Long non-coding genes implicated in response to stripe rust pathogen stress in wheat (Triticum aestivum L.)

Abstract

The non-protein-coding genes have been reported as a critical control role in the regulation of gene expression in abiotic stress. We previously identified four expressed sequence tags numbered S18 (EL773024), S73 (EL773035), S106 (EL773041) and S108 (EL773042) from a SSH-cDNA library of bread wheat Shaanmai 139 infected with Puccinia striiformis f. sp. tritici (Pst). Here, we isolated four cDNA clones and referred them as TalncRNA18, TalncRNA73, TalncRNA106 and TalncRNA108 (GenBank: KC549675-KC549678). These cDNA separately consisted of 1,393, 667, 449 and 647 nucleotides but without any open reading frame. The alignment result showed that TalncRNA18 is a partial cDNA of E3 ubiquitin-protein ligase UPL1-like gene, TalncRNA73 is an antisense transcript of hypothetical protein, TalncRNA108 is a homolog to RRNA intron-encoded homing endonuclease, and lncRNA106 had no similarly sequence. Quantitative RT-PCR studies confirmed that these four lncRNAs were differentially expressed in three near isogenic lines. TalncRNA108 was significantly stepwise decreased at early stage of inoculation with Pst, while the others were upregulated, especially at 1 and 3 dpi (days post-inoculation). Using Chinese Spring nulli-tetrasomic lines and its ditelosomic lines, TalncRNA73 and TalncRNA108 were located to wheat chromosome 7A and the short arm of chromosome 4B, respectively, while TalncRNA18 and TalncRNA106 were located to chromosome 5B. Comparing the sequence of DNA and cDNA of four lncRNAs with polymerase chain reaction primers, the results showed that all of them have no introns. The kinetics analyses of lncRNAs expression as a result of pathogen challenge in immune resistant genotype indicated that they may play the roles of modulating or silencing the protein-coding gene into pathogen-defence response.

Battles and hijacks: noncoding transcription in plants

“…Many of these potential lncRNAs shared structural similarities to known lncRNAs, and they clearly differed from protein-coding genes and non-transcribed regions in their sequence composition as well as in potential secondary structure [15]. Based on expressed sequence tag (EST) databases of wheat infected by Puccinia striiformis (Pst), three lincRNAs and one lncNAT cDNAs were isolated and shown to be differentially expressed in three near-isogenic lines after Pst inoculation, suggesting their participation in pathogen-defense responses [16].…”

Comparative transcriptome analysis between resistant and susceptible tomato allows the identification of lncRNA16397 conferring resistance to Phytophthora infestans by co‐expressing glutaredoxin

“…In studies on plant–pathogen interactions, the expression levels of four lncRNAs from wheat Triticum aestivum L. have been shown to change differentially upon inoculation with Puccinia striiformis f. sp. Tritici (Zhang et al ., ). In tomato–TYLCV interaction, it was found that tomato lncRNA Slylnc0195 might function as a competing endogenous RNA by biding to miR166 via target mimicry to protect its targets, class III HD‐Zip transcription factor genes (Wang et al ., ).…”

PeTMbase: A Database of Plant Endogenous Target Mimics (eTMs)

“…Target mimics, also described as miRNA decoys, sponges or competing endogenous RNAs (ceRNAs), are generally belonged to long non-coding RNA (lncRNA) class [8]. LncRNAs are RNA transcripts that are longer than 200 nt in length and lack open reading frame [9].…”