Bibliography of papers using
or discussing ISSR methods


Ajibade, S. R., N. F. Weeden, and S. M. Chite. 2000. Inter simple sequence repeat analysis of genetic relationships in the genus Vigna. Euphytica 111:47-55.

Akagi, H., Y. Yokozeki, A. Inagaki, A. Nakamura, and T. Fujimura. 1996. A codominant DNA marker closely linked to the rice nuclear restorer gene, Rf-1, identified with inter-SSR fingerprinting. Genome 39:1205-1209.

Akagi, H., Y. Yokzeki, A. Inagaki, A. Nakamura, and T. Fujimura. 1996. A codominant DNA marker closely linked to the rice nuclear restorer gene, Rf-1, identified with inter-SSR fingerprinting. Genome 39:1205-1209.

Albani, M. C., and M. J. Wilkinson. 1998. Inter simple sequence repeat polymerase chain reaction for the detection of somaclonal variation. Plant Breeding 117:573-575.

Arcade, A., F. Anselin, P. Faivre Rampant, M. C. Lesage, L. E. P‰ques, and D. Prat. 2000. Application of AFLP, RAPD and ISSR markers to genetic mapping of European and Japanese larch. Theor Appl Genet 100:299 - 307.

Barcaccia, G., E. Albertini, d. Rosellini, S. Tavoletti, and F. Veronesi. 2000. Inheritance and mapping of 2n-egg production in diploid alfalfa. Genome 43:528-537.

Basik, M., D. L. Stoler, K. C. Kontzoglou, M. A. RodriquezBigas, N. J. Petrelli, and G. R. Anderson. 1997. Genomic instability in sporadic colorectal cancer quantitated by inter-simple sequence repeat PCR analysis. Genes Chromosomes & Cancer 18:19-29.

Blair, M. W., O. Panaud, and S. R. McCouch. 1999. Inter-simple sequence repeat (ISSR) amplification for analysis of microsatellite motif frequency and fingerprinting in rice (Oryza sativa L.). Theor Appl Genet 98:780-792.

Cavan, G., V. Potier, and S. R. Moss. 2000. Genetic diversity of weeds growing in continuous wheat. Weed Res 40:301-310.

Charters, Y. M., A. Robertson, M. J. Wilkinson, and G. Ramsay. 1996. PCR analysis of oilseed rape cultivars (Brassica napus L. ssp. oleifera) using 5'-anchored simple sequence repeat (SSR) primers. Theor Appl Genet 92:442-447.

Charters, Y. M., and M. J. Wilkinson. 2000. The use of self-pollinated progenies as 'in-groups' for the genetic characterization of cocoa germplasm. Theor Appl Genet 100:160-166.

Chen, Y., G. Hausner, E. Kenaschuk, D. Procunier, P. Dribnenki, and G. Penner. 1998. Identification of microspore-derived plants in anther culture of flax (Linum usitatissimum L.) using molecular markers. Plant Cell Rep 18:44-48.

Davis, J. L., D. L. Childers, and D. N. Kuhn. 1999. Clonal variation in a Florida Bay Thalassia testudinum meadow: molecular genetic assessment of population structure. Mar Ecol Prog Ser 186:127-136.

de Oliveira, A. C., T. Richter, and J. L. Bennetzen. 1996. Regional and racial specificities in sorghum germplasm assessed with DNA markers. Genome 39:579-587.

Esselman, E. J., L. Jianqiangt, D. J. Crawford, J. L. Windus, and A. D. Wolfe. 1999. Clonal diversity in the rare Calamagrostis proteri spp. insperata (Poaceae): comparative results for allozymes and RAPD and ISSR markers. Mol Ecol In press:

Fang, D. Q., R. R. Krueger, and M. L. Roose. 1998. Phylogenetic relationships among selected citrus germplasm accessions revealed by inter-simple sequence repeat (ISSR) markers. J Am Soc Hort Sci 123:612-617.

Fang, D. Q., and M. L. Roose. 1997. Identification of closely related citrus cultivars with inter-simple sequence repeat markers. Theor Appl Genet 95:408-417.

Fang, D. Q., and M. L. Roose. 1999. Inheritance of intersimple sequence repeat markers in citrus. J. Heredity 90:247-249.

Fang, D. Q., M. L. Roose, R. R. Krueger, and C. T. Federici. 1997. Fingerprinting trifoliate orange germ plasm accessions with isozymes, RFLPs and inter-simple sequence repeat markers. Theor Appl Genet 95:211-219.

