Giardia intestinalis by growth in vitro and in vivo, Parastology, 105, 375, 10.1017/S0031182000074540 Arnheim, 1983, Concerted evolution of multigene families, 38 Avise, 1987, Intraspecific phylogeography: the mitochondrial DNA bridge between population genetics and systematics, Annual Review of Ecology and Systematics, 18, 489, 10.1146/annurev.es.18.110187.002421 Ayala, 1982, Genetic variation in natural populations: problem of electrophoretically cryptic alleles, 79, 550 Bibb, 1981, Sequence and gene organization of mouse mitochondrial DNA, Cell, 26, 167, 10.1016/0092-8674(81)90300-7 Bishop, 1987, Chromosome size polymorphisms of Leishmania donovani, Molecular and Biochemical Parasitology, 24, 263, 10.1016/0166-6851(87)90158-7 Blair, 1989, Restriction enzyme mapping of ribosomal DNA can distinguish between fasciolid (liver fluke) species, Molecular and Biochemical Parasitology, 36, 201, 10.1016/0166-6851(89)90167-9 Bonnell, 1974, Elephant seals: genetic variation and near extinction, Science, 184, 908, 10.1126/science.184.4139.908 Bonner, 1973, Reduction in rate of DNA reassociation by sequence divergence, Journal of Molecular Biology, 81, 123, 10.1016/0022-2836(73)90184-8 Bowles, 1993, Molecular variation in Echinococcus, Acta Tropica, 53, 291, 10.1016/0001-706X(93)90035-A Bowles, 1993, NADH dehydrogenase 1 gene sequences compared for species and strains of the genus Echinococcus, International Journal for Parasitology, 23, 969, 10.1016/0020-7519(93)90065-7 Bowles, 1992, Genetic variants within the genus Echinococcus identified by mitochondrial sequencing, Molecular and Biochemical Parasitology, 54, 165, 10.1016/0166-6851(92)90109-W Bowles, 1995, A molecular phylogeny of the genus Echinococcus, Parasitology, 110, 317, 10.1017/S0031182000080902 Bowles, 1995, A molecular phylogeny of the human schistosomes, Molecular Phylogenetics and Evolution, 4, 103, 10.1006/mpev.1995.1011 Bowles, 1993, Nuclear and mitochondrial markers highly conserved between Chinese and Philippine Schistosoma japonicum, Acta Tropica, 55, 217, 10.1016/0001-706X(93)90079-Q Brindley, 1991, Characterization of a programmed alteration in an 18S ribosomal gene that accompanies the experimental induction of drug resistance in Schistosoma mansoni, 88, 7754 Brindley, 1993, Riboprint and surface antigen gene PCR analyses differentiate Toxoplasma gondii from closely related coccidia, American Journal of Tropical Medicine and Hygiene, 48, 157, 10.4269/ajtmh.1993.48.447 Brown, 1985, The mitochondrial genome of animals, 95 Bryant, 1986, Biochemical strain variation in parasitic helminths, Advances in Parasitology, 25, 175, 10.1016/S0065-308X(08)60345-0 Buth, 1984, The application of electrophoretic data in systematic studies, Annual Review of Ecology and Systematics, 15, 501, 10.1146/annurev.es.15.110184.002441 Cano, 1993, Amplification and sequencing of DNA from a 120–135-million year-old weevil, Nature, 363, 536, 10.1038/363536a0 Chilton, 1995, Differences in a ribosomal DNA sequence of morphologically indistinguishable species within the Hypodontus macropi complex (Nematoda: Strongyloidea), International Journal for Parasitology, 25, 647, 10.1016/0020-7519(94)00171-J Constantine, 1993, Morphological characterization of adult Echinococcus granulosus as a means of determining transmission patterns, Journal of Parasitology, 79, 57, 10.2307/3283277 Coppel, 1985, Plasmodium falciparum: differentiation of isolates with DNA hybridisation using antigen gene probes, Experimental Parasitology, 60, 82, 10.1016/S0014-4894(85)80025-4 Cox, 1985, Chromosomes of malaria parasites and trypanosomes, Nature, 315, 280, 10.1038/315280a0 Coyne, 1982, Gel electrophoresis and cryptic protein variation, Vol. 6, 1 Deane, 1984, Trypanosoma cruzi: innoculation schedules and re-isolation methods select individual strains from doubly infected mice as demonstrated by schizodeme analysis, Journal of Protozoology, 31, 276, 10.1111/j.1550-7408.1984.tb02960.x Despres, 1991, Isolation and polymorphism in mitochondrial DNA from Schistosoma