Analysis of microsatellites in citrus unigenes

Yi chuan xue bao = Acta genetica Sinica
Dong JiangQi-Bing Hong

Abstract

Simple sequence repeats (SSRs) were investigated in the unigene sequences from expressed sequence tags (EST) of sweet orange (Citrus sinensis osbeck), trifoliate orange (Poncirus trifoliata Raf.) and other citrus species and cultivars. A total of 37 802 citrus unigene sequences corresponding to 23.29 Mb were searched, resulting in the identification of 8,218 SSRs. Among them there were 4,913 (59.8%) mono-, 1,419 (17.3%) di-, 1,709 (20.8%) tri-, 114 (1.39%) tetra-, 23 (0.28%) penta- and 40 (0.49%) hexa-nucleotide SSRs. The estimated frequency of SSRs was approximately 1/2.8 kb, which could be extrapolated to 1 SSR-containing unigene in 4.6 unigenes. The maximum length of the SSR ranged from 40 to 105 bp depending on the repeating numbers of the motif in the SSR. The overall average length of SSRs was 20.9 bp. The frequencies of different SSR types (di-, tri-, tetra-, and penta-nucleotide repeats) were very similar between sweet orange and trifoliate orange. The mononucelotide repeats appeared to be the most abundant SSRs within sweet orange and trifoliate orange, followed by trimeric repeats. The adenine rich repeats such as A/T, AG, AT, AAG AAAT, AAAG, AAAT, AAAAG, AAAAT etc. were predominant in each type of SSRs (mono-, di-, t...Continue Reading

References

Jun 16, 2004·Molecular Genetics and Genomics : MGG·J-K YuM E Sorrells

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Citations

Jul 19, 2011·Molecular Genetics and Genomics : MGG·Caihua GaoJiana Li
Jan 21, 2011·BMC Plant Biology·Filipe C VictoriaAntonio Costa de Oliveira
Oct 1, 2009·Genetics and Molecular Biology·Luciano Carlos da MaiaAntonio Costa de Oliveira
Aug 2, 2008·International Journal of Plant Genomics·Luciano Carlos da MaiaAntonio Costa de Oliveira
Aug 22, 2014·BMC Plant Biology·Sonali Sachin RanadeMaría del Rosario García-Gil
Apr 6, 2012·Molecular Biology Reports·Manosh Kumar BiswasXiuxin Deng
Dec 31, 2011·Molecular Biology Reports·W D OngS V Kumar
May 11, 2013·Journal of Biosciences·Madhugiri Nageswara-RaoSiddarame Gowda
Jul 1, 2013·Functional Plant Biology : FPB·Caihua GaoDonghui Fu

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