genotype/variation: mutant developmental stage: 170 Days after flowering
Growth protocol
The orange fruits were pick up from 3 different trees which cultivated at the Institute of Citrus Research located in Guilin, Guangxi Province, China
Extracted molecule
total RNA
Extraction protocol
Total RNA were extracted from the sweet orange fruits according to previous protocol (Liu et al. 2006). 10 μg total RNA were reverse-transcribed, the resultant cDNA was digested with NlaIII, and then ligated with the first adapter containing the recognition site of MmeI, a Type IIs endonuclease which cleave at sites 21bp from the recognition site. After digestion by MmeI, the transcripts were ligated with the second adapter. With the sequencing primers designed based on the two adaptors, the sequence of the 21 bp representing each transcript can be determined via sequencing by synthesis mode.
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
cDNA
Instrument model
Illumina Genome Analyzer
Description
fruit transcriptome of sweet orange
Data processing
Sequences without adapters were discarded. The sequence sets were filtered to remove low quality sequences including ambiguous nucleotides, adaptor-only sequences and below 3 transcript per million (TPM)
