ABSTRACT
The taxonomic position of strain BMG 8361T, isolated from sandstone collected in the Sahara Desert of Southern Tunisia, was refined through a polyphasic taxonomic investigation. Colonies of BMG 8361T were pale-orange coloured, irregular with a dry surface and produced a diffusible pink or brown pigment depending on media. The Gram-positive cells were catalase-positive and oxidase-negative. The strain exhibited growth at 10-40â°C and pH values ranging from 5.5 to 9.0, with optima at 28-35â°C and pH 6.5-8.0. Additionally, BMG 8361T demonstrated the ability to grow in the presence of up to 1â% NaCl (w/v) concentration. The peptidoglycan of the cell wall contained meso-diaminopimelic acid, glucose, galactose, xylose, ribose, and rhamnose. The predominant menaquinones consisted of MK-9(H4) and MK-9. The main polar lipids were phosphatidylcholine, phosphatidylinositol, glycophosphatidylinositol, diphosphatidylglycerol, phosphatidylethanolamine, and two unidentified lipids. Major cellular fatty acids were iso-C16â:â0, iso-C16â:â1 h, and C17â:â1 ω8c. Phylogenetic analyses based on both the 16S rRNA gene and whole-genome sequences assigned strain BMG 8361T within the genus Blastococcus. The highest pairwise sequence similarity observed in the 16S rRNA gene was 99.5â% with Blastococcus haudaquaticus AT 7-14T. However, when considering digital DNA-DNA hybridization and average nucleotide identity, the highest values, 48.4 and 86.58â%, respectively, were obtained with Blastococcus colisei BMG 822T. These values significantly undershoot the recommended thresholds for establishing new species, corroborating the robust support for the distinctive taxonomic status of strain BMG 8361T within the genus Blastococcus. In conjunction with the phenotyping results, this compelling evidence leads to the proposal of a novel species we named Blastococcus brunescens sp. nov. with BMG 8361T (=DSM 46845T=CECT 8880T) as the type strain.
Subject(s)
Actinomycetales , Fatty Acids , Tunisia , Phylogeny , RNA, Ribosomal, 16S/genetics , Fatty Acids/chemistry , Sequence Analysis, DNA , DNA, Bacterial/genetics , Bacterial Typing Techniques , Base CompositionABSTRACT
A comprehensive polyphasic investigation was conducted to elucidate the taxonomic position of an actinobacterium, designated BMG 814T, which was isolated from the historic ruins of Carthage city in Tunisia. It grew as pink-orange pigmented colonies and displayed versatile growth capabilities, thriving within a temperature range of 20-40â°C, across a pH spectrum ranging from pH 5.5 to 10 and in the presence of up to 4â% NaCl. Chemotaxonomic investigations unveiled specific cell components, including diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylinositol, glycophosphatidylinositol, an unidentified aminoglycophospholipid, six unidentified aminolipids, two unidentified phospholipids and one unidentified lipid in its polar lipid profile. Furthermore, galactose, glucose and ribose were identified as the primary cell-wall sugars. Major menaquinones identified were MK-9(H4), MK-9(H2) and MK-9, while major fatty acids comprised iso-C15â:â0, iso-C16â:â0, C17â:â1 ω8c and C18â:â1 ω9c. Through phylogenetic analysis based on the 16S rRNA gene sequence, the strain was positioned within the genus Blastococcus, with Blastococcus capsiensis BMG 804T showing the closest relationship (99.1â%). In light of this, draft genomes for both strains, BMG 814T and BMG 804T, were sequenced in this study, and comparative analysis revealed that strain BMG 814T exhibited digital DNA-DNA hybridization and average nucleotide identity values below the recommended thresholds for demarcating new species with all available genomes of type strains of validly names species. Based on the polyphasic taxonomy assessment, strain BMG 814T (=DSM 46848T=CECT 8878T) was proposed as the type strain of a novel species named Blastococcus carthaginiensis sp. nov.
