Characterization of novel genic SSR markers in Linum usitatissimum (L.) and their transferability across eleven Linum species

Electronic Journal of Biotechnology

Volumn 14, Issue 2, 2011, Pages

  Soto Cerda, Braulio J ^a,b   Saavedra, Hector Urbina ^a   Navarro, Cristell Navarro ^a   Ortega, Paula Mora ^a  

^a INSTITUTO DE INVESTIGACIONES AGROPECUARIAS   (Chile)

^b AGRICULTURE AND AGRI FOOD CANADA   (Canada)

Author keywords

EST SSRs; Expressed sequence tag; Flaxseed; Polymorphic loci; Wild relatives

Indexed keywords

DNA SEQUENCES; FLAX;

EST-SSRS; EXPRESSED SEQUENCE TAGS; FLAXSEED; POLYMORPHIC LOCI; WILD RELATIVES;

BIOMARKERS;

ANGIOSPERM; ARTICLE; CONTROLLED STUDY; DATA MINING; EXPRESSED SEQUENCE TAG; GENE AMPLIFICATION; GENE FREQUENCY; GENE LOCUS; GENE TRANSFER; GENETIC POLYMORPHISM; GENOME; LINSEED; LINUM ALTAICUM; LINUM BIENNE; LINUM GRANDIFLORUM; LINUM HIRSUTUM; LINUM LEWISII; LINUM NARBONENSE; LINUM PALLESCENS; LINUM STRICTUM; LINUM TAURICUM; LINUM TENUIFOLIUM; MICROSATELLITE MARKER; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT GENETICS; SIMPLE SEQUENCE REPEAT; UNINDEXED SEQUENCE;

LINUM; LINUM BIENNE; LINUM USITATISSIMUM;

EID: 79955500696     PISSN: None     EISSN: 07173458     Source Type: Journal    
DOI: 10.2225/vol14-issue2-fulltext-6     Document Type: Article

References (48)

