- MeSH
- Acinetobacter * genetika MeSH
- DNA bakterií genetika MeSH
- ekosystém MeSH
- fylogeneze MeSH
- lesy MeSH
- mastné kyseliny chemie MeSH
- RNA ribozomální 16S genetika MeSH
- sekvenční analýza DNA MeSH
- techniky typizace bakterií MeSH
- zastoupení bazí MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika MeSH
This study aimed to define the taxonomic position and structure of a novel, taxonomically unique group of 26 Acinetobacter strains, provisionally designated Taxon 24 (T24). The strains were recovered from soil and freshwater ecosystems (n = 21) or animals (n = 5) in Czechia, Scotland, Germany, the Netherlands and Turkey between 1993 and 2015. They were non-glucose-acidifying, nonhemolytic, nonproteolytic, growing at 32 °C and on acetate and ethanol as single carbon sources, but not on 4-hydroxybenzoate and mostly not at 37 °C. Their whole-genome sequences were 3.0-3.7 Mb in size, with GC contents of 39.8-41.3%. Based on core genome phylogenetic analysis, the 26 strains formed a distinct clade within the genus Acinetobacter, with strongly supported subclades termed T24A (n = 11), T24B (n = 8), T24C (n = 2), T24D (n = 3) and T24E (n = 2). The internal genomic ANIb values for these subclades were >94.8%, while the ANIb values between them were <92.5%. The results of MALDI-TOF MS-based analyses agreed with this classification. The five subclades differed from each other in the results of one to six carbon source assimilation tests. Given the genomic and phenotypic distinctness, internal coherence, numbers of available strains and geographically diverse origin of T24A and T24B, we propose the names Acinetobacter terrae sp. nov. and Acinetobacter terrestris sp. nov. for these two taxa, respectively. The type strains are ANC 4282v (= CCM 8986T = CCUG 73811T = CNCTC 8082T) and ANC 4471T (= CCM 8985T = CCUG 73812T = CNCTC 8093T), respectively. We conclude that these two species together with the other T24 strains represent a widely dispersed Acinetobacter clade primarily associated with terrestrial ecosystems.
- MeSH
- Acinetobacter * klasifikace MeSH
- bakteriální geny MeSH
- DNA bakterií genetika MeSH
- ekosystém MeSH
- fylogeneze * MeSH
- hybridizace nukleových kyselin MeSH
- půdní mikrobiologie MeSH
- RNA ribozomální 16S genetika MeSH
- sekvenční analýza DNA MeSH
- sladká voda mikrobiologie MeSH
- techniky typizace bakterií MeSH
- zastoupení bazí MeSH
- zvířata MeSH
- Check Tag
- zvířata MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika MeSH
- Německo MeSH
- Nizozemsko MeSH
- Skotsko MeSH
- Turecko MeSH
Výsledky bakteriologických analýz provedených v Laboratoři bakteriální genetiky (LBG) Státního zdravotního ústavu dokládají aktuální šíření extenzivně-rezistentních (XDR) kmenů Acinetobacter baumannii citlivých pouze ke kolistinu v tuzemských nemocnicích i mimo ně. Pro posouzení rozsahu tohoto problému na celostátní úrovni LBG proto zahajuje celorepublikové monitorování výskytu a populačně-genetických vlastností kmenů XDR A. baumannii.
The results of bacteriological analyses performed in the Laboratory of Bacterial Genetics (LBG), National Institute of Public Health show the current spread of extensively drug-resistant (XDR) strains of Acinetobacter baumannii, susceptible to colistin only, in and outside Czech hospitals. To assess the risk at the national level, LBG launches the country-wide monitoring of XDR strains of Acinetobacter baumannii and their population genetic characteristics.
In 1986, Bouvet and Grimont delineated two related taxa of the genus Acinetobacter termed genospecies (GS) 8 and 9. They proposed the name Acinetobacter lwoffii for GS8, which included the supposed type strain (CIP 64.10). As the authenticity of CIP 64.10 was later questioned, this study aimed at reassessing the taxonomy of these genospecies. We investigated 52 strains of GS8 or GS9, including CIP 64.10 and the genuine type strain of A. lwoffii (NCTC 5866T). All strains were subjected to the genus-wide comparative analyses of MALDI-TOF whole-cell mass spectra, rpoB gene sequences and metabolic traits while whole-genome sequences were analysed for 16 strains. The strains were classified into two distinct groups corresponding to GS8 (n=15) and GS9 (n=37). CIP 64.10 fell within GS8 whereas NCTC 5866T belonged to GS9. Intraspecies ANIb values for the genomes of GS8 (n=6) and GS9 (n=10) were ≥96.1% and ≥95.4%, respectively, whereas the ANIb values between them were 86.8-88.6%. Based on core genome phylogeny, GS8 and GS9 formed a distinct clade within the genus, with two respective, strongly supported subclades. GS8 and GS9 were similar in physiological and catabolic properties but were separable by MALDI-TOF MS. We conclude that the name A. lwoffii pertains to GS9 and not to GS8 as originally assumed and that these groups represent two species. We propose the name Acinetobacter pseudolwoffii sp. nov. for GS8, with ANC 5044T (=CCM 8638T=CCUG 67963T=CIP 111642T) as the type strain, and provide the emended description of A. lwoffii.
