Genomic description and characterization of Nigeribacterium massiliense gen. nov., sp. nov., isolated from the human gut

Strain Marseille-P1302 was isolated from the stool of a 2-year-old Nigerian boy suffering from Kwashiorkor, a form of severe acute malnutrition. The strain grows in aerobic atmosphere and bacterial cells are Gram-positive cocci ranging in diameter from 0.8 to 1 μm. Among species with standing in nomenclature, strain Marseille-P1302 exhibited a highest 16S rRNA sequence similarity of 94.97% with Brevilactibacter flavus strain VG341^T, but was phylogenetically-closest to Brevilactibacter sinopodophylli strains KCTC 33808^T. The draft genome of strain Marseille-P1302 was 2,934,258-bp-long with a 70.38% G + C content, and contained 2704 protein-coding genes and 55 RNAs that included 9 rRNA genes. On the basis of these data, we propose the creation of the new genus Nigeribacterium gen. nov., with strain Marseille-P1302^T (= CSUR P1302 = DSM 29084) being the type strain of the new species Nigeribacterium. massiliense gen. nov., sp. nov.     

Internet scientific name frequency as an indicator of cultural salience of biodiversity

Public interest in nature is an important driver of the success of conservation actions, such that increasing public awareness of biodiversity has become a major conservation goal (i.e. Aichi Target 1). Macro-scale monitoring of public interest towards nature has thus far been difficult, but the enormous quantity of information generated by the internet allows for new approaches using culturomic techniques. For example, other things being equal, we would expect that the vernacular (common) names of charismatic species with high levels of public interest (e.g. tiger, elephant) to appear on more web-pages than less ‘cultural’ species. Nevertheless, deriving metrics from such data is challenging because vernacular names often have multiple meanings (e.g. teal, jaguar) that could significantly bias culturomic metrics of cultural visibility. Scientific binomial names of species potentially avoid this problem because Latin is a ‘dead’ language and the scientific name typically applies only to the biological organism. Here, we investigate whether standard scientific names: i) are a robust proxy of web salience of vernacular species names, and; ii) have the same statistical relationship with vernacular species names across different cultural and language groups. Automated internet searches were carried out for scientific and vernacular names from a global bird species list and six national bird species lists (Australia, Brazil, Indonesia, Spain, Tanzania and USA). For national searches the results were restricted to country web domains. We found strong and consistent correlations between vernacular and scientific species names at both global and country level, independent of language and cultural differences. The universality of this relationship suggests that the web salience of scientific species names is a robust, cross-cultural indicator of species ‘culturalness’. Potential applications of this indicator include: i) the development of new indicators to assess public perceptions of biodiversity; ii) systematic identification of species with high cultural visibility; iii) empirical identification of the biogeographic, ecological, morphological and cultural characteristics of species that influence cultural visibility, globally and in different cultural settings, and; iv) near real-time monitoring of changes in species ‘culturalness’. The capture and processing of internet data is technically non-trivial, but can be replicated at low cost and has enormous potential for the creation of new macro-scale metrics of human-nature interactions.     

Non contiguous-finished genome sequence and description of Dielma fastidiosa gen. nov., sp. nov., a new member of the Family Erysipelotrichaceae

Dielma fastidiosa strain JC13^T gen. nov., sp. nov. is the type strain of D. fastidiosa gen. nov., sp. nov., the type species of a new genus within the family Erysipelotrichaceae. This strain, whose draft genome is described here, was isolated from the fecal flora of a healthy 16-year-old male Senegalese volunteer. D. fastidiosa is a Gram-negative anaerobic rod. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 3,574,031 bp long genome comprises a 3,556,241-bp chromosome and a 17,790-bp plasmid. The chromosome contains 3,441 protein-coding and 50 RNA genes, including 3 rRNA genes, whereas the plasmid contains 17 protein-coding genes.