Ge, X. J., and M. Sun. 1999. Reproductive biology and genetic diversity of a cryptoviviparous mangrove Aegiceras corniculatum (Myrtinaceae) using allozyme and intersimple sequence repeat (ISSR) analysis. Mol. Ecol. 8:2061-2069.

Gilbert, J. E., R. V. Lewis, M. J. Wilkinson, and P. D. S. Caligari. 1999. Developing an appropriate strategy to assess genetic variability in plant germplasm collections. Theor Appl Genet 98:1125-1131.

Gillings, M., and M. Holley. 1997. Amplification of anonymous DNA fragments using pairs of long primers generates reproducible DNA fingerprints that are sensitive to genetic variation. Electrophoresis 18:1512-1518.

Godwin, I. D., E. A. B. Aitken, and L. W. Smith. 1997. Application of inter-simple sequence repeat (ISSR) markers to plant genetics. Electrophoresis 18:1524-1528.

Gupta, M., Y.-S. Chyi, J. Romero-Severson, and J. L. Owen. 1994. Amplification of DNA markers from evolutionarily diverse genomes using single primers of simple-sequence repeats. Theor Appl Genet 89:998-1006.

Gupta, P. K., and R. K. Varshney. 2000. The development and use of microsatellite markers for genetic analyis and plant breeding with emphasis on bread wheat. Euphytica 113:163-185.

Gyulai, G., J. A. Gemesne, Z. Sagi, G. Venczel, P. Pinter, Z. Krostof, O. Torjek, L. Heszky, S. bottka, J. Kiss, and L. Zatyko. 2000. Doubled haploid development and PCR-analysis of F-1 hybrid derived DH-R-2 paprika (Capsicum annuum L.) lines. J Plant Physiol 156:168-174.

Hollingsworth, P. M., M. Tebbitt, K. J. Watson, and R. J. Gornall. 1998. Conservation genetics of an arctic species, Saxifgra rivularis L., in Britain. Bot J. Linnean Soc. 128:1-14.

Genetic diversity was assessed using isozymes, RAPDs, ISSRs and cpDNA RFLPs. Low levels of variation were detected.

Huang, J., and S. M. 2000. Genetic diversity and relationships of sweetpotato and its wild relatives in Ipomoea series Batatas (Convolvulaceae) as revealed by inter-simple sequence repeat (ISSR) and restriction analysis of chloroplast DNA. Theor Appl Genet 100:1050-1060.

Jackson, J. A., and D. Matthews. 2000. Modified inter-simple sequence repeat PCR protocol for use in conjunction with the Li-Cor gene ImagIR(2) DNA analyzer. BioTechniques 28:914 - +.

Jain, A., C. Apparanda, and P. L. Bhalla. 1999. Evaluation of genetic diversity and genome fingerprinting of Pandorea (Bignoniaceae) by RAPD and inter-SSR PCR. Genome 42:714-719.

Kantety, R. V., X. P. Zeng, J. L. Bennetzen, and B. E. Zehr. 1995. Assessment of genetic diversity in dent and popcorn (Zea mays L.) inbred lines using inter-simple sequence repeat (ISSR) amplification. Mol Breeding 1:365-373.

Kim, N. S., N. I. Park, S. H. Kim, S. T. Kim, S. S. Han, and K. Y. Kang. 2000. Isolation of TC/AG repeat microsatellite sequences for fingerprinting rice blast fungus and their possible horizontal transfer to plant species. Mol Cell 10:127-134.

King, R. A., and C. Ferris. 2000. Chloroplast DNA and nuclear DNA variation in the sympatric alder species, Alnus cordata (Lois.) Duby and A. glutinosa (L.) Gaertn. Biol J Linnean Soc 70:147-160.

Kojima, T., T. Nagaoka, K. Noda, and Y. Ogihara. 1998. Genetic linkage map of ISSR and RAPD markers in Einkorn wheat in relation to that of RFLP markers. Theor. Appl. Genet. 96:37-45.

Kostia, S., M. Ruohonen-Lehto, R. Vainola, and S. L. Varvio. 2000. Phylogenetic information in inter-SINE and inter-SSR fingerprints of the Artiodactyla and evolution of the Bov-tA SINE. Heredity 84:37-45.


Kostia, S., S.-L. Varvio, P. Vakkari, and P. Pulkkinen. 1995. Microsatellite sequences in a conifer, Pinus sylvestris. Genome 38:1244-1248.

