Transcriptomic and Ectoine Analysis of Halotolerant Nocardiopsis gilva YIM 90087T Under Salt Stress

Han, Jian; Gao, Quanxiu; Zhang, Yongguang; Li, Li; Mohamad, Osama Abdalla Abdelshafy; Rao, Manik Prabhu Narsing; Xiao, Min; Hozzein, Wael N.; Alkhalifah, Dalal Hussien M.; Tao, Yong; Li, Wenjun

doi:10.3389/fmicb.2018.00618

Cited by 27 publications

(18 citation statements)

References 44 publications

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“…The genetic organization of the ectABC operon from the strain is in canonical arrangement (Schwibbert et al 2011;Widderich et al 2014Widderich et al , 2016) as all genes were located in the same cluster. The presence and the arrangement of these fourth genes in an operon is also found in some other halophilic bacteria such as the industrial strain H. elongata, C. salexigens, and Streptomyces coelicolor (Han et al 2018). However, a different genetic organization of the ectABCD genes in the genome sequence of P. halophilum was observed.…”

Section: Discussionmentioning

confidence: 65%

Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817T reveals genes involved in flux-tuning of ectoines and unexplored bioactive secondary metabolites

Frikha-Dammak

Ayadi

Hakim-Rekik

et al. 2021

World J Microbiol Biotechnol

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Paludi lum halophilum is the rst member of the genus Paludi lum in the Thermoactinomycetaceae family. The thermohalophilic bacterium was isoated from the solar saltern of Sfax, in Tunisia and was shown to be able to produce ectoines in relatively high-yield and cope with salt stress conditions. In this study, the whole genome of P. halophilum was sequenced and analysed. Analysis revealed 3,789,765 base pairs with average GC % content of 51.5%. A total of 3,775 genes were predicted of which 3616 were protein-coding genes and 73 were RNA genes. The genes encoding key enzymes for ectoines synthesis were identi ed from the bacterial genome next to a gene cluster (ehuABCD) encoding a bindingprotein-dependent ABC transport system responsible for ectoines mobility through the cell membrane.With the aid of KEGG analysis, we found that the central catabolic network of P. halophilum comprises the pathways of glycolysis, tricarboxylic acid (TCA) cycle, and pentose phosphate pathway (PPP). In addition, anaplerotic pathways replenishing oxaloacetate and glutamate synthesis from central metabolism, both needed for high ectoines biosynthetic uxes were identi ed through several key enzymes. Furthermore, a total of 18 antiSMASH-predicted putative biosynthetic gene clusters (BGCs) for secondary metabolites with high novelty and diversity were identi ed in P. halophilum genome, including biosynthesis of Colabomycine-A, Fusaricidin-E, Zwittermycin A, Streptomycin, Mycosubtilin and Meilingmycin. Based on these data, P. halophilum emerged as a promising source for ectoines and antimicrobials with the potential to be scaled up for industrial production, which could bene t the pharmaceutical and cosmetic industries.

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Section: Discussionmentioning

confidence: 65%

Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817T reveals genes involved in flux-tuning of ectoines and unexplored bioactive secondary metabolites

Frikha-Dammak

Ayadi

Hakim-Rekik

et al. 2021

World J Microbiol Biotechnol

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“…Ectoine is a widely distributed solute in different halophilic and halotolerant microorganisms, produced in response to osmotic stress and functions as a potent protector of osmostress [ 66 , 67 ]. Ectoine improve protein folding and protects biomolecules such as enzymes, nucleic acids, and even whole cells against various stress conditions [ 68 ]. These multifunctional effects have fostered the development of a wide range of skincare and dermatological cosmetic preparations as moisturizers in cosmetics for the care of aged, dry or irritated skin [ 69 , 70 ].…”

Section: Resultsmentioning

confidence: 99%

Mining the Yucatan Coastal Microbiome for the Identification of Non-Ribosomal Peptides Synthetase (NRPS) Genes

