Draft genome sequence of 'Cohnella kolymensis' B-2846

A draft genome sequence of "Cohnella kolymensis" strain B-2846 was derived using IonTorrent sequencing technology. The size of the assembly and G+C content were in agreement with those of other species of this genus. Characterization of the genome of a novel species of Cohnella will assist in bacterial systematics

Draft Genome Sequence of 'Coralloluteibacterium stylophorae' LMG 29479[sup]T

Here, we report a draft genome sequence of the strain Coralloluteibacterium stylophorae LMG 29479T, acquired from the Belgian Coordinated Collections of Microorganisms. The genus Coralloluteibacterium currently includes only one species with a validly published name. These genome sequencing data are important for the phylogeny of the Lysobacteraceae family

A new endosymbiotic bacterium species associated with a nematode species of the genus Xiphinema (Nematoda, Longidoridae)

2021 virtual edition of the Conference Microscopy at the Frontiers of Science, september 29 and October 1st.Nematodes are the third largest group of metazoans; among them, the Family Longidoridae comprises two main genera of plant parasitic nematodes, Xiphinema and Longidorus, which contain several virus-vector species, e.g. the species X. index, the vector of grape fanleaf virus (GFLV), a serious pathogen of grapes. Bacterial endosymbionts of plant-parasitic nematodes represent a field of research that has become active in recent years. In this work we present a detailed characterization of the endosymbiont bacterium found in the nematode X. pachtaicum from the rhizosphere of sour orange trees (Citrus x aurantium L.) from Cordoba, Spain, and, based on morphological, phylogenetic and genomic characteristics propose a novel candidate genus and species for this uncultured bacterium (strain IAST). An intracellular bacterium, strain IAST, was observed to infect several species of the plant-parasitic nematode genus Xiphinema (X. astaregiense, X. incertum, X. madeirense, X. pachtaicum, X. parapachydermum and X. vallense). The bacterium could not be recovered on axenic medium. The localization of the bacterium (via light and fluorescence in situ hybridization microscopy) is in the X. pachtaicum females clustered around the developing oocytes, primarily found embedded inside the epithelial wall cells of the ovaries, from where they are dispersed in the intestine. Transmission electron microscopy (TEM) observations supported the presence of bacteria inside the nematode body, where they occupy ovaries and occur inside the intestinal epithelium. Ultrastructural analysis of the bacterium showed cells that appear as mostly irregular, slightly curved rods with rounded ends, 0.8–1.2 μm wide and 2.5–6.0 μm long, possessing a typical Gram-negative cell wall. The peptidoglycan layer is, however, evident only occasionally and not detectable by TEM in most cells. Another irregularly occurring shell surrounding the endosymbiont cells or the cell clusters was also revealed, probably originating from the host cell membrane. Flagella or spore-like cells do not occur and the nucleoid is diffusely distributed throughout the cell. This endosymbiont is transmitted vertically through nematode generations. These results support the proposal of IAST as a new species, although its obligate intracellular and obligate endosymbiont nature prevented isolation of a definitive type strain. Strain IAST is therefore proposed as representing ‘Candidatus Xiphinematincola pachtaicus’ gen. nov., sp. nov

‘Candidatus Xiphinematincola pachtaicus' gen. nov., sp. nov., an endosymbiotic bacterium associated with nematode species of the genus Xiphinema (Nematoda, Longidoridae)