Subject(s)
Actinomycetales , Fatty Acids , Tunisia , Phylogeny , RNA, Ribosomal, 16S/genetics , Fatty Acids/chemistry , Sequence Analysis, DNA , DNA, Bacterial/genetics , Bacterial Typing Techniques , Base CompositionABSTRACT
BACKGROUND: Zinc supplementation has been considered a potential therapy for coronavirus disease 2019 (COVID-19). We aimed to examine zinc efficacy in adult patients with COVID-19 infection. METHODS: We conducted a prospective, randomized, double-blind, placebo-controlled multicenter trial. Patients who were tested positive for COVID-19 without end-organ failure were randomized to oral zinc (n = 231) or matching placebo (n = 239) for 15 days. The primary combined outcome was death due to COVID-19 or intensive care unit (ICU) admission ≤30 days after randomization. Secondary outcomes included length of hospital stay for inpatients and duration of COVID-19 symptoms with COVID-19-related hospitalization for outpatients. RESULTS: 190 patients (40.4%) were ambulatory and 280 patients (59.6%) were hospitalized. Mortality at 30 days was 6.5% in the zinc group and 9.2% in the placebo group (OR: .68; 95% CI .34-1.35); ICU admission rates were, respectively, 5.2% and 11.3% (OR: .43; 95% CI .21-.87). Combined outcome was lower in the zinc group versus the placebo group (OR: .58; 95% CI .33-.99). Consistent results were observed in prespecified subgroups of patients aged <65 years, those with comorbidity, and those who needed oxygen therapy at baseline. Length of hospital stay was shorter in the zinc group versus the placebo group (difference: 3.5 days; 95% CI 2.76-4.23) in the inpatient group; duration of COVID-19 symptoms decreased with zinc treatment versus placebo in outpatients (difference: 1.9 days; 95% CI .62-2.6). No severe adverse events were observed during the study. CONCLUSIONS: Our results showed that, in COVID-19 patients, oral zinc can decrease 30-day death, ICU admission rate and can shorten symptom duration. Clinical Trials Registration. ClinicalTrials.gov, NCT05212480.
Subject(s)
COVID-19 , Adult , Humans , SARS-CoV-2 , Zinc/therapeutic use , Prospective Studies , Double-Blind Method , Treatment OutcomeABSTRACT
A new actinobacterium strain, designated BMG 823T, was isolated from a limestone sample collected in Tunisia. Its taxonomic position was scrutinized using a polyphasic approach. Colonies of strain BMG 823T were pink orange-coloured, regular and had a moist surface. Cells are Gram-stain-positive, catalase-negative and oxidase-negative. The strain grew at pH 5.5-9, 10-40 °C and in presence of up to 4â% NaCl (w/v). Chemotaxonomically, strain BMG 823T was characterized by cell-wall type III containing meso-diaminopimelic acid as diamino acid, glucose, ribose and rhamnose as whole-cell sugars, MK-9(H4) as predominant menaquinone, and phosphatidylcholine, diphosphadidylglycerol, phosphatidethanolamine, phosphatidylcholine, phosphatidylinositol, unidentified glycolipid, unidentified aminophospholipids and unidentified glycophospholipid as major polar lipids. The fatty acid profile consisted of iso-C16â:â0 and iso-C17â:â1 ω9. Phylogenetic trees based on 16S rRNA gene and genome sequences placed strain BMG 823T within the genus Blastococcus and separated it from all type strains of validly published species. Comparison of 16S rRNA gene sequence similarity, digital DNA-DNA hybridization and average nucleotide identity indicated that strain BMG 823T was most closely related to Blastococcus litoris DSM 106127T and Blastococcus colisei BMG 822T with pairwise values well below the species differentiation thresholds. The distinct phenotypic and genotypic features of strain BMG 823T (=DSM 46838T=CECT 8881T) within the genus Blastococcus warrant its recognition as the type strain for the new species for which we propose the name Blastococcus tunisiensis sp. nov.
Subject(s)
Actinomycetales , Calcium Carbonate , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Phosphatidylcholines , Phospholipids/chemistry , Phylogeny , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , TunisiaABSTRACT
Stone surfaces are extreme environments that support microbial life. This microbial growth occurs despite unfavourable conditions associated with stone including limited sources of nutrients and water, high pH and exposure to extreme variations in temperature, humidity and irradiation. These stone-dwelling microbes are often resistant to extreme environments including exposure to desiccation, heavy metals, UV and Gamma irradiation. Here, we report on the effects of climate and stone geochemistry on microbiomes of Roman stone ruins in North Africa. Stone microbiomes were dominated by Actinobacteria, Cyanobacteria and Proteobacteria but were heavily impacted by climate variables that influenced water availability. Stone geochemistry also influenced community diversity, particularly through biologically available P, Mn and Zn. Functions associated with photosynthesis and UV protection were enriched in the metagenomes, indicating the significance of these functions for community survival on stones. Core members of the stone microbial communities were also identified and included Geodermatophilaceae, Rubrobacter, Sphingomonas and others. Our research has helped to expand the understanding of stone microbial community structure and functional capacity within the context of varying climates, geochemical properties and stone conditions.