1. BASSAM, B.J.; CAETANO-ANOLLES, G. and GRESSHOFF, P.M. (1991). Fast and sensitive silver staining of DNA in polyacrylamide gels. Analytical Biochemistry, vol. 196, no. 1, p. 80-83. [CrossRef]
2. BOTSTEIN, D.; WHITE, R.L.; SKOLNICK, M. and DAVIS, R.W. (1980). Construction of a genetic linkage map in man using restriction fragment length polymorphisms. American Journal of Human Genetics, vol. 32, no. 3, p. 314-331.
3. CHO, Y.G.; ISHII, T.; TEMNYKH, S.; CHEN, X.; LIPOVICH, L.; McCOUCH, S.R.; PARK, W.D.; AYRES, N. and CARTINHOUR, S. (2000). Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.). TAG Theoretical and Applied Genetics, vol. 100, no. 5, p. 713-722. [CrossRef]
4. CLOUTIER, S.; NIU, Z.; DATLA, R. and DUGUID, S. (2009). Development and analysis of EST-SSRs for flax (Linum usitatissimum L.). TAG Theoretical and Applied Genetics, vol. 119, no. 1, p. 53-63. [CrossRef]
5. CLOUTIER, S.; RAGUPATHY, R.; NIU, Z. and DUGUID, S. (2010). SSR-based linkage map of flax (Linum usitatissimum L.) and mapping of QTLs underlying fatty acid composition traits. Molecular Breeding, Online first. [CrossRef]
6. DENG, X.; LONG, S.; HE, D.; LI, X.; WANG, Y.; LIU, J. and CHEN, H. (2010). Development and characterization of polymorphic microsatellite markers in Linum usitatissimum. Journal of Plant Research, vol. 123, no. 1, p. 119-123. [CrossRef]
7. DIEDERICHSEN, A. and RICHARDS, K. (2003). Cultivated flax and the genus Linum L. Taxonomy and germplasm conservation. In: MUIR, A.D. and WESTCOTT, N.D. eds. Flax: The genus Linum. 11 New Fetter Lane, London, 2003, p. 22-54.
8. DIEDERICHSEN, A. and FU, Y.B. (2008). Flax genetic diversity as the raw material for future success. In: International conference on flax and other bast plants, July 21-23, 2008, Saskatchewan, Canada. p. 270-280.
9. DOYLE, J.J. and DOYLE, J.L. (1987). A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Photochemistry Bulletin, vol. 19, no. 3, p. 11-15.
10. ELLIS, J.R. and BURKE, J.M. (2007). EST-SSRs as a resource for population genetic analysis. Heredity, vol. 99, no. 2, p. 125-132. [CrossRef]
11. EUJAYL, I.; SORRELLS, M.E.; BAUM, M.; WOLTERS, P. and POWELL, W. (2002). Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. TAG Theoretical and Applied Genetics, vol. 104, no. 2-3, p. 399-407. [CrossRef]
12. EUJAYL, I.; SLEDGE, M.K.; WANG, L.; MAY, G.D.; CHEKHOVSKIY, K.; ZWONITZER, J.C. and MIAN, M.A.R. (2004). Medicago truncatula EST-SSRs reveal cross-species genetic markers for Medicago spp. TAG Theoretical and Applied Genetics, vol. 108, no. 3, p. 414-422. [CrossRef]
13. EVERAERT, I.; DE RIEK, J.; DE LOOSE, M.; VAN WAES, J. and VAN BOCKSTAELE, E. (2001). Most similar variety grouping for distinctness evaluation of flax and linseed (Linum usitatissimum L.) varieties by means of AFLP and morphological data. Plant Varieties and Seeds, vol. 14, no. 2, p. 69-87.
14. FU, Y.B. (2006). Redundancy and distinctness in flax germplasm as revealed by RAPD dissimilarity. Plant Genetic Resources, vol. 4, no. 2, p. 117-124. [CrossRef]
15. FU, Y.B. and PETERSON, G.W. (2010). Characterization of expressed sequence tag-derived simple sequence repeat markers for 17 Linum species. Botany, vol. 88, no. 5, p. 537-543. [CrossRef]
16. GILL, K.S. and YERMANOS, D.M. (1967). Cytogenetic studies on the genus Linum I. hybrids among taxa with 15 as the haploid chromosome number1. Crop Science, vol. 7, no. 6, p. 623-627. [CrossRef]
17. GILL, K.S. (1987). Linseed. Publications and Information Division. Indian Council of Agricultural Research, New Delhi, India. 386 p. ISBN 0-271-74-0.
