title: Bioinformatic analysis of fruit-specific expressed sequence tag libraries of Diospyros kaki Thunb.: view at the transcriptome at different developmental stages.
abstract: We present here a systematic analysis of the Diospyros kaki expressed sequence tags (ESTs) generated from development stage-specific libraries. A total of 2,529 putative tentative unigenes were identified in the MF library whereas the OYF library displayed 3,775 tentative unigenes. Among the two cDNA libraries, 325 EST-Simple sequence repeats (SSRs) in 296 putative unigenes were detected in the MF library showing an occurrence of 11.7% with a frequency of 1 SSR/3.16 kb whereas the OYF library had an EST-SSRs occurrence of 10.8% with 407 EST-SSRs in the 352 putative unigenes with a frequency of 1 SSR/2.92 kb. We observed a higher frequency of SNPs and indels in the OYF library (20.94 SNPs/indels per 100 bp) in comparison to MF library showed a relatively lower frequency (0.74 SNPs/indels per 100 bp). A combined homology and secondary structure analysis approach identified a potential miRNA precursor, an ortholog of miR159, and potential miR159 targets, in the development-specific ESTs of D. kaki. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s13205-011-0005-9) contains supplementary material, which is available to authorized users.
authors.forename: Gaurav
authors.initials: G
authors.lastname: Sablok
authors.forename: Chun
authors.initials: C
authors.lastname: Luo
authors.forename: Wan Sin
authors.initials: WS
authors.lastname: Lee
authors.forename: Farzana
authors.initials: F
authors.lastname: Rahman
authors.forename: Tatiana V
authors.initials: TV
authors.lastname: Tatarinova
authors.forename: Jennifer Ann
authors.initials: JA
authors.lastname: Harikrishna
authors.forename: Zhengrong
authors.initials: Z
authors.lastname: Luo