mansoni, Molecular and Biochemical Parasitology, 47, 139, 10.1016/0166-6851(91)90156-Z Despres, 1992, Molecular evidence linking hominoid evolution to recent radiation of schistosomes (Platyhelminthes: Trematoda), Molecular Phylogenetics and Evolution, 4, 103 Dover, 1986, Conservation and divergence in multigene families: alternative to selection and drift, 312, 275 Easteal, 1985, The ecological genetics of introduced populations of the giant toad Bufo marinus II. Effective population size, Genetics, 110, 107, 10.1093/genetics/110.1.107 Edlind, 1987, Unusual ribosomal RNA of the intestinal parasite Giardia lamblia, Nucleic Acids Research, 15, 7889, 10.1093/nar/15.19.7889 Garey, 1989, Platyhelminth mitochondrial DNA: evidence for early evolutionary origin of a tRNAser AGN that contains a dihydrouridine arm replacement loop, and of serine-specifying AGA and AGG codons, Journal of Molecular Evolution, 28, 374, 10.1007/BF02603072 Gasser, 1995, Characterisation of taeniid cestode species by PCR-RFLP of ITS2 ribosomal DNA, Acta Tropica, 59, 31, 10.1016/0001-706X(94)00085-F Gill, 1988, Phylogeny of Onchocerca volvulus and related species deduced from rRNA sequence comparisons, Molecular and Biochemical Parasitology, 28, 69, 10.1016/0166-6851(88)90182-X Godfrey, 1977, Problems in distinguishing between the morphologically similar trypanosomes of mammals, Protozoology, 3, 3 Godfrey, 1990, The distribution, relationships and identification of enzymic variants within the genus Trypanozoon, Advances in Parasitology, 29, 2, 10.1016/S0065-308X(08)60104-9 Goodman, 1981, Decoding the pattern of protein evolution, Progress in Biophysics and Molecular Biology, 37, 105, 10.1016/0079-6107(81)90012-2 Guizani, 1994, Use of recombinant DNA probes for species identification of old world Leishmania isolates, American Journal of Tropical Medicine and Hygiene, 50, 632, 10.4269/ajtmh.1994.50.632 Gyllensten, 1985, Maternal inheritance of mitochondrial DNA during backcrossing of 2 species of mice, Journal of Heredity, 76, 321, 10.1093/oxfordjournals.jhered.a110103 Hammond, 1992, Genes and genomes of parasitic nematodes, Parasitology Today, 8, 299, 10.1016/0169-4758(92)90100-G Harris, 1966, Enzyme polymorphisms in man, 164, 298 Hasegawa, 1985, Phylogenetic relationships among eukaryotic kingdoms inferred from ribosomal RNA sequences, Journal of Molecular Evolution, 22, 32, 10.1007/BF02105802 Hillis, 1987, Molecular versus morphological approaches to systematics, Annual Review of Ecology and Systematics, 18, 23, 10.1146/annurev.es.18.110187.000323 Hope, 1995, Electrophoretically-detected allozyme variation reveals only moderate differentiation between Chinese and Philippine Schistosoma japonicum, Acta Tropica, 60, 101, 10.1016/0001-706X(95)00113-S Hubby, 1966, A molecular approach to the study of genic heterozygosity in natural populations. I. The number of alleles at different loci in Drosophila pseudoobscurd, Genetics, 54, 577, 10.1093/genetics/54.2.577 Hyde, 1990 Jeffreys, 1985, Hypervariable “minisatellite” regions in human DNA, Nature, 314, 67, 10.1038/314067a0 Jeffreys, 1985, Individual-specific “fingerprints” of human DNA, Nature, 316, 76, 10.1038/316076a0 Jeffreys, 1988, Amplification of human minisatellites by the polymerase chain reaction: towards DNA fingerprinting of single cells, Nucleic Acids Research, 16, 10953, 10.1093/nar/16.23.10953 Jenni, 1986, Hybrid formation between African trypanosomes during cyclical transmission, Nature, 322, 173, 10.1038/322173a0 Johnson, 1987, Rapid nucleotide sequence analysis of the small subunit ribosomal RNA of Toxoplasma gondii: evolutionary implications for the Apicomplexa, Molecular and Biochemical Parasitology, 25, 239, 10.1016/0166-6851(87)90087-9 Kaplan, 1995, A repetitive DNA probe for the sensitive detection of Fasciola hepatica infected snails, International Journal for Parasitology, 25, 601, 10.1016/0020-7519(94)00159-L Kemp, 1990, Genetic diversity in Plasmodium falciparum, Advances in Parasitology, 29, 76, 10.1016/S0065-308X(08)60105-0 Kimura, 