Subject(s)
Extreme Environments , Microbiota , Africa, Northern , Bacteria/genetics , Bacteria/isolation & purification , Metagenome , Microbiota/genetics , Photosynthesis , Ultraviolet RaysABSTRACT
Actinorhizal plants form a symbiotic association with the nitrogen-fixing actinobacteria Frankia. These plants have important economic and ecological benefits including land reclamation, soil stabilization, and reforestation. Recently, many non-Frankia actinobacteria have been isolated from actinorhizal root nodules suggesting that they might contribute to nodulation. Two Nocardia strains, BMG51109 and BMG111209, were isolated from Casuarina glauca nodules, and they induced root nodule-like structures in original host plant promoting seedling growth. The formed root nodule-like structures lacked a nodular root at the apex, were not capable of reducing nitrogen and had their cortical cells occupied with rod-shaped Nocardiae cells. Both Nocardia strains induced root hair deformation on the host plant. BMG111209 strain induced the expression of the ProCgNin:Gus gene, a plant gene involved in the early steps of the infection process and nodulation development. Nocardia strain BMG51109 produced three types of auxins (Indole-3-acetic acid [IAA], Indole-3-Byturic Acid [IBA] and Phenyl Acetic Acid [PAA]), while Nocardia BMG111209 only produced IAA. Analysis of the Nocardia genomes identified several important predicted biosynthetic gene clusters for plant phytohormones, secondary metabolites, and novel natural products. Co-infection studies showed that Nocardia strain BMG51109 plays a role as a "helper bacteria" promoting an earlier onset of nodulation. This study raises many questions on the ecological significance and functionality of Nocardia bacteria in actinorhizal symbioses.
Subject(s)
Fagales/growth & development , Nocardia/physiology , Root Nodules, Plant/microbiology , Fagales/microbiology , Indoleacetic Acids/metabolism , Nocardia/genetics , Nocardia/isolation & purification , Plant Growth Regulators/metabolism , Root Nodules, Plant/growth & development , SymbiosisABSTRACT
Frankia sp. strain BMG5.30 was isolated from root nodules of a Coriaria myrtifolia seedling on soil collected in Tunisia and represents the second cluster 2 isolate. Frankia sp. strain BMG5.30 was able to re-infect C. myrtifolia generating root nodules. Here, we report its 5.8-Mbp draft genome sequence with a G + C content of 70.03% and 4509 candidate protein-encoding genes.
Subject(s)
Frankia/genetics , Genome, Bacterial , Root Nodules, Plant/microbiology , Base Composition , Base Sequence , Frankia/classification , Frankia/isolation & purification , Frankia/physiology , Magnoliopsida/microbiology , Molecular Sequence Data , Phylogeny , Symbiosis , TunisiaABSTRACT
A novel, non-motile, coccoid, Gram-stain-positive actinobacterium, designated BMG 862T, was isolated from a marble sample collected from the Bulla Regia monument, Northern Tunisia. Its taxonomic position was determined using a polyphasic approach. Results from chemotaxonomic analyses showed MK-9(H4), MK-8(H4) and MK-9(H2) as the predominant menaquinones. The major polar lipids comprised diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylinositol, glycophosphatidylinositol, hydroxy-phosphatidylethanolamine and three unidentified phospholipids. The fatty acids consisted of significant amounts (≥10â%) of iso-C16â:â0, C17â:â1ω8c, iso-C15â:â0 and C16â:â1ω7c. Phylogenetic analysis on the basis of 16S rRNA gene sequence comparisons showed that strain BMG 862T belongs to the genus Blastococcus, being most closely related to Blastococcus saxobsidens (=DSM 44509T) (99.5â%) and Blastococcus capsensis (=DSM 46835T=CECT 8876T) (99.3â%). The genomic DNA G+C content of the organism was 74.7 mol%. Results of DNA-DNA hybridization and physiological tests allowed differentiation of strain BMG 862T from related species. The strain was also characterized by its ability to hydrolyse xanthine. On the basis of phenotypic and molecular characteristics, strain BMG 862T (=DSM 46842T=CECT 8884T) represents the type strain of a novel species of the genus Blastococcus, for which the name Blastococcus xanthinilyticus sp. nov. is proposed.
