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1.
Syst Appl Microbiol ; 47(5): 126527, 2024 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-38959748

RESUMO

Novel, white-pigmented, Gram-negative bacterial strains (K-M0706T, K-M0228, K-M0252, K-M0260) were isolated from clinical samples. With a similarity of up to 69.7 % to Serratia nevei S15T and up to 63.8 % to Serratia marcescens ATCC 13880T, as determined by digital DNA-DNA hybridization, the strains were assigned as novel species of the genus Serratia. The species can easily be differentiated from the red colored Serratia marcescens sensu stricto by its white phenotype. Discrimination between this strain and Serratia nevei is possible due to alpha-glucosidase activity and O/129-resistance, as shown for strain K-M0706T. The major fatty acids were determined as myristate, palmitate, cis-9,10-methylenehexadecanoate, linoleate, and (all cis-9,10)-methyleneoctadecanoate. These phenotypical and genomic data support the assignment of a novel species within the genus Serratia, named S. sarumanii due to its pathogenicity and white phenotype, with strain K-M0706T as the type strain.


Assuntos
Serratia , Infecção dos Ferimentos , Serratia/classificação , Serratia/genética , Serratia/isolamento & purificação , Especificidade da Espécie , Infecção dos Ferimentos/microbiologia , Alemanha , Fenótipo , Genoma Bacteriano/genética , Filogenia , Humanos
2.
Microbiol Resour Announc ; : e0069924, 2024 Sep 27.
Artigo em Inglês | MEDLINE | ID: mdl-39329482

RESUMO

Photosynthetic organisms often interact with heterotrophic microbes. We here report the complete genome sequences of the bacterial strains Asticcacaulis sp. MM231 and Brevundimonas subvibrioides MM232. Both bacteria were co-isolated from a single green colony originating from an aquatic sample taken from a pond at the Bielefeld University campus.

3.
Microbiol Resour Announc ; : e0070024, 2024 Sep 26.
Artigo em Inglês | MEDLINE | ID: mdl-39324786

RESUMO

We cultivated bacteria contained in a sandy soil sample, isolated DNA from a single bacterial colony, and assembled from genomic reads the full genome sequence of Chitinophaga and Microbacterium strains, termed MM2321 and MM2322. Besides the genome sequences, the phylogenetic classifications of both strains are reported.

5.
Viruses ; 13(9)2021 09 18.
Artigo em Inglês | MEDLINE | ID: mdl-34578452

RESUMO

Genomic surveillance of the SARS-CoV-2 pandemic is crucial and mainly achieved by amplicon sequencing protocols. Overlapping tiled-amplicons are generated to establish contiguous SARS-CoV-2 genome sequences, which enable the precise resolution of infection chains and outbreaks. We investigated a SARS-CoV-2 outbreak in a local hospital and used nanopore sequencing with a modified ARTIC protocol employing 1200 bp long amplicons. We detected a long deletion of 168 nucleotides in the ORF8 gene in 76 samples from the hospital outbreak. This deletion is difficult to identify with the classical amplicon sequencing procedures since it removes two amplicon primer-binding sites. We analyzed public SARS-CoV-2 sequences and sequencing read data from ENA and identified the same deletion in over 100 genomes belonging to different lineages of SARS-CoV-2, pointing to a mutation hotspot or to positive selection. In almost all cases, the deletion was not represented in the virus genome sequence after consensus building. Additionally, further database searches point to other deletions in the ORF8 coding region that have never been reported by the standard data analysis pipelines. These findings and the fact that ORF8 is especially prone to deletions, make a clear case for the urgent necessity of public availability of the raw data for this and other large deletions that might change the physiology of the virus towards endemism.


Assuntos
COVID-19/virologia , Genes Virais , SARS-CoV-2/genética , Deleção de Sequência , Variação Genética , Humanos , Sequenciamento por Nanoporos , Fases de Leitura Aberta , Análise de Sequência de RNA , Sequenciamento Completo do Genoma
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