An intracellular bacterium, strain IAST , was observed to infect several species of the plant-parasitic nematode genus Xiphinema (Xiphinema astaregiense, Xiphinema incertum, Xiphinema madeirense, Xiphinema pachtaicum, Xiphinema parapachydermum and Xiphinema vallense). The bacterium could not be recovered on axenic medium. The 16S rRNA gene sequence of IAST was found to be new, being related to the family Burkholderiaceae, class Betaproteobacteria. Fungal endosymbionts Mycoavidus cysteinexigens B1-EBT (92.9% sequence identity) and ‘Candidatus Glomeribacter gigasporarum’ BEG34 (89.8% identity) are the closest taxa and form a separate phylogenetic clade inside Burkholderiaceae. Other genes (atpD, lepA and recA) also separated this species from its closest relatives using a multilocus sequence analysis approach. These genes were obtained using a partial genome of this bacterium. The localization of the bacterium (via light and fluorescence in situ hybridization microscopy) is in the X. pachtaicum females clustered around the developing oocytes, primarily found embedded inside the epithelial wall cells of the ovaries, from where they are dispersed in the intestine. Transmission electron microscopy (TEM) observations supported the presence of bacteria inside the nematode body, where they occupy ovaries and occur inside the intestinal epithelium. Ultrastructural analysis of the bacterium showed cells that appear as mostly irregular, slightly curved rods with rounded ends, 0.8–1.2µm wide and 2.5–6.0µm long, possessing a typical Gram-negative cell wall. The peptidoglycan layer is, however, evident only occasionally and not detectable by TEM in most cells. Another irregularly occurring shell surrounding the endosymbiont cells or the cell clusters was also revealed, probably originating from the host cell membrane. Flagella or spore-like cells do not occur and the nucleoid is diffusely distributed throughout the cell. This endosymbiont is transmitted vertically through nematode generations. These results support the proposal of IAST as a new species, although its obligate intracellular and obligate endosymbiont nature prevented isolation of a definitive type strain. Strain IAST is therefore proposed as representing ‘Candidatus Xiphinematincola pachtaicus’ gen. nov., sp. nov

Writings by philologists of the past as a basis for shaping linguistic personality of a modern teacher

