Transcriptome analysis of crown gall in radish (Raphanus sativus L.) inbred lines

Abstract

Studying aberrations of normal developmental processes like plant tumour initiation provides a great opportunity for understanding of systemic control of plant cells differentiation. Most well-studied example of plant tumour is the crown gall caused by Agrobacterium tumefaciens; much less studied are spontaneous tumours developing in plants with certain genotype, regardless of agrobacterial infection. In the present study, we used RNA-seq to analyse the changes in gene expression at the early stages of development of A. tumefaciens-induced tumours in radish seedlings. In our studies we used two closely related radish inbred lines contrasting in their ability to form spontaneous tumours. RNA-seq and qPCR analysis showed significant changes in the expression levels for numerous genes involved in different metabolic and developmental processes, and Gene Ontology analysis indicated many biological processes probably involved in the crown gall development in radish. For example, a unique result of our research is upregulation of genes related to photomorphogenesis and downregulation of senescence-associated genes in the young crown gall tumours. Differences in gene expression between the analysed radish lines included upregulation of pathways related to chromatin remodelling and protein targeting to chloroplast in the tumorous line along with downregulation of pathways of chaperone-mediated complex assembly and anthocyanin biosynthesis.

Raphanus sativus L. and its determination of planting dates based on seed germination in different ecological environments of Uzbekistan

“…Radish is low in calories and rich in calcium, magnesium, copper, manganese, potassium, vitamin B6, and vitamin C [22]. Radish extract is used to treat several organ disorders [23]. Radish can be used in the treatment of hypertension and carbonic acidosis [24].…”

“…Some scientists found that the iron content of Raphanus sativus leaves is two to three times more than that of the root system. In the research of Hussain, the effect of small magnesium particles and lead on Raphanus sativus was studied in vitro on seed germination and phenological factors [22][23][24]. Analyzing the species Raphanus sativus L., radish and daikon belong to the cabbage family.…”

Genome-wide identification of sugar transporter gene family in Brassicaceae crops and an expression analysis in the radish

“…The RsSTP expression profiles of different tissues (root, leaf, bolting, flower, silique and callus), their response to heavy metals (cadmium, chromium and lead) and Agrobacterium tumefaciens infection were analysed based on public transcriptome data [ 30 , 54 – 57 ]. The fragments per kilobase of transcript per million mapped reads (FPKM) data were log 2 transformed, and a heatmap was created using TBtools [ 52 ].…”