The RadioP1 – An Integrative Web Resource for Radioresistant Prokaryotes

Hamda, Cherif Ben; Benkahla, Alia; Ben-Miled, S; Ouled-Haddar, H; Montero‐Calasanz, Maria del Carmen; Gtari, Maher; Chérif, Ameur; Hofner, Benjamin; Ghedira, Kaïs; Sghaier, Haïtham

doi:10.5772/60471

Cited by 5 publications

(5 citation statements)

References 99 publications

(105 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The influence of ionizing radiation in relatively low doses on different organisms has been studied for a long time, and radiobiology generalizes and continues to accumulate experience of such studies [11][12][13]. Nevertheless, to plan and conduct astrobiological planetary studies, it is necessary to evaluate the effect of high doses of various components of cosmic radiation on microorganisms adapted to a native habitat [6][7][8][9][10].…”

Section: Introductionmentioning

confidence: 99%

Survivability of Soil and Permafrost Microbial Communities after Irradiation with Accelerated Electrons under Simulated Martian and Open Space Conditions

et al. 2018

View full text Add to dashboard Cite

Abstract:One of the prior current astrobiological tasks is revealing the limits of microbial resistance to extraterrestrial conditions. Much attention is paid to ionizing radiation, since it can prevent the preservation and spread of life outside the Earth. The aim of this research was to study the impact of accelerated electrons (~1 MeV) as component of space radiation on microbial communities in their natural habitat-the arid soil and ancient permafrost, and also on the pure bacterial cultures that were isolated from these ecotopes. The irradiation was carried out at low pressure (~0.01 Torr) and low temperature (−130 • C) to simulate the conditions of Mars or outer space. High doses of 10 kGy and 100 kGy were used to assess the effect of dose accumulation in inactive and hypometabolic cells, depending on environmental conditions under long-term irradiation estimated on a geological time scale. It was shown that irradiation with accelerated electrons in the applied doses did not sterilize native samples from Earth extreme habitats. The data obtained suggests that viable Earth-like microorganisms can be preserved in the anabiotic state for at least 1.3 and 20 million years in the regolith of modern Mars in the shallow subsurface layer and at a 5 m depth, respectively. In addition, the results of the study indicate the possibility of maintaining terrestrial like life in the ice of Europa at a 10 cm depth for at least~170 years or for at least 400 thousand years in open space within meteorites. It is established that bacteria in natural habitat has a much higher resistance to in situ irradiation with accelerated electrons when compared to their stability in pure isolated cultures. Thanks to the protective properties of the heterophase environment and the interaction between microbial populations even radiosensitive microorganisms as members of the native microbial communities are able to withstand very high doses of ionizing radiation.

show abstract

Section: Introductionmentioning

confidence: 99%

Survivability of Soil and Permafrost Microbial Communities after Irradiation with Accelerated Electrons under Simulated Martian and Open Space Conditions

et al. 2018

View full text Add to dashboard Cite

show abstract

“…After incubation, the absorbance in each well was measured, including blanks, at 570 nm using a microtiter plate reader (Shimadzu, UV-1800). The value of D 10 (kGy), which is the dose necessary for a 90% reduction in Colony Forming Units, was also calculated via RadioP1 (www.radio p.org.tn) (Benhamda et al 2015) based on our experimental survival data.…”

Section: Growth Under Extreme Conditionsmentioning

confidence: 99%

Draft genome sequence of Promicromonospora panici sp. nov., a novel ionizing-radiation-resistant actinobacterium isolated from roots of the desert plant Panicum turgidum