The objective of this article is to analyze Apollos’ linguistic personality and answer the question whether the linguistic personality of a priest-scholar, author of grammar writings, public figure of the 18th century can be exemplary during the formation of a modern educator’s linguistic personality. Methodology. To solve the declared problem, a comparative analysis of the modern Russian teacher and scholar of the past’s linguistic personality was done. This became possible due to the use of sociolinguistic methods – questionnaire survey and interview, as well as to the use of Yu. N. Karaulov method of analysis of linguistic personality, M.K. Petrov concept of sociocode and G. Lakoff cognitive metaphor theory. The main findings of the research: 1) it has revealed problems of modern education; 2) identified and described Apollos’ value orientations, transmitted to students; 3) formulated a scientific hypothesis: it is necessary to use the writings of linguists/philologists and educators of the past as a basis for the formation of linguistic personality of a modern educator, tutor, mentor, facilitator because linguistic personality of previous centuries’ scholars and methodologists can be recognized as a model linguistic personality for a teacher of Russian language and literature. Application of research findings. The research findings can be introduced to a number of academic disciplines such as “Educator’s professional personality”, “Sociolinguistics”, “Cultural linguistics”, “Communicative-speech training”, “Academic eloquence”, “Genres of academic discourse”, “Stylistics”, “Russian language in the sociolinguistic aspect”, “Sociolinguistic foundations of communication”, etc.), they will also be essential in developing continuing (lifelong) education courses for teaching staff specializing in “Linguistic personality of a tutor: history and contemporaneity”. The novelty and originality of this research stems from the fact that 1) the analysis of pedagogical discourse was carried out in two time slices – year of 2019 and 18th century, that allowed to reveal the specificity of a Russian language and literature teacher’s linguistic personality in synchrony and diachrony, 2) Apollos’ grammar was for the first time explored within the anthropocentric paradigm, 3) the prospects for further study are seen in taking from the best of the past philology to the matrix of modern education.O objetivo deste artigo é analisar a personalidade linguística de Apolo e responder se a personalidade lingüística de um sacerdote-erudito, autor de textos gramaticais, figura pública do século XVIII pode ser exemplar durante a formação de um educador lingüístico moderno. personalidade. Metodologia. Para resolver o problema declarado, uma análise comparativa do professor russo moderno e estudioso da personalidade linguística do passado foi feita. Isso se tornou possível devido ao uso de métodos sociolingüísticos - questionário de pesquisa e entrevista, bem como ao uso de Yu. N. Método Karaulov de análise da personalidade linguística, M.K. Conceito de sociocódigo de Petrov e teoria da metáfora cognitiva de G. Lakoff. Os principais resultados da pesquisa: 1) revelou problemas da educação moderna; 2) identificou e descreveu as orientações de valor de Apolo, transmitidas aos alunos; 3) formulou uma hipótese científica: é necessário usar os escritos de linguistas / filólogos e educadores do passado como base para a formação da personalidade linguística de um educador moderno, tutor, mentor, facilitador porque personalidade linguística de estudiosos dos séculos anteriores e os metodologistas podem ser reconhecidos como um modelo de personalidade linguística para um professor de língua e literatura russas. Aplicação de resultados de pesquisas. Os resultados da pesquisa podem ser introduzidos em uma série de disciplinas acadêmicas, como "Personalidade profissional do educador", "Sociolinguística", "Lingüística cultural", "Treinamento de fala comunicativa", "Eloquência acadêmica", "Gêneros do discurso acadêmico", "Estilística ”,“ A língua russa no aspecto sociolinguístico ”,“ Fundamentos sociolinguísticos da comunicação ”, etc.), também serão essenciais no desenvolvimento de cursos de educação continuada (ao longo da vida) para professores especializados em“ Personalidade linguística de um tutor: história e contemporaneidade". A novidade e originalidade desta pesquisa decorre do fato de que 1) a análise do discurso pedagógico foi realizada em duas parcelas temporais - ano de 2019 e século XVIII, que permitiram revelar a especificidade da personalidade linguística de um professor de literatura e língua russa em sincronia e diacronia, 2) A gramática de Apolo foi explorada pela primeira vez dentro do paradigma antropocêntrico, 3) as perspectivas para um estudo mais aprofundado são vistas em levar o melhor da filologia do passado para a matriz da educação moderna.El objetivo de este artículo es analizar la personalidad lingüística de Apolos y responder a la pregunta de si la personalidad lingüística de un sacerdote erudito, autor de escritos gramaticales, figura pública del siglo XVIII puede ser ejemplar durante la formación de un educador lingüístico moderno. personalidad. Metodología. Para resolver el problema declarado, se realizó un análisis comparativo de la personalidad lingüística del maestro ruso moderno y estudioso del pasado. Esto fue posible gracias al uso de métodos sociolingüísticos: cuestionario y entrevista, así como al uso de Yu. N. Método Karaulov de análisis de la personalidad lingüística, M.K. Concepto Petrov de sociocódigo y teoría de la metáfora cognitiva de G. Lakoff. Los principales hallazgos de la investigación: 1) ha revelado problemas de la educación moderna; 2) identificó y describió las orientaciones de valor de Apolos, transmitidas a los estudiantes; 3) formuló una hipótesis científica: es necesario utilizar los escritos de lingüistas / filólogos y educadores del pasado como base para la formación de la personalidad lingüística de un educador, tutor, mentor, facilitador moderno porque la personalidad lingüística de los eruditos de los siglos anteriores y los metodólogos pueden ser reconocidos como una personalidad lingüística modelo para un profesor de lengua y literatura rusas. Aplicación de los resultados de la investigación. Los resultados de la investigación pueden introducirse en una serie de disciplinas académicas como "Personalidad profesional del educador", "Sociolingüística", "Lingüística cultural", "Entrenamiento del habla comunicativa", "Elocuencia académica", "Géneros del discurso académico", "Estilística ”,“ Lengua rusa en el aspecto sociolingüístico ”,“ Fundamentos sociolingüísticos de la comunicación ”, etc.), también serán fundamentales en el desarrollo de cursos de formación continua (de por vida) para el profesorado especializado en“ Personalidad lingüística del tutor: historia y tiempo contemporáneo". La novedad y originalidad de esta investigación surge de que 1) el análisis del discurso pedagógico se realizó en dos franjas de tiempo, año 2019 y siglo XVIII, que permitió revelar la especificidad de la personalidad lingüística de un profesor de lengua y literatura rusa en sincronía y diacronía, 2) la gramática de Apolos fue explorada por primera vez dentro del paradigma antropocéntrico, 3) las perspectivas de estudios posteriores se ven al llevar de lo mejor de la filología pasada a la matriz de la educación moderna

