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Biological Network Analyses of WRKY Transcription Factor Family in Soybean (Glycine max) under Low Phosphorus Treatment

Abstract

WRKY transcription factor (TF) is plant specific genes and play essential roles involved in biotic and abiotic stress tolerance. Gene co-expression network (GCN) analysis is effective tool for the interpretation of transcriptomic data. In this study, a co-expression network of 152 WRKY genes using publicly available microarray data (GSE78242) was constructed under low phosphate (Pi) treatment in soybean (Glycine max). A total of 149 nodes and 641 edges were obtained from CGN and seven seed genes were identified. Particularly, Glyma.19G094100 and Glyma.16G054400 seed genes (orthologue to Arabidopsis WRKY75) were found to have a direct connection to P deficiency. Promotor analyses of seed genes revealed the variations in the number of cis-regulatory elements (CREs) ranging from 80 to 137 with a total of 835 CREs. The methylation profile of Glyma.04G218700 (orthologue to Arabidopsis WRKY51) was found higher than other seed genes. As a result, our findings can be used as a scientific basis to cope with P deficiency in soybean as well as abiotic stress tolerance. In addition, these findings of this study may prove the crop improvement studies in future, especially genetically engineered soybean plants.

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Correspondence to Ertugrul Filiz.

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The authors declare that they have no conflict of interests.

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Kurt, F., Filiz, E. Biological Network Analyses of WRKY Transcription Factor Family in Soybean (Glycine max) under Low Phosphorus Treatment. J. Crop Sci. Biotechnol. 23, 127–136 (2020). https://doi.org/10.1007/s12892-019-0102-0

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Key words

  • Bioinformatics
  • co-expression
  • Glycine max
  • phosphorus
  • WRKY