Subject(s)
Actinomycetales/classification , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Architecture , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Glycolipids/chemistry , Nucleic Acid Hybridization , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Tunisia , Vitamin K 2/chemistryABSTRACT
Here, we present draft genome sequences for three atypical Frankia strains (lineage 4) that were isolated from root nodules but are unable to reinfect actinorhizal plants. The genome sizes of Frankia sp. strains EUN1h, BMG5.36, and NRRL B16386 were 9.91, 11.20, and 9.43 Mbp, respectively.
ABSTRACT
The taxonomic position of an actinobacterial isolate, designated strain BMG 822T, isolated from limestone from the Amphitheater of El Jem (Coliseum Thysdrus), Tunisia, was established using a polyphasic approach. Strain BMG 822T was found to grow well at 30 °C and pH 6.5-8.0, and to be coral-coloured, Gram-positive, catalase and oxidase negative. Whole cell hydrolysates contained meso-diaminopimelic acid as the diagnostic diamino acid, glucose, galactose and ribose. The phospholipids detected were diphosphatidylglycerol, phosphatidylcholine, phosphatidylinositol, phosphatidylethanolamine, hydroxy-phosphatidylethanolamine, an unidentified glycophospholipid and six unidentified phospholipids. MK-9(H4) was found to be the predominant menaquinone, followed by MK-9(H2) and MK-9. The major cellular fatty acids were identified as iso-C16:0, C18:1 ω9c, C17:1 ω8c and iso-H-C16:1. The G+C content of the DNA (73.2%) is typical of the genus. High degrees of 16S rRNA gene sequence similarity were found with the type strains of the genus Blastococcus (97.1-98.3%) followed by the type strains of Modestobacter (96.8-97.8%). Based on the above data and the phenotypic differences from the type strains of Blastococcus species, it is proposed that the isolate BMG 822T (=DSM 46837T=CECT 8823T) should be classified as the type strain of a novel species, Blastococcus colisei sp. nov.
Subject(s)
Actinomycetales/classification , Actinomycetales/isolation & purification , Soil Microbiology , Actinomycetales/genetics , Actinomycetales/physiology , Cell Wall/chemistry , DNA, Bacterial/genetics , Fatty Acids/analysis , Phenotype , Phospholipids/analysis , Phylogeny , RNA, Ribosomal, 16S/genetics , Sodium Chloride , Species Specificity , Tunisia , Vitamin K 2/analysisABSTRACT
Here, we report the first genome sequence of a Nocardia plant endophyte, N. casuarinae strain BMG51109, isolated from Casuarina glauca root nodules. The improved high-quality draft genome sequence contains 8,787,999 bp with a 68.90% GC content and 7,307 predicted protein-coding genes.
ABSTRACT
Nocardia sp. strain BMG111209 is a non-Frankia actinobacterium isolated from root nodules of Casuarina glauca in Tunisia. Here, we report the 9.1-Mbp draft genome sequence of Nocardia sp. strain BMG111209 with a G + C content of 69.19% and 8,122 candidate protein-encoding genes.
