The black honey bee genome: insights on specific structural elements and a first step towards pangenomes.

Background: The honey bee reference genome, HAv3.1, was produced from a commercial line sample that was thought to have a largely dominant Apis mellifera ligustica genetic background. Apis mellifera mellifera, often referred to as the black bee, has a separate evolutionary history and is the original type in western and northern Europe.

sp. nov., a novel thermophilic anaerobic heterotroph isolated from a shallow hydrothermal field of Panarea Island in the Aeolian archipelago, Italy.

A novel thermophilic strain, designated BP5-C20A, was isolated from the shallow hydrothermal field of the Panarea island in the Aeolian archipelago close to Sicily, Italy. Cells are motile rods surrounded with a 'toga', Gram-stain-negative and display a straight to curved morphology during the exponential phase. Strain BP5-C20A is thermophilic (optimum 55 °C), moderately acidophilic (optimum pH 5.

Comparative Genome Analysis of Enterococcus cecorum Reveals Intercontinental Spread of a Lineage of Clinical Poultry Isolates.

Enterococcus cecorum is an emerging pathogen responsible for osteomyelitis, spondylitis, and femoral head necrosis causing animal suffering and mortality and requiring antimicrobial use in poultry. Paradoxically, E. cecorum is a common inhabitant of the intestinal microbiota of adult chickens.

gen. nov., sp. nov., a novel thermophilic spirochete isolated from a Tunisian hot spring, and description of the novel family .

A novel thermophilic, anaerobic bacterium, strain F1F22, was isolated from hot spring water collected in northern Tunisia. The cells were non-motile, Gram-negative and helical with hooked ends, 0.5×10-32 µm in size.

sp. nov., a novel alkaliphilic and hydrogen-utilizing methanogen isolated from an alkaline geothermal spring (La Crouen, New Caledonia).

An anaerobic, hydrogenotrophic methane-producing archaeon was isolated from an alkaline thermal spring (42 °C, pH 9.0) in New Caledonia. This methanogen, designated strain CAN, is alkaliphilic, thermotolerant, with Gram-positive staining non-motile cells.

Impacts of restriction-modification systems on pan-epigenome dynamics and genome plasticity.

DNA methylations play an important role in the biology of bacteria. Often associated with restriction modification (RM) systems, they are important drivers of bacterial evolution interfering in horizontal gene transfer events by providing a defence against foreign DNA invasion or by favouring genetic transfer through production of recombinogenic DNA ends. Little is known regarding the methylome of the genus, which encompasses several pathogenic species with small genomes.

Complete Genome Sequence of Stenotrophomonas maltophilia 1800, a New Bacterial Strain with Potential for Bioremediation of Oil-Contaminated Environments.

Stenotrophomonas maltophilia strain 1800 was isolated from the effluent of an industrial oil refinery in Algeria. Its genome was sequenced using Illumina MiSeq (2 × 150-bp read pairs) and Oxford Nanopore (long reads) technologies and assembled using Unicycler. It is composed of one chromosome of 4.

gen. nov., sp. nov., a novel alkaliphilic anaerobic bacterium isolated from 'La Crouen' alkaline thermal spring, New Caledonia.

A novel anaerobic, alkaliphilic, mesophilic, Gram-stain-positive, endospore-forming bacterium was isolated from an alkaline thermal spring (42 °C, pH 9.0) in New Caledonia. This bacterium, designated strain LB2, grew at 25-50 °C (optimum, 37 °C) and pH 8.

Characterisation of hydrocarbon degradation, biosurfactant production, and biofilm formation in Serratia sp. Tan611: a new strain isolated from industrially contaminated environment in Algeria.

A novel bacterial strain was isolated from industrially contaminated waste water. In the presence of crude oil, this strain was shown to reduce the rate of total petroleum hydrocarbons (TPH) up to 97.10% in 24 h.

Complete Genome Sequences of Four Atrazine-Degrading Bacterial Strains, sp. Strain ADPe, sp. Strain TES, sp. Strain 38R, and sp. Strain SR38.

We report here the complete genome sequences of four atrazine-degrading bacteria. Their genomes will serve as references for determining the genetic changes that have occurred during an evolution experiment.

Convergent Rewiring of the Virulence Regulatory Network Promotes Adaptation of Ralstonia solanacearum on Resistant Tomato.

The evolutionary and adaptive potential of a pathogen is a key determinant for successful host colonization and proliferation but remains poorly known for most of the pathogens. Here, we used experimental evolution combined with phenotyping, genomics, and transcriptomics to estimate the adaptive potential of the bacterial plant pathogen Ralstonia solanacearum to overcome the quantitative resistance of the tomato cultivar Hawaii 7996. After serial passaging over 300 generations, we observed pathogen adaptation to within-plant environment of the resistant cultivar but no plant resistance breakdown.