'Gordonibacillus kamchatkensis' gen. nov., sp. nov., a novel member of 'Paenibacillaceae' from frozen volcanic ash

A novel genus and species, Gordonibacillus kamchatkensis gen. nov., sp. nov., with the type strain V-9T (=VKM B-2647T) is proposed to accommodate endospore-forming, rod-shaped and nonmotile bacterium isolated from the frozen volcanic ash sample, Kamchatka Peninsula, Russia. The cell wall of strain V-9T contained a lysine-based peptidoglycan as well as mannose, glucose and glycerol. In addition, two teichoic acids were revealed in the cell wall. The polar lipids included phosphatidylglycerol, diphosphatidylglycerol, acylphosphatidylglycerol, and phosphatidylinositol as major components. The fatty acid profile comprised mainly saturated anteiso- and iso-branched acids, with anteiso-C15 predominating (about 50%). The major isoprenologue was MK-7. 50 The genome size of strain V-9T was of 6,957,55 bp., with an average G+C content of 55 mol%. The pairwise average nucleotide identity (ANI) [1] between V-9T and Paenibacillus strains with available genomes calculated using IMG/M (https://img.jgi.doe.gov/cgi-bin/m/main. cgi?section=ANI&page=pairwise) ranged from 69.2 to 73.7%, with 69.7% determined between the target strain and Paenibacillus polymyxa ATCC 842T , the type strain of the type species of the genus. For comparison, the ANI values of 72.85–72.88% were found between V-9T and Thermobacillus composti, Fontibacillus phaseoli and Cohnella thermotolerans, where the latter is the type species of Cohnella. The 16S rRNA gene (1537 bp) pairwise similarity calculated using the EzBioCloud server (http://www.ezbiocloud.net/eztaxon; [2]) showed that strain V-9T had the highest similarity to P. chartarius [3] (96.5%) and P. aestuarii [4] (94.5%). The similarity values between V-9T and type strains of the remaining Paenibacillus species, including the type species of the genus, P. polymyxa [5], did not exceed 91.5% that is below 94.5–95%, a threshold indicative of distinct genera [6, 7]. Most species within the genus Paenibacillus also show low pairwise 16S rRNA gene similarity (<92%), which is evidence of the genus heterogeneity. The species currently included in Paenibacillus differ also in chemotaxonomic characters regarded as important markers in the differentiation of genera, including the cell wall diagnostic diamino acids, peptidoglycan composition, and polar lipid patterns[8]. The taxonomic dissection of heterogeneous genera with establishment of better definied novel genera, accompanied by more focused circumscription by genomic and epigenetic characteristics, could improve the taxonomy of this bacterial group (like that done previously in some other heterogeneous genera, including Bacillus and Paenibacillus). Kämpfer et al. [9] took previously the first step towards improving the taxonomy of the genus Paenibacillus when suggested the genus Cohnella within the Paenibacillus line of descent. Supporting the above views and based on clear genomic and chemotaxonomic differences of strain V-9T from the type species of the genus Paenibacillus, Paenibacillus polymyxa, and other Paenibacillus species that well nested within the genus, we suggest that strain V-9T should be described as a representative of novel genus within the Paenibacillus lineage

Natronoglycomyces albus gen. Nov., sp. nov, a haloalkaliphilic actinobacterium from a soda solonchak soil