1968, Evolutionary rate at the molecular level, Nature, 217, 624, 10.1038/217624a0 Kocher, 1989, Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers, 86, 6196 Kumaratilake, 1983, Comparative strobilar development of Echinococcus granulosus of sheep origin from different geographical areas of Australia in vivo and in vitro, International Journal for Parasitology, 13, 151, 10.1016/0020-7519(83)90005-X Lane, 1985, Rapid determination of 16S ribosomal sequences for phylogenetic analyses, 82, 6955 Levine, 1970, Taxonomy of the sporozoa, Journal of Parasitology, 56, 208 Li, 1985, Evolution of DNA sequences, 1 Lighthall, 1992, The chromosomes of Leishmania, Parasitology Today, 8, 192, 10.1016/0169-4758(92)90263-2 Lymbery, 1988, Electrophoretic analysis of genetic variation in Echinococcus granulosus from domestic hosts in Australia, International Journal for Parasitology, 18, 803, 10.1016/0020-7519(88)90122-1 Lymbery, 1990, Genetic diversity and genetic differentiation in Echinococcus granulosus (Batsch, 1786) from domestic and sylvatic hosts on the mainland of Australia, Parasitology, 101, 283, 10.1017/S0031182000063344 Macedo, 1992, DNA fingerprinting of Trypansoma cruzi: a new tool for characterisation of strains and clones, Molecular and Biochemical Parasitology, 55, 147, 10.1016/0166-6851(92)90135-7 Macedo, 1992, DNA fingerprints: a tool for identification and determination of the relationships between species and strains of Leishmania, Molecular and Biochemical Parasitology, 53, 63, 10.1016/0166-6851(92)90007-7 Macpherson, 1985, In vitro culture of the strobilar stage of Echinococcus granulosus from protoscoleces of human, camel, sheep and goat origin from Kenya and buffalo origin from India, International Journal for Parasitology, 15, 137, 10.1016/0020-7519(85)90078-5 Massamba, 1984, Distinction of African trypanosome species using nucleic acid hybridization, Parasitology, 88, 55, 10.1017/S0031182000054342 Maxon, 1990, Proteins II: immunological techniques, 127 Mayr, 1940, Speciation phenomena in birds, American Naturalist, 74, 249, 10.1086/280892 Mayr, 1942 Mayr, 1953 Mayr, 1963 Mayr, 1964 Mayr, 1982, Speciation and macro-evolution, Evolution, 36, 1119, 10.2307/2408147 McCarthy, 1990, Speciation of echinostomes: evidence for the existence of two sympatric sibling species in the complex Echinoparyphium recurvatum (von Linstow, (1873)) (Digenea: Echinostomatidae), Parasitology, 101, 35, 10.1017/S0031182000079725 McCutchan, 1984, Differentiation of schistosomes by species, strain and sex using cloned DNA markers, 81, 889 McGovern, 1981, Phenotypic variation in electromorphs previously considered to be genetic markers in Microtus onchrogaster, Oecologia, 51, 276, 10.1007/BF00540614 McManus, 1981, A biochemical study of adult and cystic stages of Echinococcus granulosus of human and animal origin from Kenya, Journal of Helminthology, 55, 21, 10.1017/S0022149X00025414 McManus, 1995, Biochemistry, physiology and molecular biology of Echinococcus, 135 McManus, 1993, Molecular variation in the human schistosomes, Acta Tropica, 53, 255, 10.1016/0001-706X(93)90033-8 McManus, 1989, Genetic heterogeneity within Echinococcus granulosus: isolates from different hosts and geographical areas characterised with DNA probes, Parasitology, 99, 17, 10.1017/S0031182000060984 McManus, 1985, Identification of the Echinococcus (hydatid disease) organisms using cloned DNA markers, Molecular and Biochemical Parasitology, 17, 171, 10.1016/0166-6851(85)90016-7 Meredith, 1991, Onchocerca volvulus: application of the polymerase chain reaction to identification and strain differentiation of the parasite, Experimental Parasitology, 73, 335, 10.1016/0014-4894(91)90105-6 Morgan, 1995, Molecular characterization of Cryptosporidium isolates from humans and other animals using random amplified polymorphic DNA analysis, American Journal of Tropical Medicine and Hygiene, 52, 559, 10.4269/ajtmh.1995.52.559 Moritz, 1987, Evolution of animal mitochondrial DNA: relevance for population biology and systematics, Annual