18. HANAI, L.R.; DE CAMPOS, T.; CAMARAGO, L.E.A.; BENCHIMOL, L.L.; DE SOUZA, A.P.; MELOTTO, M.; CARBONELL, S.A.M.; CHIORATTO, A.F.; CONSOLI, L.; FORMIGHIERI, E.F., SIQUEIRA, M.V.B.M.; TSAI, S.M. and VIEIRA, M.L.C. (2007). Development, characterization, and comparative analysis of polymorphism at common bean SSR loci isolated from genic and genomic sources. Genome, vol. 50, no. 3, p. 266-277. [CrossRef]
19. HEYWOOD, V.H. (1993). Flowering plants of the world. Oxford, Oxford University Press, 336 p. ISBN 0-19-521037-9.
20. HISANO, H.; SATO, S.; ISOBE, S.; SASAMOTO, S.; WADA, T.; MATSUNO, A.; FUJISHIRO, T.; YAMADA, M.; NAKAYAMA, S.; NAKAMURA, Y.; WATANABE, S.; HARADA, K. and TABATA, S. (2007). Characterization of the soybean genome using EST-derived microsatellite markers. DNA Research, vol. 14, no. 6, p. 271-281. [CrossRef]
21. IÑIGUEZ-LUY, F.L.; VOORT, A.V. and OSBORN, T.C. (2008). Development of a set of public SSR markers derived from genomic sequence of a rapid cycling Brassica oleracea L. genotype. TAG Theoretical and Applied Genetics, vol. 117, no. 6, p. 977-985. [CrossRef]
22. JHALA, A.J.; HALL, L.M. and HALL, J.C. (2008). Potential hybridization of flax with weedy and wild relatives: An avenue for movement of engineered genes? Crop Science, vol. 48, no. 3, p. 825-840. [CrossRef]
23. JEUKEN, M.J.W. and LINDHOUT, P. (2004). The development of lettuce backcross inbred lines (BILs) for exploitation of the Lactuca saligna (wild lettuce) germplasm. TAG Theoretical and Applied Genetics, vol. 109, no. 2, p. 394-401. [CrossRef]
24. KIM, K.S.; RATCLIFFE, S.T.; FRENCH, B.W.; LIU, L. and SAPPINGTON, T.W. (2008). Utility of EST-derived SSRs as population genetics markers in a beetle. Journal of Heredity, vol. 99, no. 2, p. 112-124. [CrossRef]
25. LIEWLAKSANEEYANAWIN, C.; RITLAND, C.E.; EL-KASSABY, A.Y. and RITLAND, K. (2004). Single-copy, species-transferable microsatellite markers developed from loblolly pine ESTs. TAG Theoretical and Applied Genetics, vol. 109, no. 2, p. 361-369. [CrossRef]
26. MORGANTE, M.; HANAFEY, M. and POWELL, W. (2002). Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes. Nature Genetics, vol. 30, no. 2, p. 194-200. [CrossRef]
27. MURAVENKO, O.V.; LEMESH, V.A.; SAMATADZE, T.E.; AMOSOVA, A.V.; GRUSHETSKAYA, Z.E.; POPOV, K.V.; SEMENOVA, O.L.U.; KHOTUYLEYA, L.V. and ZELENIN, A.V. (2003). Genome comparisons with chromosomal and molecular markers for three closely related flax species and their hybrids. Genetika, vol. 39, no. 4, p. 414-422. [CrossRef]
28. MURAVENKO, O.V.; BOLSHEVA, N.L.; YURKEVICH, O.Y.; NOSOVA, I.V.; RACHINSKAYA, O.A.; SAMATADZE, T.E. and ZELENIN, A.V. (2010). Karyogenomics of species of the genus Linum L. Russian Journal of Genetics, vol. 46, no. 10, p. 1182-1185. [CrossRef]
29. NGUYEN, B.; BRAR, D.; BUI, B.; NGUYEN, T.; PHAM, L.N. and NGUYEN, H.T. (2003). Identification and mapping of the QTL for aluminum tolerance introgressed from the new source, ORYZA RUFIPOGON Griff., into indica rice (Oryza sativa L.). TAG Theoretical and Applied Genetics, vol. 106, no. 4, p. 583-593. [CrossRef]
30. PASHLEY, C.H.; ELLIS, J.R.; MCCAULEY, D.E. and BURKE, J.M. (2006). EST databases as a source for molecular markers: Lessons from Helianthus. Journal of Heredity, vol. 97, no. 4, p. 381-388. [CrossRef]
31. ROOSE-AMSALEG, C.; CARIOU-PHAM, E.; VAUTRIN, D.; TAVERNIER, R. and SOLIGNAC, M. (2006). Polymorphic microsatellite loci in Linum usitatissimum. Molecular Ecology Notes, vol. 6, no. 3, p. 796-799. [CrossRef]
32. SAHA, M.C.; MIAN, M.A.R.; EUJAYL, I.; ZWONITZER, J.C.; WANG, L. and MAY, G.D. (2004). Tall fescue EST-SSR markers with transferability across several grass species. TAG Theoretical and Applied Genetics, vol. 109, no. 4, p. 783-791. [CrossRef]
