Publications

4466

ABSTRACTCandidatus Ornithobacterium hominissp. nov. represents a new member of the Flavobacteriaceae detected in 16S rRNA gene surveys from Southeast Asia, Africa and Australia. It frequently colonises the infant nasopharynx at high proportional abundance, and we demonstrate its presence in 42% of nasopharyngeal swabs from 12 month old children in the Maela refugee camp in Thailand. The species, a Gram negative bacillus, has not yet been cultured but the cells can be identified in mixed samples by fluorescent hybridisation. Here we report seven genomes assembled from metagenomic data, two to improved draft standard. The genomes are approximately 1.9Mb, sharing 62% average amino acid identity with the only other member of the genus, the bird pathogenOrnithobacterium rhinotracheale.The draft genomes encode multiple antibiotic resistance genes, competition factors,Flavobacterium johnsoniae-like gliding motility genes and a homolog of thePasteurella multocidamitogenic toxin. Intra- and inter-host genome comparison suggests that colonisation with this bacterium is both persistent and strain exclusive.

ABSTRACT Here, we report the draft genome sequence of “ Candidatus Liberibacter europaeus” ASNZ1, assembled from broom psyllids ( Arytainilla spartiophila ) from New Zealand. The assembly comprises 15 contigs, with a total length of 1.33 Mb and a G+C content of 33.5%.

AbstractThe newly discoveredCandidatus‘Methanoperedens nitroreducens’ (M.nitroreducens), mediating nitrate-dependent anaerobic oxidation of methane, is an important microorganism in linking carbon and nitrogen cycles. In order to explore the diversity ofM.nitroreducens-like archaea in various environmental niches with advanced high-throughput sequencing, new primers based on alpha subunit of methyl-coenzyme M reductase gene were designed. The PCR results demonstrated that the new primers could effectively detectM.nitroreducens-like archaea from an enrichment culture dominated byM.nitroreducensas well as samples collected from a natural freshwater lake and a full-scale wastewater treatment plant (WWTP). By high-throughput sequencing, more than 30,000M.nitroreducens-like sequences were obtained. Phylogenetic analysis of these sequences along with published sequences showed thatM.nitroreducens-like archaea could be divided into three sub-branches (named as Group A, Group B and Group C in this study). Clear geographical difference was observed, with Group A and Group B dominating samples in Queensland (Australia) and in European ecosystems, respectively. Further quantitative PCR revealed that theM.nitroreducens-like archaea were more abundant in WWTP than the freshwater lake. The study provided a large number of sequences forM.nitroreducens-like archaeal communities, thus expanded our understanding on the ecological diversity ofM.nitroreducens-like archaea.


 
 
 El “permanente del tomate”, “manchado del tubérculo” o “zebra chip” en papa y “brotes cloróticos” del chile, son tres enfermedades descritas en México con signos coincidentes de aborto de flor, oscurecimiento de tejido vascular en la base del tallo y raíz de las plantas. Se ha mencionado la asociación entre estas enfermedades y la bacteria emergente Candidatus Liberibacter solanacearum (CLs) así como al psílido Bactericera cockerelli como su vector. Estas enfermedades, que en inicio se localizaban en tres estados de México se han diseminado a las principales regiones productoras de solanáceas, tanto en condiciones de campo como en invernadero. El objetivo del estudio fue conocer la presencia de CLs asociado a enfermedades que afectan los cultivos de tomate, para y chile en México. La bacteria se identificó por PCR del gen 16S de ADNr, clonación y secuenciación. La alineación de secuencias nucleotídicas se realizó con el método Clustal W y el árbol filogenético se construyó con el algoritmo de Neighbor-Joining a partir de distancias calculadas con el método de Tajima-Nei y un índice de Felsenstein de 1 000 réplicas, utilizando el software MEGA versión 5.05. En total se analizaron 167 muestras, de las cuales 86 resultaron positivas, provenientes de 14 estados de México. Se obtuvieron cinco secuencias nucleotídicas de Guanajuato, San Luis Potosí y Sinaloa correspondientes al tomate, papa y chile, adultos y huevecillos de B. cockerelli. El análisis de las secuencias mostró una identidad de 99.4% al comparase entre estas y hasta 99.8% con accesiones del GenBank descritas para CLs en EUA, Nueva Zelanda y Canadá.
 
 

ABSTRACT “ Candidatus Phycosocius bacilliformis” is an alphaproteobacterial ectosymbiont of the hydrocarbon-producing green alga Botryococcus braunii . We sequenced the whole genome of “ Ca. P. bacilliformis” BOTRYCO-2, isolated from a two-membered culture with B. braunii . The genome contains approximately 3.3 Mb, with an average G+C content of 56.91% and 3,125 predicted protein-coding genes.

ABSTRACT Here, we present the draft genome sequence of an anaerobic ammonium-oxidizing bacterium (AnAOB), “ Candidatus Brocadia,” which was enriched in an anammox reactor. A 3.2-Mb genome sequence comprising 168 contigs was assembled, in which 2,765 protein-coding genes, 47 tRNAs, and one each of 5S, 16S, and 23S rRNAs were annotated. No evidence for the presence of a nitric oxide-forming nitrite reductase was found.