Lanham, P. G., and R. M. Brennan. 1999. Genetic characterization of gooseberry (Ribes grossularia subgenus Grossularia) germplasm using RAPD, ISSR and AFLP markers. J Hort Sci Biotech 74:361-366.

Levin, I., N. Gilboa, E. Yeselson, S. Shen, and A. A. Schaffer. 2000. Fgr, a major locus that modulates the fructose to glucose ratio in mature tomato fruits. Theor Appl Genet 100:256-262.

Lu, J., M. R. Knox, M. J. Ambrose, J. K. M. Brown, and T. H. N. Ellis. 1996. Comparative analysis of genetic diversity in pea assessed by RFLP-and PCR-based methods. Theor Appl Genet 93:1103-1111.

Matthews, D., J. McNicoll, K. Harding, and S. Millam. 1999. 5'-Anchored simple-sequence repeat primers are useful for analysing potato somatic hybrids. Plant Cell Rep 19:210-212.

Maunder, M., A. Culham, A. Bordeu, J. Allainguillaume, and M. Wilkinson. 1999. Genetic diversity and pedigree for Sophora toromiro (Leguminosae): a tree extinct in the wild. Mol Ecol 8:725-738.

McGregor, C. E., C. A. Lambert, M. M. Greyling, J. H. Louw, and L. Warnich. 2000. A comparative assessment of DNA fingerprinting techniques (RAPD, ISSR, AFLP and SSR) in tetraploid potato (Solanum tuberosum L.) germplasm. Euphytica 113:135-144.

Moreno, S., J. P. Martin, and J. M. Ortiz. 1998. Inter-simple sequence repeats PCR for characterization of closely related grapevine germplasm. Euphytica 101:117-125.

Nagaoka, T., and Y. Ogihara. 1997. Applicability of inter-simple sequence repeat polymorphisms in wheat for use as DNA markers in comparison to RFLP and RAPD markers. Theor Appl Genet 94:597-602.

Parsons, B. J., H. J. Newbury, M. T. Jackson, and B. V. Ford-Lloyd. 1997. Contrasting genetic diversity relationships are revealed in rice (Oryza sativa L) using different marker types. Mol Breeding 3:115-125.

Pasakinskiene, I., C. M. Griffiths, A. J. E. Bettany, V. Paplauskiene, and M. W. Humphreys. 2000. Anchored simple-sequence repeats as primers to generate specific DNA markers in Lolium and Festuca grasses. Theor Appl Genet 100:384 - 390.

Prevost, A., and M. J. Wilkinson. 1999. A new system of comparing PCR primners applied to ISSR fingerprinting of potato cultivars. Theor Appl Genet 98:107-112.

Ratnaparkhe, M. B., D. K. Santra, A. Tullu, and F. J. Muehlbauer. 1998. Inheritance of inter-simple sequence repeat polymorphisms and linkage with a fusarium wilt resistance gene in chickpea. Theor Appl Genet 96:348-353.

Ratnaparkhe, M. B., M. Tekeoglu, and F. J. Muehlbauer. 1998. Intersimple sequence repeat (ISSR) polymorphisms are useful for finding markers associated with disease resistance gene clusters. Theor. Appl. Genet. 97:515-519.

Reddy, K. D., J. Nagaraju, and E. G. Abraham. 1999. Genetic characterization of the silkworm Bombyx mori by simple sequence repeat (SSR)-anchored PCR. Heredity 83:681-687.


Rostiana, O., M. Niwa, and W. Marubashi. 1999. Efficiency of inter-simple sequence repeat PCR for detecting somaclonal variation among leaf-culture-regenerated plants of horseradish. Breeding Sci 49:245-250.

Salimath, S. S., A. C. de Oliveira, I. D. Godwin, and J. L. Bennetzen. 1995. Assessment of genome origins and genetic diversity in the genus Eleusine with DNA markers. Genome 38:757-763.

S‡nchez de la Hoz, M. P., J. A. D‡vila, Y. Loarce, and E. Ferrer. 1996. Simple sequence repeat primers used in polymerase chain reaction amplifications to study genetic diversity in barley. Genome 39:112-117.

Stepansky, A., I. Kovalski, and R. Perl-Treves. 1999. Intraspecific classification of melons (Cucumis melo L.) in view of their phenotypic and molecular variation. Plant Syst. Evol. 217:313-332.

