Transferability, amplification quality, and genome specificity of microsatellites in Brassica carinata and related species

• Autorzy: Marquez-Lema A , Velasco L , Perez-Vich B
• Języki publikacji: EN

Abstrakty

EN

No information is available on the transferability and amplification quality of microsatellite (SSR) markers of the public domain in Brassica carinata A. Braun. The objective of the presented research was to study the amplification of a set of 73 SSRs from B. nigra (L.) Koch and B. napus L. in B. carinata, and to compare the results with those obtained in the amplification of the same markers in other Brassica species of the U triangle. This set of SSRs from B. nigra (B genome) and B. napus (AC genome) allows the identification of the 3 basic genomes of the Brassica species tested. 94.3% of the SSR markers from B. nigra and 97.4% of those from B. napus amplified SSR-specific products in B. carinata. Very high-quality amplification with a strong signal and easy scoring in B. carinata was recorded for 52.8% of the specific loci from B. nigra SSRs and 59.3% of the specific loci from B. napus SSRs, compared to 66.7% in B. nigra and 62.8% in B. napus. Genome specificity and amplification quality of B. nigra and B. napus SSR markers in the 6 species under study is reported. High-quality transferable SSR markers provide an efficient and cost-effective platform to advance in molecular research in B. carinata.

Słowa kluczowe

PL

amplification quality; microsatellite; Brassica carinata; Brassica napus; Brassica nigra; simple sequence repeat; genome specificity; genome identification

• Wydawca: -
• Czasopismo: Journal of Applied Genetics
• Rocznik: 2010
• Tom: 51
• Numer: 2
• Opis fizyczny: p.123-131,ref.

Twórcy

autor

Marquez-Lema A

• Institute for Sustainable Agriculture [CSIC], Alameda del Obispo s/n, E-14004 Cordoba, Spain

autor

Velasco L

• Institute for Sustainable Agriculture [CSIC], Alameda del Obispo s/n, E-14004 Cordoba, Spain

autor

Perez-Vich B

• Institute for Sustainable Agriculture [CSIC], Alameda del Obispo s/n, E-14004 Cordoba, Spain

Bibliografia

• Bornet B, Branchard M, 2004. Use of ISSR fingerprints to detect microsatellites and genetic diversity in several related Brassica taxa and Arabidopsis thaliana. Hereditas 140: 245-248.
• Batley J, Hopkins CJ, Cogan NOI, Hand M, Jewell E, Kaur J, et al. 2007. Identification and characterization of simple sequence repeat markers from Brassica napus expressed sequences. 7: 886-889.
• Berry ST, Leon AJ, Hanfrey CC, Challis P, Burkholz SR, Barnes GK, et al. 1995. Molecular markers analysis of Helianthus annuus L. 2. Construction of a RFLP linkage map for cultivated sunflower. Theor Appl Genet 91: 195-199.
• Burgess B, Mountford H, Hopkins CJ, Love C, Ling A, Spangenberg G, et al. 2006. Identification and characterization of simple sequence repeat (SSR) markers derived in silico from Brassica oleracea genome shotgun sequences. Mol Ecol Notes 6: 1191-1194.
• Dice LR, 1945. Measures of the amount of ecologic association between species. Ecology 26: 297-302.
• Genet T, Viljoen CD, Labuschagne MT, 2005. Genetic analysis of Ethiopian mustard genotypes using amplified fragment length polymorphism (AFLP) markers. Afr J Biotechnol 4: 891-897.
• Gutierrez MV, Vaz Patto MC, Huguet T, Cubero JI, Moreno MT, Torres AM, 2005. Cross-species amplification of Medicago truncatula microsatellites across three major pulse crops. Theor Appl Genet 110: 1210-1217.
• Hasan M, Seyis F, Badani AG, Pons-Kühnemann J, Friedt W, Lühs W, et al. 2006. Analysis of genetic diversity in the Brassica napus L. gene pool using SSR markers. Genet Res Crop Evol 53: 793-802.
• Hopkins CJ, Cogan NOI, Hand M, Jewell E, Kaur J, Li X, et al. 2007. Sixteen new simple sequence repeat markers from Brassica juncea expressed sequences and their cross-species amplification. 7: 697-700.
• Lowe AJ, Jones AE, Raybould AF, Trick M, Moule CL, Edwards KJ, 2002. Transferability and genome specificity of a new set of microsatellite primers among Brassica species of the U triangle. Mol Ecol Not 2: 711.
• Lowe AJ, Moule C, Trick M, Edwards KJ, 2004. Efficient large-scale development of microsatellites for marker and mapping applications in Brassica crop species. Theor Appl Genet 108: 1103-1112.
• Mantel NA, 1967. The detection of disease clustering and a generalized regression approach. Cancer Res 27: 209-220.
• Plieske J, Struss D, 2001. Microsatellite markers for genome analysis in Brassica. I. Development in Brassica napus and abundance in Brassicaceae species. Theor Appl Genet 102: 689-694.
• Pradhan AK, Prakash S, Mukhopadhyay A, Pental D, 1992. Phylogeny of Brassica and allied genera based on variation in chloroplast and mitochondrial DNA patterns: molecular and taxonomie classifications are incongruous. Theor Appl Genet 85: 331-340.
• Rohlf FJ, 1998. NTSYS-pc numerical taxonomy and multivariate analysis system, version 2.02. Exeter Software, Setauket, New York, USA: Exeter Software.
• Suwabe K, Iketani H, Nunome T, Kage T, Hirai M, 2002. Isolation and characterization of microsatellites in Brassica rapa L. Theor Appl Genet 93: 534-538.
• Teklewold A, Becker HC, 2006. Geographic pattern of genetic diversity among 43 Ethiopian mustard Brassica carinata (A. Braun) accessions as revealed by RAPD analysis. Genet Res Crop Evol 53: 1173-1185.
• Tsunoda S, 1980. Eco-physiology of wild and cultivated forms in Brassica and allied genera. In: Tsunoda S, Hinata K, Gómez-Campo C, eds. Brassica crops and wild allies, Tokyo: Japan Scientific Societies Press: 109-120.
• U N, 1935. Genomic analysis of Brassica with special reference to the experimental formation of B. napus and its peculiar mode of fertilization. Jpn J Bot 7: 389-452.
• Warwick SI, Black LD, 1991. Molecular systematics of Brassica and allied genera (subtribe Brassicinae, Brassiceae) chloroplast genome and cytodeme congruence. Theor Appl Genet 82: 81-92.
• Warwick SI, Gugel RK, McDonald T, Falk KC, 2006. Genetic variation of Ethiopian mustard (Brassica carinata A. Braun) germplasm in western Canada. Genet Res Crop Evol 53: 297-312.
• Westman AL, Kresovich S, 1998. The potential for cross-taxa simple-sequence repeat (SSR) amplification between Arabidopsis thaliana L. and crop brassicas. Theor Appl Genet 96: 272-281.