Functional annotation

Development, characterization, and annotation of potential simple sequence repeats by transcriptome sequencing in pears (Pyrus pyrifolia Nakai)

H. Zhou, Cai, B. H., Lu, Z. Q., Gao, Z. H., Qiao, Y. S., Zhou, H., Cai, B. H., Lu, Z. Q., Gao, Z. H., and Qiao, Y. S., Development, characterization, and annotation of potential simple sequence repeats by transcriptome sequencing in pears (Pyrus pyrifolia Nakai), vol. 15, p. -, 2016.

Simple sequence repeats (SSRs), one of the most powerful molecular markers, can be used for DNA fingerprinting, variety identification, genetic mapping, and marker-assisted selection. Using the pear’s (Pyrus pyrifolia Nakai) 75,764 unigenes (55,676,271 bp) obtained by deep transcriptome sequencing, a total of 10,622 novel SSRs were identified in 9154 unigenes, accounting for 14.02% of all unigenes. The average length and distribution of these SSRs was about 16 bp and 5.24 kb, respectively.

Expression of drought tolerance genes in tropical upland rice cultivars (Oryza sativa)

R. D. D. Silveira, Abreu, F. R. M., Mamidi, S., McClean, P. E., Vianello, R. P., Lanna, A. C., Carneiro, N. P., and Brondani, C., Expression of drought tolerance genes in tropical upland rice cultivars (Oryza sativa), vol. 14, pp. 8181-8200, 2015.

Gene expression related to drought response in the leaf tissues of two Brazilian upland cultivars, the drought-tolerant Douradão and the drought-sensitive Primavera, was analyzed. RNA-seq identified 27,618 transcripts in the Douradão cultivar, with 24,090 (87.2%) homologous to the rice database, and 27,221 transcripts in the Primavera cultivar, with 23,663 (86.9%) homologous to the rice database. Gene-expression analysis between control and water-deficient treatments revealed 493 and 1154 differentially expressed genes in Douradão and Primavera cultivars, respectively.

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