Proteomic analysis of acidic chaperones, and stress proteins in extreme halophile Halobacterium NRC-1: a comparative proteomic approach to study heat shock response

Shukla, Hem D.

doi:10.1186/1477-5956-4-6

Cited by 35 publications

(21 citation statements)

References 51 publications

(62 reference statements)

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“…Forty‐four proteins were detected in another study as being differentially expressed in response to changing salt concentrations; 18 of these were identified by MS analysis, among them the stress response protein PspA. Similarly, a 2DE study identified heat shock proteins in Halobacterium . Recently, several large scale quantitative proteome analyses of archaeal organisms have been published, for example, in Halobacterium salinarum .…”

Section: Introductionmentioning

confidence: 99%

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

et al. 2019

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In-depth proteome analysis of the haloarchaeal model organism Haloferax volcanii has been performed under standard, low/high salt, and low/high temperature conditions using label-free mass spectrometry. Qualitative analysis of protein identification data from high-pH/reversed-phase fractionated samples indicates 61.1% proteome coverage (2509 proteins), which is close to the maximum recorded values in archaea. Identified proteins match to the predicted proteome in their physicochemical properties, with only a small bias against low-molecular-weight and membrane-associated proteins. Cells grown under low and high salt stress as well as low and high temperature stress are quantitatively compared to standard cultures by sequential window acquisition of all theoretical mass spectra (SWATH-MS). A total of 2244 proteins, or 54.7% of the predicted proteome, are quantified across all conditions at high reproducibility, which allowed for global analysis of protein expression changes under these stresses. Of these, 2034 are significantly regulated under at least one stress condition. KEGG pathway enrichment analysis shows that several major cellular pathways are part of H. volcanii's universal stress response. In addition, specific pathways (purine, cobalamin, and tryptophan) are affected by temperature stress. The most strongly downregulated proteins under all stress conditions, zinc finger protein HVO_2753 and ribosomal protein S14, are found oppositely regulated to their immediate genetic neighbors from the same operon.

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Section: Introductionmentioning

confidence: 99%

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

et al. 2019

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“…Cho and his group [21] studied 2-DE electrophoresis of Halobacterium salinarum by IPG strips and they obtained poor resolution with IPG strips. Shukla [22] studied Halobacterium NRC-I also with the 2-DE IPG strip technique and modified the 2-DE procedure in order to improve resolution and to minimize streaking of proteins in the acidic range. He also noted that the common unmodified 2-DE procedure resulted in horizontal and vertical streaking at the high MW range.…”

Section: Resultsmentioning

confidence: 99%

Comparison of Protein Expression Profiles of Novel Halomonas smyrnensis AAD6T and Halomonas salina DSMZ 5928T

Dilgimen¹,

Arğa²,

Erdmann³

et al. 2014

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In this work, the protein pattern of novel Halomonas smyrnensis AAD6 T was compared to that of Halomonas salina DSMZ5928 T , which is the closest species on the basis of 16S rRNA sequence, to understand how AAD6 T differs from type strains. Using high resolution NEPHEGE technique, the whole cell protein composition patterns of both Halomonas salina DSMZ5928 T and H. smyrnensis AAD6 T were mapped. The expressed proteins of the two microorganisms were mostly located at the acidic side of the gels, at molecular weight values of 60 to 17 kDa, and at isoelectric points 3.8 to 6.0, where they share a significant number of common protein spots. Identification and characterization of protein spots via whole genome sequencing data indicated that these two microorganisms used similar pathways, especially TCA cycle, for their survival; in other words, for their energy requirements. On the other hand, the protein expression differences in AAD6 T and H. salina DSMZ 5928 T showed that they prefer different metabolic pathways for lipid biosynthesis and in adaptation to extreme environments. Thus, we suggested that phylogenetic dissimilarities between these microorganisms could be related to the protein expression differences; in other words, metabolic flux differences in AAD6 T and H. salina DSMZ 5928 T . This is the first study to explain the dissimilarities of phenotypic characters and DNA-DNA hybridization between type strain and novel strain AAD6 T by using protein expression differences.

