Articles
Transcriptome comparison among three types of annual roots of Malus hupehensis Rehd
Article number
1297_78
Pages
597 – 608
Language
English
Abstract
The roots of fruit tree contain perennial roots and annual roots grouped by growth years.
Annual roots are divided into absorbing roots, extensive roots and conductive root by function.
Transcriptome analysis of the annual roots of Malus hupehensis Rehd. was performed using Illumina HisSeq 2500 RNA-seq. 52217996 clean reads were obtained after filtering, which contained 10.54G Base in total. 54 396 unigenes were generated after assembling original reads.
The unigenes were further blasted using the BLAST and BLAST2GO software in Nr, Swiss-Prot, GO, COG and KEGG database for homology comparison. 31530 unigenes were found to be homologous with the genes in these databases and accounted for 57.96% of the total unigenes.
There are significant differences among the expression level of a large number of genes of the absorbing roots, extensive roots, and conductive roots.
It shows that the expression level of genes producing Ammonium transporters protein, Subtilisin-like protease, aquaporin protein, and casparian strip membrane protein is higher in absorbing roots than that in the extensive roots or conducting roots.
The expression level of Xyloglucan endotransglucosylase/hydrolase (XTH) gene is higher in extensive roots than that in conducting roots.
In addition, the expression levels of many extension genes are higher in extensive roots than those in absorbing roots or conducting roots.
The expression level of genes producing heat shock protein, a sugar transport protein, and pectate lyase is higher in conducting roots than that in the extensive roots or absorbing roots.
The difference between these genes expressions coincides with the functions and growth characteristics of these three types of roots.
Annual roots are divided into absorbing roots, extensive roots and conductive root by function.
Transcriptome analysis of the annual roots of Malus hupehensis Rehd. was performed using Illumina HisSeq 2500 RNA-seq. 52217996 clean reads were obtained after filtering, which contained 10.54G Base in total. 54 396 unigenes were generated after assembling original reads.
The unigenes were further blasted using the BLAST and BLAST2GO software in Nr, Swiss-Prot, GO, COG and KEGG database for homology comparison. 31530 unigenes were found to be homologous with the genes in these databases and accounted for 57.96% of the total unigenes.
There are significant differences among the expression level of a large number of genes of the absorbing roots, extensive roots, and conductive roots.
It shows that the expression level of genes producing Ammonium transporters protein, Subtilisin-like protease, aquaporin protein, and casparian strip membrane protein is higher in absorbing roots than that in the extensive roots or conducting roots.
The expression level of Xyloglucan endotransglucosylase/hydrolase (XTH) gene is higher in extensive roots than that in conducting roots.
In addition, the expression levels of many extension genes are higher in extensive roots than those in absorbing roots or conducting roots.
The expression level of genes producing heat shock protein, a sugar transport protein, and pectate lyase is higher in conducting roots than that in the extensive roots or absorbing roots.
The difference between these genes expressions coincides with the functions and growth characteristics of these three types of roots.
Authors
Chunran Zhou, Weiwei Zhang, Hongqiang Yang
Keywords
roots, Malus hupehensis, RNA-Seq, transcriptome
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