Martínez-Núñez

Rodríguez-Escamilla

2020

Toxins

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Prokaryotes represent a source of both biotechnological and pharmaceutical molecules of importance, such as nonribosomal peptides (NRPs). NRPs are secondary metabolites which their synthesis is independent of ribosomes. Traditionally, obtaining NRPs had focused on organisms from terrestrial environments, but in recent years marine and coastal environments have emerged as an important source for the search and obtaining of nonribosomal compounds. In this study, we carried out a metataxonomic analysis of sediment of the coast of Yucatan in order to evaluate the potential of the microbial communities to contain bacteria involved in the synthesis of NRPs in two sites: one contaminated and the other conserved. As well as a metatranscriptomic analysis to discover nonribosomal peptide synthetases (NRPSs) genes. We found that the phyla with the highest representation of NRPs producing organisms were the Proteobacteria and Firmicutes present in the sediments of the conserved site. Similarly, the metatranscriptomic analysis showed that 52% of the sequences identified as catalytic domains of NRPSs were found in the conserved site sample, mostly (82%) belonging to Proteobacteria and Firmicutes; while the representation of Actinobacteria traditionally described as the major producers of secondary metabolites was low. It is important to highlight the prediction of metabolic pathways for siderophores production, as well as the identification of NRPS’s condensation domain in organisms of the Archaea domain. Because this opens the possibility to the search for new nonribosomal structures in these organisms. This is the first mining study using high throughput sequencing technologies conducted in the sediments of the Yucatan coast to search for bacteria producing NRPs, and genes that encode NRPSs enzymes.

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“…Together, these results imply that NaCl stress is a key regulator for synthesis and accumulation of ectoine and hydroxyectoine. The ectABCD genes, related to ectoines synthesis in many halophilic strains, as H. elongata or Nicardiopsis gilva, present different degrees of transcriptional regulation in the range from 5 to 15% NaCl concentration, particularly at 15% (He et al 2015;Han et al 2018).…”

Section: Discussionmentioning

confidence: 99%

The saltern-derived Paludifilum halophilum DSM 102817T is a new high-yield ectoines producer in minimal medium and under salt stress conditions

et al. 2020

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In the present study, the growth conditions and accumulation of ectoines (ectoine and hydroxyectoine) by Paludifilum halophilum DSM 102817 T under salt stress conditions have been investigated. The productivity assay of this strain for ectoines revealed that the highest cellular content was reached in the minimal glucose sea water medium (SW-15) within 15% salinity. The addition of 0.1% (w/v) aspartic acid to the medium allowed an average of four times higher biomass production, and a dry mycelial biomass of 1.76 g L −1 was obtained after 6 days of growth in shake flasks at 40 °C and 200 rpm. Among the inorganic cations supplemented to the glucose SW-15 medium, the addition of 1 mM Fe 2+ yielded the highest amount of mycelial biomass (3.45 g L −1 ) and total ectoines content (119 mg g −1 ), resulting in about 410 mg L −1 of products at the end of exponential growth phase. After 1 h of incubation in an osmotic downshock solution containing 2% NaCl, 70% of this content was released by the mycelium, and recovering cells maintained a high survival, with a maximal growth rate (µ max ) of about 93% of the control population exposed to 15% NaCl. During growth at optimal salinity and temperature (15% NaCl and 40 °C), P. halophilum developed a compact and circular pellets that were easy to separate by simple decantation from both fermentation media and after hypoosmotic shock. Overall, the ectoines excreting P. halophilum could be a promising resource for ectoines production in a commercially valuable culture medium and at a large-scale fermentation process.

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Transcriptomic and Ectoine Analysis of Halotolerant Nocardiopsis gilva YIM 90087T Under Salt Stress

Cited by 27 publications

References 44 publications

Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817T reveals genes involved in flux-tuning of ectoines and unexplored bioactive secondary metabolites

Genome analysis of the salt-resistant Paludifilum halophilum DSM 102817T reveals genes involved in flux-tuning of ectoines and unexplored bioactive secondary metabolites

Mining the Yucatan Coastal Microbiome for the Identification of Non-Ribosomal Peptides Synthetase (NRPS) Genes

The saltern-derived Paludifilum halophilum DSM 102817T is a new high-yield ectoines producer in minimal medium and under salt stress conditions

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