Complete Genome Sequence of sp. Strain Nx66, Isolated from Waters Contaminated with Petrochemicals in El Saf-Saf Valley, Algeria.

sp. strain Nx66 was isolated from waters contaminated by petrochemical effluents collected in Algeria. Its genome was sequenced using Illumina MiSeq (2 × 150-bp read pairs) and Oxford Nanopore (long reads) technologies and was assembled using Unicycler.

Complete Genome Sequence of the Type Strain Pectobacterium punjabense SS95, Isolated from a Potato Plant with Blackleg Symptoms.

is a newly described species causing blackleg disease in potato plants. Therefore, by the combination of long (Oxford Nanopore Technologies, MinION) and short (Illumina MiSeq) reads, we sequenced the complete genome of SS95, which contains a circular chromosome of 4.793 Mb with a GC content of 50.

Diversity of Pectobacteriaceae Species in Potato Growing Regions in Northern Morocco.

Dickeya and Pectobacterium pathogens are causative agents of several diseases that affect many crops worldwide. This work investigated the species diversity of these pathogens in Morocco, where Dickeya pathogens have only been isolated from potato fields recently. To this end, samplings were conducted in three major potato growing areas over a three-year period (2015-2017).

Efficiencies of available organic mixtures for the biological treatment of highly acidic-sulphate rich drainage of the San Jose mine, Bolivia.

The environmental contamination due to mining activities in the Andean region of Bolivia is a serious concern, as it leads to highly acidic (pH 2.4) acid mine drainage (AMD), severely polluted by sulfate (>12,000 mg L). Passive bioreactors entailing biological sulfate reduction and removal of metals through sulfide precipitation have been recognized as a promising biotechnology.

Hydrostatic Pressure Helps to Cultivate an Original Anaerobic Bacterium From the Atlantis Massif Subseafloor (IODP Expedition 357): gen. nov. sp. nov.

Rock-hosted subseafloor habitats are very challenging for life, and current knowledge about microorganisms inhabiting such lithic environments is still limited. This study explored the cultivable microbial diversity in anaerobic enrichment cultures from cores recovered during the International Ocean Discovery Program (IODP) Expedition 357 from the Atlantis Massif (Mid-Atlantic Ridge, 30°N). 16S rRNA gene survey of enrichment cultures grown at 10-25°C and pH 8.

Data supporting the improvement of forecasting and control of electricity consumption in hotels.

Improving and managing the electricity efficiency in hotel facilities is essential to reduce the hotel operation costs and its environmental impacts. The data presented shows the evolution of the electricity consumption and management between 2013 and 2015 in two hotel facilities in Cuba (one beach hotel and one city hotel). The data additionally includes the daily measures used to develop control tools for an energy management system.

Data supporting the assessment of biomass based electricity and reduced GHG emissions in Cuba.

Assessing the biomass based electricity potential of developing nations like Cuba can help to reduce the fossil fuels dependency and the greenhouse gas emissions. The data included in this study present the evolution of electricity production and greenhouse gas emissions in Cuba. Additionally, the potentialities to produce biomass based electricity by using the most significant biomass sources in Cuba are estimated.

Comparative Analysis of Methylomes.

is an important soil-borne plant pathogen with broad geographical distribution and the ability to cause wilt disease in many agriculturally important crops. Genome sequencing of multiple strains has identified both unique and shared genetic traits influencing their evolution and ability to colonize plant hosts. Previous research has shown that DNA methylation can drive speciation and modulate virulence in bacteria, but the impact of epigenetic modifications on the diversification and pathogenesis of is unknown.

ABI5 Is a Regulator of Seed Maturation and Longevity in Legumes.

The preservation of our genetic resources and production of high-quality seeds depends on their ability to remain viable and vigorous during storage. In a quantitative trait locus analysis on seed longevity in Medicago truncatula, we identified the bZIP transcription factor ABSCISIC ACID INSENSITIVE5 (ABI5). Characterization of Mt-abi5 insertion mutant seeds revealed that both the acquisition of longevity and dormancy were severely impaired.

Immobilization of antimony in waste-to-energy bottom ash by addition of calcium and iron containing additives.

The leaching of Sb from waste-to-energy (WtE) bottom ash (BA) often exceeds the Dutch limit value of 0.32mgkg(-1) for recycling of BA in open construction applications. From the immobilization mechanisms described in the literature, it could be concluded that both Ca and Fe play an important role in the immobilization of Sb in WtE BA.

Adsorption of Oxyanions from Industrial Wastewater using Perlite-Supported Magnetite.

Most studies on oxyanion adsorption focus on their removal from synthetic solutions. It is often claimed that the considered adsorbents can be used to treat real (industrial) wastewaters, but this is seldom tested. Perlite-supported magnetite was characterized first by determining its specific surface area, magnetite content and by examining the coating.