33. SAMADI, A.; MAHMODZADEH, A.; GORTTAPEH, A.H. and TORKAMANI, M.R. (2007). Cytogenetic studies in four species of flax (Linum spp.). Journal of Applied Sciences, vol. 7, no. 19, p. 2833-2839. [CrossRef]
34. SIM, S.C.; YU, J.K.; JO, Y.K.; SORRELLS, M.E. and JUNG, G. (2009). Transferability of cereal EST-SSR markers to ryegrass. Genome, vol. 52, no. 5, p. 431-437. [CrossRef]
35. SIMKO, I. (2009). Development of EST-SSR markers for the study of population structure in lettuce (Lactuca sativa L.). Journal of Heredity, vol. 100, no. 2, p. 256-262. [CrossRef]
36. SONG, Q.J.; FICKUS, E.W. and CREGAN, P.B. (2002). Characterization of trinucleotide SSR motifs in wheat. TAG Theoretical and Applied Genetics, vol. 104, no 2-3, p. 286-293. [CrossRef]
37. SOTO-CERDA, B.J.; CARRASCO, R.A.; ARAVENA, G.A.; URBINA, H.A. and NAVARRO, C.S. (2010). Identifying novel polymorphic microsatellites from cultivated flax (Linum usitatissimum L.) following data mining. Plant Molecular Biology Reporter, Online first. [CrossRef]
38. TANKSLEY, S. and MCCOUCH, S. (1997). Seed banks and molecular maps: Unlocking genetic potential from the wild. Science, vol. 277, no. 5329, p. 1063-1066. [CrossRef]
39. THIEL, T.; MICHALEK, W.; VARSHNEY, R.K. and GRANER, A. (2003). Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). TAG Theoretical and Applied Genetics, vol. 106, no. 3, p. 411-422. [CrossRef]
40. UYSAL, H.; FU, Y.B.; KURT, O.; PETERSON, G.W.; DIEDERICHSEN, A. and KUSTERS, P. (2010). Genetic diversity of cultivated flax (Linum usitatissimum L.) and its wild progenitor pale flax (Linum bienne L.) as revealed by ISSR markers. Genetic Resources and Crop Evolution, vol. 57, no. 7, p. 1109-1119. [CrossRef]
41. VARSHNEY, R.K.; GRANER, A. and SORRELLS, M.E. (2005). Genic microsatellite markers in plants: Features and applications. Trends in Biotechnology, vol. 23, no. 1, p. 48-55. [CrossRef]
42. WANG, H.Y.; WEI, Y.M.; YAN, Z.H. and ZHENG, Y.L. (2007). EST-SSR DNA polymorphism in durum wheat (Triticum aestivum L.) collections. Journal of Applied Genetics, vol. 48, no. 1, p. 37-42.
43. WANG, J.Y.; ZHENG, L.S.; HUANG, B.Z.; LIU, W.L. and WU, Y.T. (2010). Development, characterization and variability analysis of microsatellites from a commercial cultivar of Musa acuminate. Genetic Resources and Crop Evolution, vol. 57, no. 4, p. 553-563. [CrossRef]
44. WIESNEROVÁ, D. and WIESNER, I. (2004). ISSR-based clustering of cultivated flax germplasm is statistically correlated to thousand seed mass. Molecular Biotechnology, vol. 26, no. 3, p. 207-214. [CrossRef]
45. WINKLER, H. (1931). Linaceae, tribe I. Linoideae-eulinae. In: ENGLER, A. eds. Die nature-lichen pfanzenfamilien nebst ihren Gattungen und wichtigeren Arten, insbesondere den Nutzpflanzen. W. Engelmann, Leipzig, Germany, 1931. p. 111-120.
46. YONEMARU, J.; ANDO, T.; MIZUBAYASHI, T.; KASUGA, S.; MATSUMOTO, T. and YANO, M. (2009). Development of genome-wide simple sequence repeat markers using whole-genome shotgun sequences of sorghum (Sorghum bicolor (L.) moench). DNA Research, vol. 16, no. 3, p. 187-193. [CrossRef]
47. YU, J.K.; DAKE, T.M.; SINGH, S.; BENSCHER, D.; LI, W.; GILL, B. and SORRELLS, M.E. (2004). Development and mapping of EST-derived simple sequence repeat markers for hexaploid wheat. Genome, vol. 47, no. 5, p. 805-818. [CrossRef]
48. ZHANG, L.Y.; BERNARD, M.; LEROY, P.; FEUILLET, C. and SOURDILLE, P. (2005). High transferability of bread wheat EST-derived SSRs to other cereals. TAG Theoretical and Applied Genetics, vol. 111, no. 4, p. 677-687. [CrossRef]