A haloalkaliphilic hydrolytic actinobacterium, strain ACPA22T, was enriched and isolated in pure culture from saline alkaline soil (soda solonchak) in northeastern Mongolia. The isolate was facultatively alkaliphilic, growing at pH 6.5–10.5 (optimum at 7.3–9.0) and highly salt-tolerant, tolerating up to 3 M total Na+ as carbonates. The hydrolytic nature of ACPA22T was confirmed by two different growth-dependent methods and by the presence of multiple glycosidase-encoding genes in the genome. The 16S rRNA gene-based phylogenetic analysis demonstrated that strain ACPA22T formed a deep-branching lineage within the family Glycomycetaceae, with the highest sequence similarity value to Glycomyces buryatensis 18T (92.1%) and Salininema pro-teolyticum Miq-4T (91.8%). The average amino acid identity values (56.1–61.5%) between ACPA22T and other Glycomycetaceae members with available genomes did not exceed the threshold reported for different genera. The cell wall of ACPA22T contained meso-diaminopimelic acid, glycine, glutamic acid and alanine in a molar ratio, characteristic of the peptidoglycan type A1γ'. The whole-cell sugars included mannose, galactose, arabinose, ribose and xylose. The major menaquinones were MK-10(Н4) and MK-11(Н4). The identified polar lipids were represented by phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylg-lycerol, phosphatidylinositol and phosphatidylinositol mannosides. In addition, the strain had a few unidentified characteristic polar lipids, including an amine-containing phospholipid with chromatographic mobility similar to that of phosphatidylinositol. The polar lipid fatty acids were dominated by anteiso-C17:0 and iso-C16:0. The genome included a chromosome of 3.94 Mbp (G+C content 61.5 mol%) encoding 3285 proteins and two plasmids of 59.8 and 14.8 kBp. Based on the data obtained in this study, a new genus and species, Natronoglycomyces albus gen. nov., sp. nov, is proposed with the type strain ACPA22T (=DSM 106290T=VKM Ac-2771T).</p

Natronosporangium hydrolyticum gen. nov., sp. nov., a haloalkaliphilic polyhydrolytic actinobacterium from a soda solonchak soil in Central Asia

During a cultural diversity survey on hydrolytic bacteria in saline alkaline soils, a hydrolytic actinobacterium strain ACPA39T was enriched and isolated in pure culture from a soda solonchak soil in southwestern Siberia. It forms a substrate mycelium with rod-shaped sporangia containing 1–3 exospores. The isolate is obligately alkaliphilic, growing at pH 7.5–10.3 (optimum at 8.5–9.0) and moderately halophilic, tolerating up to 3 M total Na+ in the form of sodium carbonates. It is an obligately aerobic, organoheteroterophic, saccharolytic bacterium, utilizing various sugars and alpha/beta-glucans as growth substrates. According to the 16S rRNA gene-based phylogenetic analysis, strain ACPA39T forms a distinct branch within the family Micromonosporaceae, with the sequence identities below 94.5% with type strains of other genera. This is confirmed by phylogenomic analysis based on the 120 conserved single copy protein-based markers and genomic indexes (ANI, AAI). The cell-wall of ACPA39T contained meso-DAP, glycine, glutamic acid and alanine in a equimolar ratio, characteristic of the peptidoglycan type A1γ'. The whole-cell sugars include galactose and xylose. The major menaquinone is MK-10(H4). The identified polar lipids consist of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. The polar lipid fatty acids were dominated by anteiso-C17:0, iso-C16:0, iso-C17:0, 10 Me-C18:0 and C18:1ω9. Based on the distinct phylogeny, the chemotaxonomy features and unique phenotypic properties, strain ACPA39T (DSM 106523T = VKM 2772T) is classified into a new genus and species in the family Micromonosporaceae for which the name Natronosporangium hydrolitycum gen. nov., sp. nov. is proposed.BT/Environmental Biotechnolog