et al. 2020

Self Cite

View full text Add to dashboard Cite

A novel strain of the genus Promicromonospora, designated PT9 T , was recovered from irradiated roots of the xerophyte Panicum turgidum collected from the Ksar Ghilane oasis in southern Tunisia. Strain PT9 T is aerobic, non-spore-forming, Gram-positive actinomycete that produces branched hyphae and forms white to yellowish-white colonies. Chemotaxonomic features, including fatty acids, whole cell sugars and polar lipid profiles, support the assignment of PT9 T to the genus Promicromonospora. The genomic relatedness indexes based on DNA-DNA hybridization and average nucleotide identity values revealed a significant genomic divergence between strain PT9 T and all sequenced type strains of the taxon. Phylogenomic analysis showed that isolate PT9 T was most closely related to Promicromonospora soli CGMCC 4.7398 T . Phenotypic and phylogenomic analyses suggest that isolate PT9 T represents a novel species of the genus Promicromonospora, for which the name Promicromonospora panici sp. nov. is proposed. The type strain is PT9 T (LMG 31103 T = DSM 108613 T ).The isolate PT9 T is an ionizing-radiation-resistant actinobacterium (D 10 value = 2.6 kGy), with resistance to desiccation and hydrogen peroxide. The complete genome sequence of PT9 T consists of 6,582,650 bps with 71.2% G+C content and 6291 proteincoding sequences. This genome will help to decipher the microbial genetic bases for ionizing-radiation resistance mechanisms including the response to oxidative stress.

show abstract

“…IRRB were previously regrouped in the RadioP database [34]. In Deinococcus geothermalis and D. radiodurans, SLP is among the top 20 predicted highly expressed (PHX) genes; whereas K. radiotolerans and Rubrobacter xylanophilus have no similar genes [50].…”

Section: Automated Computational Pipeline For Identification and Analmentioning

confidence: 99%

“…In an attempt to identify SLP (highlighted in Figures 3 and 4) orthologs in the genomes of IRRB species for which D 10 is known [1,34,51], computational analyses using BLASTP program [52] were performed based on the best reciprocal hits (BRH) approach (e-value threshold ≤ 1e −05 ). While D. radiodurans SLP SlpA has orthologs in related IRRB species, Hpi protein did not show any significant similarity with proteins in other related completely sequenced IRRB using our submentioned approach.…”

Section: Automated Computational Pipeline For Identification and Analmentioning

confidence: 99%

“…Moreover, we introduce an automated computational pipeline adapted for the ease of use for the identification and analyses of SLP structures. The proposed pipeline was applied to completely sequenced genomes of previously known IRRB available in the genomes online database (GOLD) [33] (RadioP) [34]. Accordingly, we suggest prospective applications of IRRB SLPs in nanobiotechnology for bioremediation of hazardous and radioactive wastes.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Insights into Ionizing-Radiation-Resistant Bacteria S-Layer Proteins and Nanobiotechnology for Bioremediation of Hazardous and Radioactive Waste

Ghedira¹,

Othman²,

Saied³

et al. 2016

Management of Hazardous Wastes

Self Cite

View full text Add to dashboard Cite

S-layers are crystalline arrays formed by proteinaceous subunits that cover the outer surface of many different kinds of microorganisms. This "proteinaceous cover" is particularly important in the case of ionizing-radiation-resistant bacteria (IRRB) that might be used in bioremediating hazardous and radioactive wastes (HRW). Despite the exponential growth in the number of comparative studies and solved proteic crystal structures, the proteic networks, diversity, and bioremediation-useful structural properties of IRRB S-layers remain unknown. Here, aided by literature, a tentative model of Deinococcus radiodurans R 1 S-layer proteins (SLPs) and the network of its main constituents were proposed. The domain analysis of this network was performed. Moreover, to show the diversity of IRRB S-layers, comparative genomics and computer modeling experiments were carried out. In addition, using in silico modeling, assisted by previously published data, the outermost exposed segments of D. radiodurans SlpA (surface layer protein A) that were predicted to interact with uranium were mapped. The combination of data and results pointed to various prospective applications of IRRB S-layers in nanobiotechnology for bioremediation of radioactive waste.

show abstract

The RadioP1 – An Integrative Web Resource for Radioresistant Prokaryotes

Cited by 5 publications

References 99 publications

Survivability of Soil and Permafrost Microbial Communities after Irradiation with Accelerated Electrons under Simulated Martian and Open Space Conditions

Survivability of Soil and Permafrost Microbial Communities after Irradiation with Accelerated Electrons under Simulated Martian and Open Space Conditions

Draft genome sequence of Promicromonospora panici sp. nov., a novel ionizing-radiation-resistant actinobacterium isolated from roots of the desert plant Panicum turgidum

Insights into Ionizing-Radiation-Resistant Bacteria S-Layer Proteins and Nanobiotechnology for Bioremediation of Hazardous and Radioactive Waste

Contact Info

Product

Resources

About