ABSTRACT
A novel Gram-reaction-positive actinobacterium, designated BMG 804T, was isolated from an archaeological Roman pool located in Gafsa, Tunisia. The strain grew as dry bright orange colonies at 30 °C and pH 6.0-8.0. It contained meso-diaminopimelic acid in the cell wall. The whole-cell sugars consisted of glucose, rhamnose and ribose. Polar lipids present were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylinositol, an unidentified glycolipid and two unidentified phospholipids. MK-9(H4) was the predominant menaquinone. The fatty acid profile contained major amounts (>5 %) of C17 : 1ω8c, C16 : 1ω7c, iso-C15 : 0, iso-C16 : 0 and iso-C16 : 1H. The 16S rRNA gene sequence of BMG 804T showed 99.4 % as highest sequence similarity with Blastococcussaxobsidens. DNA-DNA hybridization between strain BMG 804T and B.saxobsidens DSM 44509T was 48.6±6.6 %. The G+C content of the DNA was 73.7 mol%. On the basis of the phenotypic and genotypic characteristics, including DNA-DNA hybridization results, BMG 804T (=DSM 46835T=CECT 8876T) is proposed as the type strain of a novel species Blastococcuscapsensis sp. nov. Emended descriptions of the genus Blastococcus and the species Blastococcus aggregatus, B. saxobsidens, Blastococcus jejuensis and Blastococcus endophyticus are also proposed.
Subject(s)
Actinomycetales/classification , Fresh Water/microbiology , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Archaeology , Bacterial Typing Techniques , Base Composition , Cell Wall/chemistry , DNA, Bacterial/genetics , Diaminopimelic Acid/chemistry , Fatty Acids/chemistry , Glycolipids/chemistry , Nucleic Acid Hybridization , Phospholipids/chemistry , Pigmentation , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Tunisia , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistryABSTRACT
A black-pigmented, aerobic actinobacterium, tolerant to ionizing radiation, designated BMG 825T, was isolated from desert limestone dust in Tunisia. The strain grew within the temperature range 10-40 °C, at pH 5.5-11.0 and in the presence of 2 % NaCl. The DNA G+C content was 75.7 mol%, and its cell-wall peptidoglycan contained meso-diaminopimelic acid. Sugars of whole-cell hydrolysates were galactose, glucose, and trace amounts of ribose and mannose. The predominant menaquinone was MK-9(H4), and the major fatty acids were iso-C16 : 0 and C16 : 1ω7c. The polar lipid profile comprised phosphatidylcholine, phosphatidylinositol, diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine and an unspecified glycolipid. 16S rRNA gene sequence analysis revealed that the strain fell into the genus Geodermatophilus, showing the highest similarity with Geodermatophilus poikilotrophus DSM 44209T (99.1 %). DNA-DNA hybridization results, phylogenetic distinctiveness and phenotypic properties supported the classification of this strain as a representative of a novel species of the genus Geodermatophilus, for which the name Geodermatophilus pulveris sp. nov. is proposed. The type strain is BMG 825T (=CECT 9003T=DSM 46839 T).
Subject(s)
Actinomycetales/classification , Desert Climate , Gamma Rays , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Bacterial Typing Techniques , Base Composition , Calcium Carbonate , Cell Wall/chemistry , DNA, Bacterial/genetics , Diaminopimelic Acid/chemistry , Fatty Acids/chemistry , Glycolipids/chemistry , Nucleic Acid Hybridization , Peptidoglycan/chemistry , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Tunisia , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistryABSTRACT
The Geodermatophilaceae are unique model systems to study the ability to thrive on or within stones and their proteogenomes (referring to the whole protein arsenal encoded by the genome) could provide important insight into their adaptation mechanisms. Here we report the detailed comparative genome analysis of Blastococcus saxobsidens (Bs), Modestobacter marinus (Mm) and Geodermatophilus obscurus (Go) isolated respectively from the interior and the surface of calcarenite stones and from desert sandy soils. The genome-scale analysis of Bs, Mm and Go illustrates how adaptation to these niches can be achieved through various strategies including 'molecular tinkering/opportunism' as shown by the high proportion of lost, duplicated or horizontally transferred genes and ORFans. Using high-throughput discovery proteomics, the three proteomes under unstressed conditions were analyzed, highlighting the most abundant biomarkers and the main protein factors. Proteomic data corroborated previously demonstrated stone-related ecological distribution. For instance, these data showed starvation-inducible, biofilm-related and DNA-protection proteins as signatures of the microbes associated with the interior, surface and outside of stones, respectively.