Tani, N., N. Tomaru, Y. Tsumura, M. Araki, and K. Ohba. 1998. Genetic structure within a Japanese stone pine (Pinus pumila Regel) population on Mt. Aino-Dake in central Honshu, Japan. J Plant Res 111:7-15.

Tsumura, Y., K. Ohba, and S. H. Strauss. 1996. Diversity and inheritance of inter-simple sequence repeat polymorphisms in Douglas-fir (Pseudotsuga menziesii) and sugi (Cryptomeria japonica). Theor Appl Genet 92:40-45.

Virk, P. S., J. Zhu, H. J. Newbury, G. J. Bryan, M. T. Jackson, and B. V. Ford-Lloyd. 2000. Effectiveness of different classes of molecular marker for classifying and revealing variation in rice (Oryza sativa) germplasm. Euphytica 112:275-284.

Vis, M. L. 1999. Intersimple sequence repeats (ISSR) molecular markers to distinguish gametophytes of Batrachospermum boryanum (batrachospermales, Rhodophyta. Phycol 38:70-73.


Wolfe, A. D., and A. Liston. 1998. Contributions of PCR-based methods to plant systematics and evolutionary biology. in: Plant Molecular Systematics II D. E. Soltis, P. S. Soltis and J. J. Doyle. pp. 43-86. Boston, Kluwer.

This is a review paper that gives a comprehensive overview of PCR methods in plant systematics and evolutionary biology. Some of the subheadings include: RAPD Markers (description of the method, limitations, deviations from Mendelian inheritance, problems of homology assessment, applications, analysis), Amplified Fragment Length Polymorphism (description of the method, application, advantages and limitations), and PCR Applications Involving the Generation of Microsatellite-based Markers (variable number tandem repeats, SSR or DNA microsatellites, ST-SSR, ST-SSR primer design, ST-SSR allelic differences, cpDNA ST-SSR, ISSR, RAMP).

Wolfe, A. D., and C. P. Randle. 2001. Systematic Relationships Among Species of the Holoparasitic Plant Genus Hyobanche (Orobanchaceae) Inferred from ISSR Banding Patterns and Nucleotide Sequences.

Wolfe, A. D., Q.-Y. Xiang, and S. R. Kephart. 1998. Diploid hybrid speciation in Penstemon (Scrophulariaceae). Proc. Natl. Acad. Sci. USA 95:5112-5115.

Demonstrates the use of ISSR markers in natural populations; supports diploid hybrid speciation in Penstemon where three other molecular data sets were unable to fully resolve relationships.

Wolfe, A. D., Q.-Y. Xiang, and S. R. Kephart. 1998. Assessing hybridization in natural populations of Penstemon (Scrophulariaceae) using hypervariable inter simple sequence repeat markers. Mol Ecol 7:1107-1125.

An expansion of the Wolfe et al. 1998 PNAS paper with a review of the applicability of ISSR markers to studies of natural populations.

Wolff, K., and M. Morgan-Richards. 1998. PCR markers distinguish Plantago major subspecies. Theor. Appl. Genet. 96:282-286.

Wolff, K., E. Zietkiewicz, and H. Hofstra. 1995. Identification of chrysanthemum cultivars and stability of DNA fingerprint patterns. Theor Appl Genet 91:439-447.

Yang, W., A. C. de Oliveira, I. Godwin, K. Schertz, and J. L. Bennetzen. 1996. Comparison of DNA marker technologies in characterizing plant genome diversity: variability in Chinese sorghums. Crop Sci 36:1669-1676.

Yuille, M. A. R., D. R. Goudie, N. A. Affara, and M. A. Ferguson-Smith. 1991. Rapid determination of sequences flanking microsatellites. Nucleic Acids Res 19:1950.

Zavodna, M., J. Kraic, G. Paglia, E. Gregova, and M. Morgante. 2000. Differentiation between closely related lentil (Lens culinaris MEDIK.) cultivars using DNA markers. Seed Sci Tech 28:217-219.

Zhou, Z. H., M. Miwa, and T. Hogetsu. 1999. Analysis of genetic structure of a Suillus grevillei population in a Larix kaemferi stand by polymorphism of inter-simple sequence repeat (ISSR). New Phytol 144:55-63.

Mycorrhizal diversity

Zietkiewicz, E., A. Rafalski, and D. Labuda. 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics 20:176-183.

This is the first publication describing the ISSR technique.

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Last updated July 19, 2000.