A draft whole-genome sequence was obtained for Acinetobacter guangdongensis strain KCTC 42012T and compared against those of the type strains of all Acinetobacter species with validly published names. High similarity was found to Acinetobacter indicus CCM 7832T (average nucleotide identity based on blast and digital DNA-DNA hybridization values of 96.3 and 70.4 %, respectively). In addition, the metabolic, physiological and chemotaxonomic features of KCTC 42012T were shown to be congruent with those of A. indicus. We conclude that Acinetobacter guangdongensisFeng et al. 2014 is a later heterotypic synonym of Acinetobacter indicus Malhotra et al. 2012.
Strains of the genusAcinetobacter, classified as genomic species 13BJ/14TU have been previously associated with human infections and resistance to colistin. To clarify the taxonomy of this provisional group, we investigated 24 strains that have been isolated from humans since the 1960s in 10 countries. The genus-wide analysis of the rpoB and gyrB sequences of all strains and whole-genome sequences of strains representing different rpoB/gyrB genotypes showed that the 24 strains formed a distinct monophyletic group within the so-called haemolytic clade of the genus Acinetobacter. The distinctness of the group at the species level was supported by the results of the cluster analysis of the whole-cell protein fingerprints generated by matrix-assisted laser desorption ionization-time-of-flight MS. The 24 strains had very similar metabolic features and could be distinguished from other members of the genus by the combination of strong haemolytic and proteolytic activities and the ability to oxidize d-glucose and grow on phenylacetate and/or l-phenylalanine. The minimum inhibitory concentrations of the 24 strains to colistin and polymyxin B ranged from 16 to 64 mgl-1 and from 4 to 32 mgl-1, respectively, so uniformly reaching the current clinical resistance breakpoint (4 mg l-1) for these drugs. Genus-wide comparison revealed that such a consistently high level of resistance to polymyxins is a unique feature among species of the genus Acinetobacter,which occur in humans. We conclude that genomic species 13BJ/14TU represents a biologically meaningful and medically relevant species, for which the name Acinetobacter colistiniresistens sp. nov. is proposed. The type strain is NIPH 2036T (=CCM 8641T=CIP 110478T=CCUG 67966T=CNCTC 7573T).
- MeSH
- Acinetobacter klasifikace genetika izolace a purifikace MeSH
- bakteriální geny MeSH
- bakteriální léková rezistence * MeSH
- DNA bakterií genetika MeSH
- fylogeneze * MeSH
- infekce bakteriemi rodu Acinetobacter mikrobiologie MeSH
- lidé MeSH
- polymyxiny farmakologie MeSH
- RNA ribozomální 16S genetika MeSH
- sekvenční analýza DNA MeSH
- techniky typizace bakterií MeSH
- zastoupení bazí MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
Závěrečná zpráva o řešení grantu Interní grantové agentury MZ ČR
1 svazek : ilustrace, tabulky 30 cm
Acinetobacter baumannii je významný bakteriální patogen způsobující obtížně léčitelné nemocniční infekce. Celosvětový problém antibiotické multirezistence u tohoto patogenu má významnou souvislost s rozšířením konkrétní epidemické linie, tzv. Evropského klonu II (EK II), jenž dlouhodobě převažuje také mezi multirezistentními kmeny acinetobakterů v ČR. Cílem projektu je poznání genetických faktorů zodpovědných za pokračující vývoj rezistence u tohoto klonu. Východiskem projektu bude srovnávací materiál zahrnující multirezistentní izoláty reprezentující současnou i historickou nemocniční populaci A. baumannii v ČR a dalších zemí. Faktory zodpovědné za vývoj multirezistence budou studovány na nemocničních a laboratorních liniích izogenních izolátů EK II s různým rezistotypem pomocí moderních postupů strukturální a funkční genetické analýzy včetně populačně-genetické analýzy, celogenomové srovnávací analýzy, a kvantifikace genové exprese mechanizmů rezistence na úrovni transkripce a enzymové aktivity.; Acinetobacter baumannii is an important bacterial pathogen causing intractable hospital infections. The escalating global problem of its multiple drug resistance (MDR) of this pathogen is significantly associated with the spread of a particular epidemic lineage (EC II) which also prevails in the Czech Republic (CR). The project aim is to identify the genetic factors responsible for the ongoing development of MDR in EC II. The point of departure will be a comprehensive collection of isolates representing the current and historical A. baumannii populations from the CR and other countries. Factors responsible for the development of MDR will be studied in epidemic and laboratory lineages of isogenic isolates of EC II differing in the level of resistance by applying state of the art approaches of structural and functional genetic analysis including population-genetic analysis, whole-genome comparative analysis and quantification of gene expression at the transcriptional and enzymatic levels.