Review of Ecology and Systematics, 18, 269, 10.1146/annurev.es.18.110187.001413 Mullis, 1987, Specific synthesis of DNA in vitro via a polymerase catalyzed chain reaction, Methods in Enzymology, 155, 335, 10.1016/0076-6879(87)55023-6 Murphy, 1990, Proteins I: isozyme electrophoresis, 45 Nadler, 1987, Biochemical and immunological systematics of some ascaridoid nematodes: genetic divergence between congeners, Journal of Parasitology, 73, 811, 10.2307/3282419 Nadler, 1990, Molecular approaches to studying helminth population genetics and phylogeny, International Journal for Parasitology, 20, 11, 10.1016/0020-7519(90)90168-M Nei, 1975, The bottleneck effect and genetic variability in populations, Evolution, 29, 1, 10.2307/2407137 Neto, 1993, The random amplification of polymorphic DNA allows the identification of strains and species of schistosome, Molecular and Biochemical Parasitology, 57, 83, 10.1016/0166-6851(93)90246-T Nevo, 1978, Genetic variation in natural populations: patterns and theory, Theoretical Population Biology, 13, 121, 10.1016/0040-5809(78)90039-4 Okimoto, 1992, The mitochondrial genomes of two nematodes, Caenorhabditis elegans and Ascaris suum, Genetics, 130, 471, 10.1093/genetics/130.3.471 Pääbo, 1988, Mitochondrial DNA sequences from a 7000-year-old brain, Nucleic Acids Research, 16, 9775, 10.1093/nar/16.20.9775 Paul, 1995, Mating patterns in malaria parasite populations of Papua New Guinea, Science, 268, 1709, 10.1126/science.7569897 Qu, 1983, Improved methods for structure probing in large RNAs: a rapid “heterologous” sequencing approach is coupled to the direct mapping of nuclease-accessible sites. Application to the 5′-terminal domain of eukaryotic 28S rRNA, Nucleic Acids Research, 11, 5903, 10.1093/nar/11.17.5903 Richardson, 1986 Rollinson, 1987, The genus Schistosoma: a taxonomic appraisal, 1 Rollinson, 1986, The application of recombinant DNA technology to problems of helminth identification, Parasitology, 91, S53, 10.1017/S0031182000085693 Rumjanek, 1987, Biochemistry and physiology, 163 Saiki, 1988, Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase, Science, 239, 487, 10.1126/science.2448875 Saiki, 1985, Enzymatic amplification of β-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anaemia, Science, 230, 1350, 10.1126/science.2999980 Sanger, 1977, DNA sequencingwith chain-terminating inhibitors, 74, 5463 Saperstein, 1991, Restriction fragment length polymorphism analysis using PCR coupled to restriction digests, Bio Techniques, 10, 488 Schantz, 1976, Sylvatic echinococcosis in Argentina. II. Susceptibility of wild carnivores to Echinococcus granulosus (Batsch, 1786) and host-induced morphological variation, Tropenmedizin und Parasitologie, 27, 70 Schwartz, 1984, Separation of yeast chromosome-sized DNAs by pulse field gradient gel electrophoresis, Cell, 7, 67, 10.1016/0092-8674(84)90301-5 Sessions, 1990, Chromosomes: molecular cytogenetics, 156 Short, 1983, Sex and the single chromosome, Journal of Parasitology, 69, 4 Short, 1989, Conventional giemsa-stained and C-banded chromosomes of seven strains of Schistosoma mansoni, Journal of Parasitology, 75, 920, 10.2307/3282871 Simpson, 1984, The arrangement of ribosomal RNA genes in Schistosoma mansoni. Identification of polymorphic structural variants, European Journal of Biochemistry, 139, 41, 10.1111/j.1432-1033.1984.tb07973.x Simpson, 1961 Slatkin, 1987, Gene flow and the geographic structure of natural populations, Science, 236, 787, 10.1126/science.3576198 Smith, 1989, A kinetoplast DNA probe diagnostic for Leishmania major: sequence homologies between regions of Leishmania minicircles, Molecular and Biochemical Parasitology, 37, 213, 10.1016/0166-6851(89)90153-9 Smyth, 1994 Sogin, 1986, Evolutionary diversity in eukaryotic small-subunit rRNA genes, 83, 1383 Sogin, 1989, Phylogenetic meaning of the kingdom concept: an unusual ribosomal RNA from, Giardia lamblia. Science, 243, 75 Spencer, 1987, Multiple spacer sequences in the nuclear large subunit ribosomal RNA gene of Crithidia