Subject(s)
Actinobacteria/genetics , Actinomycetales/genetics , Geologic Sediments/microbiology , Adaptation, Physiological/genetics , Biodiversity , Chromatography, Liquid/methods , Mass Spectrometry/methods , Proteomics/methodsABSTRACT
A novel γ-radiation-resistant and Gram-staining-positive actinobacterium designated BMG 8133T was isolated from a limestone collected in the Sahara desert of Tunisia. The strain produced dry, pale-pink colonies with an optimum growth at 3540 °C and pH 6.58.0. Chemotaxonomic and molecular characteristics of the isolate matched those described for members of the genus Geodermatophilus. The peptidoglycan contained meso-diaminopimelic acid as diagnostic diamino acid. The main polar lipids were phosphatidylcholine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine and one unspecified glycolipid. MK-9(H4) was the dominant menaquinone. Galactose and glucose were detected as diagnostic sugars. The major cellular fatty acids were branched-chain saturated acids iso-C16 : 0 and iso-C15 : 0. The DNA G+C content of the novel strain was 74.5 %. The 16S rRNA gene sequence showed highest sequence identity with Geodermatophilus ruber (98.3 %). Based on phenotypic results and 16S rRNA gene sequence analysis, strain BMG 8133T is proposed to represent a novel species, Geodermatophilus sabuli sp. nov. The type strain is BMG 8133T ( = DSM 46844T = CECT 8820T).
Subject(s)
Actinomycetales/classification , Calcium Carbonate , Gamma Rays , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Actinomycetales/radiation effects , Bacterial Typing Techniques , Base Composition , Cell Wall/chemistry , DNA, Bacterial/genetics , Desert Climate , Diaminopimelic Acid/chemistry , Fatty Acids/chemistry , Glycolipids/chemistry , Molecular Sequence Data , Peptidoglycan/chemistry , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Tunisia , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistryABSTRACT
The repeated failures reported in cultivating some microbial lineages are a major challenge in microbial ecology and probably linked, in the case of Frankia microsymbionts to atypical patterns of auxotrophy. Comparative genomics of the so far uncultured cluster-2 Candidatus Frankia datiscae Dg1, with cultivated Frankiae has revealed genome reduction, but no obvious physiological impairments. A direct physiological assay on nodule tissues from Coriaria myrtifolia infected with a closely-related strain permitted the identification of a requirement for alkaline conditions. A high pH growth medium permitted the recovery of a slow-growing actinobacterium. The strain obtained, called BMG5.1, has short hyphae, produced diazovesicles in nitrogen-free media, and fulfilled Koch's postulates by inducing effective nodules on axenically grown Coriaria spp. and Datisca glomerata. Analysis of the draft genome confirmed its close proximity to the Candidatus Frankia datiscae Dg1 genome with the absence of 38 genes (trehalose synthase, fumarylacetoacetase, etc) in BMG5.1 and the presence of 77 other genes (CRISPR, lanthionine synthase, glutathione synthetase, catalase, Na+/H+ antiporter, etc) not found in Dg1. A multi-gene phylogeny placed the two cluster-2 strains together at the root of the Frankia radiation.
Subject(s)
Cell Culture Techniques/methods , Frankia/growth & development , Bacterial Proteins/metabolism , Cells, Cultured , Frankia/genetics , Frankia/isolation & purification , Genome, Bacterial , Likelihood Functions , Magnoliopsida/growth & development , Phylogeny , Seedlings/growth & developmentABSTRACT
An orange-black, Gram-positive, aerobic and gamma-ray resistant actinobacterium was isolated from the ruins of a Roman aqueduct located in Northern Tunisia. The optimal growth for the strain was found to be at 25-35 °C and at pH 6.0-9.5. Chemotaxonomic and molecular characteristics of the isolate matched those described for members of the genus Geodermatophilus. The peptidoglycan was found to contain meso-diaminopimelic acid as diagnostic diaminoacid. The main polar lipids were identified as phosphatidylcholine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, an unidentified glycolipid and an unidentified aminophospholipid; MK-9(H4) was found to be the dominant menaquinone and galactose was detected as the diagnostic sugar, with glucose, ribose and mannose also present. The major cellular fatty acids were identified as branched-chain saturated acids iso-C16:0, iso-C15:0 and iso-H-C16:0. The 16S rRNA gene showed 95.4-99.6 % sequence identity with the type strains of the genus Geodermatophilus. DNA-DNA relatedness values with closely related species were 39.9 ± 4.9, 33.9 ± 1.9, 27.0 ± 2.5 and 13.2 ± 1.35 % with Geodermatophilus amargosae, G. normandii, G. saharensis and G. tzadiensis respectively. Based on phenotypic results and 16S rRNA gene sequence analysis, strain BMG801(T) (=DSM 46834(T) = CECT 8822(T)) is proposed to represent the type strain of a novel species, Geodermatophilus aquaeductus sp. nov.