- MeSH
- Acinetobacter baumannii MeSH
- analýza polymorfismu délky amplifikovaných restrikčních fragmentů MeSH
- buněčné klony MeSH
- celogenomová asociační studie MeSH
- genotypizační techniky MeSH
- infekce bakteriemi rodu Acinetobacter epidemiologie MeSH
- infekce spojené se zdravotní péčí MeSH
- karbapenemy MeSH
- mnohočetná bakteriální léková rezistence MeSH
- polymerázová řetězová reakce s reverzní transkripcí MeSH
- pulzní gelová elektroforéza MeSH
- Geografické názvy
- Česká republika MeSH
- Konspekt
- Biochemie. Molekulární biologie. Biofyzika
- NLK Obory
- genetika, lékařská genetika
- farmacie a farmakologie
- infekční lékařství
- bakteriologie
- NLK Publikační typ
- závěrečné zprávy o řešení grantu IGA MZ ČR
Two novel species names, Acinetobacter bohemicus and Acinetobacter pakistanensis, appeared on validation list no. 161 (January 2015) under priority numbers 26 and 28, respectively. As the published data suggested a high similarity of the organisms associated with these names, we aimed to define their taxonomic relationship. The study set included all strains used in the original nomenclatural proposals, i.e. 25 strains of A. bohemicus and one strain of A. pakistanensis. The average nucleotide identity values (95.9 and 96.1 % based on blast and MUMmer, respectively) between the whole-genome sequences of A. bohemicus ANC 3994T and A. pakistanensis KCTC 42081T supported the identity of these type strains at the species level. Based on the genus-wide comparative analyses of the rpoB sequences and whole-cell fingerprints generated by matrix-assisted laser desorption/ionization-time-of-flight MS, A. pakistanensis KCTC 42081T fell within the respective clusters formed by the 25 A. bohemicus strains. The same picture was obtained on the basis of comparative analysis of 16S rRNA gene sequences of KCTC 42081T and three A. bohemicus strains. Finally, the metabolic and physiological features of KCTC 42081T were found to be congruent with those of A. bohemicus. Based on these results, we conclude that Acinetobacter pakistanensis is a later heterotypic synonym of Acinetobacter bohemicus.
We aimed to define the taxonomic status of 40 haemolytic and/or proteolytic strains of the genus Acinetobacter which were previously classified into five putative species termed as genomic species 14BJ (n=9), genomic species 17 (n=9), taxon 18 (n=7), taxon 19 (n=6) and taxon 20 (n=9). The strains were recovered mostly from human clinical specimens or soil and water ecosystems and were highly diverse in geographical origin and time of isolation. Comparative analysis of the rpoB and gyrB gene sequences of all strains, and the whole-genome sequences of selected strains, showed that these putative species formed five respective, well-supported clusters within a distinct clade of the genus Acinetobacter which typically, although not exclusively, encompasses strains with strong haemolytic activity. The whole-genome-based average nucleotide identity (ANIb) values supported the species status of each of these clusters. Moreover, the distinctness and coherence of the clusters were supported by whole-cell profiling based on MALDI-TOF MS. Congruent with these findings were the results of metabolic and physiological testing. We conclude that the five putative taxa represent respective novel species, for which the names Acinetobacter courvalinii sp. nov. (type strain ANC 3623T=CCUG 67960T=CIP 110480T=CCM 8635T), Acinetobacter dispersus sp. nov. (type strain ANC 4105T=CCUG 67961T=CIP 110500T=CCM 8636T), Acinetobacter modestus sp. nov. (type strain NIPH 236T=CCUG 67964T=CIP 110444T=CCM 8639T), Acinetobacter proteolyticus sp. nov. (type strain NIPH 809T=CCUG 67965T=CIP 110482T = CCM 8640T) and Acinetobacter vivianii sp. nov. (type strain NIPH 2168T=CCUG 67967T=CIP 110483T=CCM 8642T) are proposed.
- MeSH
- Acinetobacter klasifikace genetika MeSH
- bakteriální geny MeSH
- DNA bakterií genetika MeSH
- fylogeneze * MeSH
- sekvenční analýza DNA MeSH
- spektrometrie hmotnostní - ionizace laserem za účasti matrice MeSH
- techniky typizace bakterií MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
