Mining sequences with similarity to XTH genes in the Solanum tuberosum L. transcriptome: introductory step for identifying homologous XTH genes

Plant Signal Behav. 2020 Oct 2;15(10):1797294. doi: 10.1080/15592324.2020.1797294. Epub 2020 Jul 30.

Abstract

The xyloglucan endotransglucosylase/hydrolase (XTH) genes in Arabidopsis thaliana (L.) Heynh. form part of a group of mechano-stimulated genes and play an important role in abiotic stress tolerance. Mining the RNAseq transcriptomic database of 40,430 potato (Solanum tuberosum L.) genes based on functional annotation and homology search, our objective was to discover potentially homologous XTH genes. A Gene Ontology-based XTH homology search and functional annotation discovered, from among the 33 A. thaliana (AtXTH) and 25 tomato (Solanum lycopersicum L.) (SlXTH) XTH genes, 35 gene sequences corresponding to 20 AtXTH genes and 40 gene sequences corresponding to 21 SlXTH genes, respectively. Thirteen sequences corresponding to 11 putative XTH genes in potato, named as StXTH after SlXTH genes, were significantly up- or down-regulated in response to ultrasound. These putative StXTH genes in potato can serve for future functional genetic analyses.

Keywords: Abiotic stress; mechanostimulus; potato; putative homology; transcriptome; ultrasound; xyloglucan endotransglucosylase/hydrolase.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Gene Ontology
  • Glycosyltransferases / genetics
  • Glycosyltransferases / metabolism
  • Solanum tuberosum / genetics
  • Solanum tuberosum / metabolism*
  • Stress, Physiological / genetics
  • Stress, Physiological / physiology
  • Transcriptome / genetics*

Substances

  • Glycosyltransferases
  • xyloglucan - xyloglucosyltransferase

Grants and funding

This work was supported by the Higher Education Institutional Excellence Programme of the Ministry of Innovation and Technology in Hungary [NKFIH-1150-6/2019].