Exploring the role of the histidine biosynthetic hisF gene in cellular metabolism and in the evolution of (ancestral) genes: from LUCA to the extant (micro)organisms

Chioccioli, Sofia; Duca, Sara Del; Vassallo, Alberto; Castronovo, Lara Mitia; Fani, Renato

doi:10.1016/j.micres.2020.126555

Cited by 15 publications

(7 citation statements)

References 62 publications

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“…Histidine biosynthesis plays an important role in cell metabolism, related to nitrogen metabolism and de novo purine synthesis. This interconnection is due to the reaction catalyzed by the products of his gene cluster (Chioccioli et al 2020). In this study, hub gene hisG (ATP phosphoribosyltransferase) and hisD (histidinol dehydrogenase) were involved in the first and last two steps of the histidine synthesis pathway (Fig.…”

Section: Amino Acidsmentioning

confidence: 71%

Comprehensive evaluation and analysis of the salinity stress response mechanisms based on transcriptome and metabolome of Staphylococcus aureus

et al. 2021

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Staphylococcus aureus possesses an extraordinary ability to deal with a wide range of osmotic pressure. This study performed transcriptomic and metabolomic analyses on the potential mechanism of gradient salinity stress adaptation in S. aureus ZS01. The results revealed that CPS biosynthetic protein genes were candidate target genes for directly regulating the phenotypic changes of biofilm. Inositol phosphate metabolism was downregulated to reduce the conversion of functional molecules. The gluconeogenesis pathway and histidine synthesis were downregulated to reduce the production of endogenous glucose. The pyruvate metabolism pathway was upregulated to promote the accumulation of succinate. TCA cycle metabolism pathway was downregulated to reduce unnecessary energy loss. l-Proline was accumulated to regulate osmotic pressure. Therefore, these self-protection mechanisms can protect cells from hypertonic environments and help them focus on survival. In addition, we identified ten hub genes. The findings will aid in the prevention and treatment strategies of S. aureus infections.

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Section: Amino Acidsmentioning

confidence: 71%

Comprehensive evaluation and analysis of the salinity stress response mechanisms based on transcriptome and metabolome of Staphylococcus aureus

et al. 2021

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“…The biosynthesis of histidine is a well-conserved pathway found across various life forms, with the exception of mammals(76). ATP phosphoribosyltransferase and histidinol dehydrogenase are key enzymes in this pathway, representing the first and the final steps, respectively(77). ATP phosphoribosyltransferase initiates the pathway by condensing 1-(5-phospho-D-ribosyl)-ATP with a diphosphate molecule.…”

Section: Resultsmentioning

confidence: 99%

Bioinformatic analysis of sulfotransferases from an unexplored gut microbe,Sutterella wadsworthensis 3_1_45B: Possible roles towards detoxification via sulfation by the members of the human gut microbiome

Langford,

Shah

2024

Preprint

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Sulfation, primarily facilitated by sulfotransferases, plays a crucial role in the detoxification pathways of both endogenous substances and xenobiotics, enhancing their water solubility and promoting metabolism and elimination. Traditionally, this bioconversion has been attributed to a family of human cytosolic sulfotransferases (hSULTs) known for their high sequence similarity and dependence on 3'-phosphoadenosine 5'-phosphosulfate (PAPS) as a sulfate donor. However, recent studies have revealed the presence of PAPS-dependent sulfotransferases within gut commensals, indicating that the gut microbiome may harbor a diverse array of sulfotransferase enzymes and may contribute to detoxification processes via sulfation. In this study, we investigated the prevalence of sulfotransferases in the members of the human gut microbiome. Interestingly, we stumbled upon a different class of sulfotransferases, known as aryl-sulfate sulfotransferases (ASSTs). ASSTs have been characterized from a few different prokaryotes includingE. coli. ASSTs do not utilize PAPS which is the default sulfate donor for the human sulfotransferases. Our bioinformatics analyses revealed that the gut microbial genusSutterellapossesses a significant number ofasstgenes, possibly encoding multiple ASST enzymes. Fluctuations in the microbes of the genusSutterellahave been associated with various health conditions. For this reason, we characterized 17 different ASSTs fromSutterella wadsworthensis 3_1_45Bwith bioinformatics. Our findings reveal thatSwASSTs share similarities withE. coliASST but also exhibit significant structural variations and sequence diversity. These differences might drive potential functional diversification and likely reflect an evolutionary divergence from their PAPS-dependent counterparts.

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“…Histidine is the α-amino β-imidazolyl propionic acid of the eight-gene operon his-GDC[NB]HAF[IE] [97]. The HisF gene encodes a cyclase that forms a heterodimer holoenzyme imidazole glycerol phosphate synthase (IGPS) with HisH (a transglutaminase), and this enzyme connects three different biological pathways, namely nitrogen metabolism, histidine biosynthesis, and the de novo synthesis of purines [98,99].…”

Section: Discussionmentioning

confidence: 99%

Understanding the Effect of Different Glucose Concentrations in the Oligotrophic Bacterium Bacillus subtilis BS-G1 through Transcriptomics Analysis

Chen,

Wang,

2023

Microorganisms

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Glucose is an important carbon source for microbial growth, and its content in infertile soils is essential for the growth of bacteria. Since the mechanism of oligotrophic bacterium adaptation in barren soils is unclear, this research employed RNA-seq technology to examine the impact of glucose concentration on the oligotrophic bacterium B. subtilis BS-G1 in soil affected by desertification. A global transcriptome analysis (RNA-Seq) revealed that the significantly differentially expressed genes (DEGs) histidine metabolism, glutamate synthesis, the HIF-1 signaling pathway, sporulation, and the TCA cycle pathway of B. subtilis BS-G1 were significantly enriched with a 0.015 g/L glucose concentration (L group), compared to a 10 g/L glucose concentration (H group). The DEGs amino acid system, two-component system, metal ion transport, and nitrogen metabolism system of B. subtilis BS-G1 were significantly enriched in the 5 g/L glucose concentration (M group), compared with the H group. In addition, the present study identified the regulation pattern and key genes under a low-glucose environment (7 mRNAs and 16 sRNAs). This study primarily investigates the variances in the regulatory pathways of the oligotrophic B. subtilis BS-G1, which holds substantial importance in comprehending the mechanism underlying the limited sugar tolerance of oligotrophic bacteria.

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Exploring the role of the histidine biosynthetic hisF gene in cellular metabolism and in the evolution of (ancestral) genes: from LUCA to the extant (micro)organisms

Cited by 15 publications

References 62 publications

Comprehensive evaluation and analysis of the salinity stress response mechanisms based on transcriptome and metabolome of Staphylococcus aureus

Comprehensive evaluation and analysis of the salinity stress response mechanisms based on transcriptome and metabolome of Staphylococcus aureus

Bioinformatic analysis of sulfotransferases from an unexplored gut microbe,Sutterella wadsworthensis 3_1_45B: Possible roles towards detoxification via sulfation by the members of the human gut microbiome

Understanding the Effect of Different Glucose Concentrations in the Oligotrophic Bacterium Bacillus subtilis BS-G1 through Transcriptomics Analysis

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