Genome-wide analysis of the potato Hsp20 gene family: identification, genomic organization and expression profiles in response to heat stress

Abstract

BackgroundHeat shock proteins (Hsps) are essential components in plant tolerance mechanism under various abiotic stresses. Hsp20 is the major family of heat shock proteins, but little of Hsp20 family is known in potato (Solanum tuberosum), which is an important vegetable crop that is thermosensitive.ResultsTo reveal the mechanisms of potato Hsp20s coping with abiotic stresses, analyses of the potato Hsp20 gene family were conducted using bioinformatics-based methods. In total, 48 putative potato Hsp20 genes (StHsp20s) were identified and named according to their chromosomal locations. A sequence analysis revealed that most StHsp20 genes (89.6%) possessed no, or only one, intron. A phylogenetic analysis indicated that all of the StHsp20 genes, except 10, were grouped into 12 subfamilies. The 48 StHsp20 genes were randomly distributed on 12 chromosomes. Nineteen tandem duplicated StHsp20s and one pair of segmental duplicated genes (StHsp20-15 and StHsp20-48) were identified. A cis-element analysis inferred that StHsp20s, except for StHsp20-41, possessed at least one stress response cis-element. A heatmap of the StHsp20 gene family showed that the genes, except for StHsp20-2 and StHsp20-45, were expressed in various tissues and organs. Real-time quantitative PCR was used to detect the expression level of StHsp20 genes and demonstrated that the genes responded to multiple abiotic stresses, such as heat, salt or drought stress. The relative expression levels of 14 StHsp20 genes (StHsp20-4, 6, 7, 9, 20, 21, 33, 34, 35, 37, 41, 43, 44 and 46) were significantly up-regulated (more than 100-fold) under heat stress.ConclusionsThese results provide valuable information for clarifying the evolutionary relationship of the StHsp20 family and in aiding functional characterization of StHsp20 genes in further research.Electronic supplementary materialThe online version of this article (dio: 10.1186/s12864-018-4443-1) contains supplementary material, which is available to authorized users.

Characterization of the Gh4CL gene family reveals a role of Gh4CL7 in drought tolerance

“…Gene structure analysis showed that Gh4CL genes of the same class share a similar intron-exon structure (Fig. 2b), similar to the observations made in other gene families [40,41].…”

Genome-wide identification of small heat shock protein (HSP20) gene family in grape and expression profile during berry development

“…Under high temperature, HSP20s are activated or increased [51]. In our study, the expression levels of most HSP20s were down-regulated during fruit development after H 2 O 2 treatment ( Fig.…”

“…Thus, potential duplication events of VvHsp20 genes were analyzed. In total, four groups of VvHsp20 genes (VvHsp20-2, 3; VvHsp20-4, 5,6,7,8,9,10,11;24,25,26,27,28,29,30,31,32,33,35,[36][37][38][39][40][41][42][43][44][45][46][47]48) were identified as tandem duplication genes (Additional file 1: Figure S1). Furthermore, none of the genes were suggested to be products of segmental duplication.…”

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WITHDRAWN: Physiological and molecular changes to short and prolonged heat in highlands China potato genotype

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