fasciculata, EMBO Journal, 6, 1063, 10.1002/j.1460-2075.1987.tb04859.x Steinemann, 1984, Chromosome homologies within the Drosophila obscura group probed by in situ hybridization, Chromosoma, 91, 46, 10.1007/BF00286484 Swofford, 1987, Inferring evolutionary trees from gene frequency data under the principle of maximum parsimony, Systematic Zoology, 36, 293, 10.2307/2413068 Templeton, 1983, Phylogenetic inference from restriction endonuclease cleavage site maps with particular reference to the evolution of humans and the apes, Evolution, 37, 221, 10.2307/2408332 Thomas, 1991, Mode and tempo of molecular evolution in the nematode Caenorhabditis: cytochrome oxidase III and calmodulin sequences, Genetics, 128, 269, 10.1093/genetics/128.2.269 Thomas, 1990, Spatial and temporal continuity of kangaroo rat populations shown by sequencing mitochondrial DNA from museum specimens, Journal of Molecular Evolution, 31, 101, 10.1007/BF02109479 Thompson, 1982, Intraspecific variation and parasite epidemiology, 369 Thompson, 1988, Intraspecific variation and epidemiology, 391 Thompson, 1995, Biology and systematics of Echinococcus, 1 Thompson, 1988, The nature, extent and significance of variation within the genus, Echinococcus. Advances in Parasitology, 27, 209, 10.1016/S0065-308X(08)60356-5 Thompson, 1995, Variation in Echinococcus: towards a taxonomic revision of the genus, Advances in Parasitology, 35, 146, 10.1016/S0065-308X(08)60071-8 Tibayrenc, 1995, Population genetics of parasitic protozoa and other microorganisms, Advances in Parasitology, 36, 47, 10.1016/S0065-308X(08)60490-X Trottein, 1992, Inter-species variation of schistosome 28-kDa glutathione S-transferases, Molecular and Biochemical Parasitology, 54, 63, 10.1016/0166-6851(92)90095-2 Van der Ploeg, 1984, Antigenic variation in Trypanosoma brucei analysed by electrophoretic separation of chromosomesized DNA molecules, Cell, 37, 77, 10.1016/0092-8674(84)90302-7 Vawter, 1986, Nuclear and mitochondrial DNA comparisons reveal extreme rate variation in the molecular clock, Science, 234, 194, 10.1126/science.3018931 Vieira, 1991, Genomic variability in field populations of Schistosoma mansoni in Brazil as detected with a ribosomal gene probe, American Journal of Tropical Medicine and Hygiene, 44, 69, 10.4269/ajtmh.1991.44.69 Walker, 1986, Differentiation of Schistosoma haematobium from related species using cloned ribosomal RNA gene probes, Molecular and Biochemical Parasitology, 20, 123, 10.1016/0166-6851(86)90024-1 Walliker, 1983, The genetic basis of diversity in malaria parasites, Advances in Parasitology, 22, 218, 10.1016/S0065-308X(08)60463-7 Walliker, 1987, Genetic analysis of the human malaria parasite, Plasmodium falciparum. Science, 236, 1661 Wardle, 1952 Welsh, 1990, Fingerprinting genomes using PCR with arbitary primers, Nucleic Acids Research, 18, 7213, 10.1093/nar/18.24.7213 Werman, 1990, Nucleic acids I: DNA-DNA hybridization, 204 Wiley, 1978, The evolutionary species concept reconsidered, Systematic Zoology, 27, 17, 10.2307/2412809 Williams, 1990, DNA polymorphism amplified by arbitrary primers are useful as genetic markers, Nucleic Acids Research, 18, 6531, 10.1093/nar/18.22.6531 Wilson, 1977, Biochemical evolution, Annual Review of Biochemistry, 46, 573, 10.1146/annurev.bi.46.070177.003041 Wilson, 1980, Serotyping Plasmodium falciparum malaria with S-antigens, Nature, 284, 451, 10.1038/284451a0 Wirth, 1982, Rapid identification of Leishmania species by specific hybridisation of kinetoplast DNA in cutaneous lesions, 79, 6999 Wirth, 1986, Leishmaniasis and malaria: new tools for epidemiologic analysis, Science, 234, 975, 10.1126/science.3535070 Wolstenholme, 1987, Bizarre tRNAs inferred from DNA sequences of mitochondrial genomes of nematode worms, 84, 1324 Yap, 1987, Taenia hydatigena: isolation of mitochondrial DNA, molecular cloning, and physical mitochondrial genome mapping, Experimental Parasitology, 63, 288, 10.1016/0014-4894(87)90175-5 Zuckerkandl, 1962, Molecular disease, evolution and genetic heterogeneity, 189