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“…Ribosomal protein genes responding to low-temperature stress are common in plants, such as rps27ae, rphs6, kog3491, and L23A (Shukla 2006;Lang 2005;McIntosh and Bonham-Smith 2005). In soybean, gmrps13, gmrps6, and gmrps37 have been reported to enhance translation under low-temperature conditions, and may have different functions in metabolic processes (Kim et al 2004).…”

Section: Analysis Of Sol34mentioning

confidence: 97%

Overexpression of Soybean (Glycine max (L.) Meer.) L34 Gene Leads to Reduced Survival to Cold Stress in Transgenic Arabidopsis

Cheng

Yang

et al. 2009

Plant Mol Biol Rep

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A ribosomal protein (R-protein) L34-like gene, designated as SOL34, was isolated from soybean using a cDNA-amplified fragment length polymorphism (cDNA-AFLP) approach. The full-length cDNA sequence of SOL34 was 360 bp, and encoding a protein with a calculated molecular mass of 132 kD. When compared to 60S ribosomal L34 proteins in Genbank using the blastp tool, the SOL34 had 95%, 95%, and 90% amino-acid-sequence identity with those in Medicago truncatula (gi|113205273|), Solanum demissum (gi|48057670|), and Arabidopsis thaliana (gi|2500376|), respectively. Accumulation of the transcriptional product in root tips at the four-leaf stage was about two-or fivefold higher than that of the embryonic axis and leaf. At the same time, SOL34 was responsive to low temperature, and demonstrated enhanced transcriptional levels in embryonic axes imbibed at 4°C for 12 h. However, these characteristics of SOL34 gene expression induced by low temperature were detected only in root tips and embryonic axes, but not in leaves. The SOL34 gene was then transferred into Arabidopsis in both sense and antisense orientations, under the control of the cauliflower mosaic virus (CaMV) 35S promoter for functional analysis. Transgenic plants overexpressing SOL34 were more sensitive to cold stress than wild-type plants; while transgenic plants carrying the antisense construct exhibited higher levels of resistance to freezing temperature than control plants. This suggested that SOL34 might play a 'negative' role in metabolic processes for adaptation of seeds to lowtemperature stress during imbibition.

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Proteomic analysis of acidic chaperones, and stress proteins in extreme halophile Halobacterium NRC-1: a comparative proteomic approach to study heat shock response

Cited by 35 publications

References 51 publications

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

Comparison of Protein Expression Profiles of Novel <i>Halomonas smyrnensis</i> AAD6<sup>T</sup> and <i>Halomonas salina</i> DSMZ 5928<sup>T</sup>

Overexpression of Soybean (Glycine max (L.) Meer.) L34 Gene Leads to Reduced Survival to Cold Stress in Transgenic Arabidopsis

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Proteomic analysis of acidic chaperones, and stress proteins in extreme halophile Halobacterium NRC-1: a comparative proteomic approach to study heat shock response

Cited by 35 publications

References 51 publications

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label‐Free Mass Spectrometry

Comparison of Protein Expression Profiles of Novel &lt;i&gt;Halomonas smyrnensis&lt;/i&gt; AAD6&lt;sup&gt;T&lt;/sup&gt; and &lt;i&gt;Halomonas salina&lt;/i&gt; DSMZ 5928&lt;sup&gt;T&lt;/sup&gt;

Overexpression of Soybean (Glycine max (L.) Meer.) L34 Gene Leads to Reduced Survival to Cold Stress in Transgenic Arabidopsis

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Comparison of Protein Expression Profiles of Novel <i>Halomonas smyrnensis</i> AAD6<sup>T</sup> and <i>Halomonas salina</i> DSMZ 5928<sup>T</sup>