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03165-t004){ref-type=”table”}). The pathways included heavy metal detoxification, ABA responsive signaling pathways, glutathione-mediated detoxification, and the ubiquitin mediated proteolysis pathway.

Transcription factor analysis of the DEGs was conducted using online database (Plant Transcription Factor Database, ). Most of the DEGs contained several putative transcription factors, such as bHLH, WRKY, C2C2-GATA, myb, ERF, MADS box, and so on. The possible target genes of these transcription factors were subsequently searched by the PLANT TFsite software () [@pone.0003165-Wang2]. A total of 624 genes were predicted to be regulated by the above transcription factors ([Figure 4](#pone-0003165-g004){ref-type=”fig”}). Moreover, we also found that most of the DEGs (326 genes) had their transcriptional changes induced by salt stress ([Figure 4](#pone-0003165-g004){ref-type=”fig”}).

![Transcription factor analysis.\
The DEGs which contained predicted transcription factor binding sites are presented. The predicted TFs are red in bold and underlined. The asterisks indicate DEGs that have higher expression in *GLP6* overexpressing transgenic lines compared with wild-type under salt stress.](pone.0003165.g004){#pone-0003165-g004}

In addition, 14 stress-associated genes including: *TaHSFB1*, a heat shock transcription factor of wheat encoding the ATP-dependent DNA helicase in programmed cell death of elongating pollen [@pone.0003165-

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