Subject(s)
Actinobacteria/classification , Actinobacteria/isolation & purification , Environmental Microbiology , Actinobacteria/genetics , Actinobacteria/physiology , Aerobiosis , Bacterial Typing Techniques , Carbohydrates/analysis , Cell Wall/chemistry , Cluster Analysis , Cytosol/chemistry , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Diaminopimelic Acid/analysis , Fatty Acids/analysis , Glycolipids/analysis , Hydrogen-Ion Concentration , Microscopy, Electron, Scanning , Molecular Sequence Data , Nucleic Acid Hybridization , Peptidoglycan/analysis , Phospholipids/analysis , Phylogeny , Pigments, Biological/metabolism , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Temperature , Tunisia , Vitamin K 2/analysisABSTRACT
The taxonomic position of an aerobic actinobacterial strain, BMG841(T), isolated from the Bulla Regia monument (Tunisia) and exhibiting a high resistance to gamma-radiation (D10 ~9 kGy) was determined using polyphasic approach. The optimal growth range was found to be 25-35 °C at pH of 7.0-8.5. The strain was observed to form black dry colonies. Chemotaxonomic characteristics of the isolate showed a cell wall type III, with galactose and glucose as diagnostic sugars; phosphatidylcholine, phosphatidylinositol, diphosphatidylglycerol, phosphatidylethanolamine and an unidentified glycolipid as main polar lipids; and MK-9(H4) as the predominant menaquinone. The major cellular fatty acids were identified as iso-C16:0 and iso-C15:0. Phylogenetic analysis indicated that strain BMG841(T) represents a novel member of the genus Geodermatophilus with high 16S rRNA gene sequence identity with Geodermatophilus saharensis (98.28 %). Based on phylogenetic and phenotypic analysis, strain BMG841(T) is proposed as the type strain (=DSM 46841(T) = CECT 8821(T)) of a novel species, Geodermatophilus bullaregiensis.
Subject(s)
Actinobacteria/classification , Actinobacteria/isolation & purification , Environmental Microbiology , Actinobacteria/genetics , Actinobacteria/physiology , Aerobiosis , Bacterial Typing Techniques , Carbohydrates/analysis , Cluster Analysis , Cytosol/chemistry , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Fatty Acids/analysis , Glycolipids/analysis , Hydrogen-Ion Concentration , Microscopy, Electron, Scanning , Molecular Sequence Data , Phospholipids/analysis , Phylogeny , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Temperature , Tunisia , Vitamin K 2/analysisABSTRACT
A gamma radiation-resistant, Gram reaction-positive, aerobic and chemoorganotrophic actinobacterium, initially designated Geodermatophilus obscurus subsp. dictyosporus G-5(T), was not validly named at the time of initial publication (1968). G-5(T) formed black-colored colonies on GYM agar. The optimal growth range was 25-35 °C, at pH 6.5-9.5 and in the absence of NaCl. Chemotaxonomic and molecular characteristics of the isolate matched those described for members of the genus Geodermatophilus. The DNA G + C content of the strain was 75.3 mol%. The peptidoglycan contained meso-diaminopimelic acid as diagnostic diamino acid. The main polar lipids were phosphatidylcholine, diphosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine and one unspecified glycolipid; MK-9(H4) was the dominant menaquinone and galactose was detected as a diagnostic sugar. The major cellular fatty acids were branched-chain saturated acids, iso-C16:0 and iso-C15:0. The 16S rRNA gene showed 94.8-98.4 % sequence identity with the members of the genus Geodermatophilus. Based on phenotypic results and 16S rRNA gene sequence analysis, strain G-5(T) is proposed to represent a novel species, Geodermatophilus dictyosporus and the type strain is G-5(T) (=DSM 43161(T) = CCUG 62970(T) = MTCC 11558(T) = ATCC 25080(T) = CBS 234.69(T) = IFO 13317(T) = KCC A-0154(T) = NBRC 13317(T)). The INSDC accession number is HF970584.