Genome-wide identification and expression analysis of HSP90 gene family in Nicotiana tabacum

Abstract

BackgroundHeat shock proteins 90 (HSP90s) are a highly conserved protein family of cellular chaperones widely found in plants; they play a fundamental role in response to biotic and abiotic stresses. The genome-wide analysis of HSP90 gene family has been completed for some species; however, it has been rarely reported for the tobacco HSP90 genes.ResultsIn this study, we systematically conducted genome-wide identification and expression analysis of the tobacco HSP90 gene family, including gene structures, evolutionary relationships, chromosomal locations, conserved domains, and expression patterns. Twenty-one NtHSP90s were identified and classified into eleven categories (NtHSP90–1 to NtHSP90–11) based on phylogenetic analysis. The conserved structures and motifs of NtHSP90 proteins in the same subfamily were highly consistent. Most NtHSP90 proteins contained the ATPase domain, which was closely related to conserved motif 2. Motif 5 was a low complexity sequence and had the function of signal peptide. At least 6 pairs of NtHSP90 genes underwent gene duplication, which arose from segment duplication and tandem duplication events. Phylogenetic analysis showed that most species expanded according to their own species-specific approach during the evolution of HSP90s. Dynamic expression analysis indicated that some NtHSP90 genes may play fundamental roles in regulation of abiotic stress response. The expression of NtHSP90–4, NtHSP90–5, and NtHSP90–9 were up-regulated, while NtHSP90–6, and NtHSP90–7 were not induced by ABA, drought, salt, cold and heat stresses. Among the five treatments, NtHSP90s were most strongly induced by heat stress, and weakly activated by ABA treatment. There was a similar response pattern of NtHSP90s under osmotic stress, or extreme temperature stress.ConclusionsThis is the first genome-wide analysis of Hsp90 in N. tabacum. These results indicate that each NtHSP90 member fulfilled distinct functions in response to various abiotic stresses.Electronic supplementary materialThe online version of this article (10.1186/s12863-019-0738-8) contains supplementary material, which is available to authorized users.

Alternative Splicing Diversified the Heat Response and Evolutionary Strategy of Conserved Heat Shock Protein 90s in Hexaploid Wheat (Triticum aestivum L.)

“…The HSP90AAs are highly heat inducible, whereas HSP90ABs are constitutively expressed in Arabidopsis and rice (Yabe et al, 1994;Swindell et al, 2007;Hu et al, 2009). Similar heat response patterns of HSP90s within a subfamily are observed in Populus and allotetraploid tobacco (Zhang et al, 2013;Song et al, 2019). Meanwhile, previous studies also demonstrate the conservation in terms of exon-intron structures and protein motifs of HSP90s within a subfamily during plant evolution (Chen et al, 2006;Xu et al, 2012;Zhang et al, 2017).…”

Genome‐wide analysis of the mouse LIM gene family reveals its roles in regulating pathological cardiac hypertrophy

“…As least twice as many LIM genes have been identified in vertebrates than in invertebrates and fungi, which means that the gene expansion of the LIM family mainly occurs in the late stage of species evolution. This is similar to many other gene families that contain many members, such as bHLH, HSP90 and GAP [25,36–38]. Generally, there was no significant variation in the physicochemical characteristics (pI & MW) between the 30 organisms from different lineages studied herein.…”

HSP90 and co‐chaperones: a multitaskers’ view on plant hormone biology

“…Arabidopsis HSP90.1 and HSP90.3 have furthermore been shown to be differentially expressed during different developmental processes . In contrast, detailed expression studies of the 21 Nicotiana tabacum HSP90 isoforms revealed, that HSP90 isoforms phylogenetically clustering with Arabidopsis HSP90.1 are highly stress inducible . In other respects, most studies have not included all four cytoplasmic isoforms in their experimental setups limiting our current understanding on their functional divergence.…”