Class II. Betaproteobacteria class. nov.

Bell, Julia A.; Lilburn, Timothy

doi:10.1007/978-0-387-29298-4_2

Cited by 19 publications

(17 citation statements)

References 1,212 publications

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“…The most abundant fatty acids for our strains were C 18 : 1 ω7 c (20.6 %), C 16 : 0 (18.0 %), summed feature 3 (C 16 : 1 ω7 c and/or iso-C 15 : 0 2-OH; 13.1 %) and C 17 : 0 cyclo (12.3 %). The presence of C 16 : 0 3-OH supports the placement of our strains in the genus Burkholderia (Garrity et al , 2005; Yabuuchi et al , 1992). Additionally, there were noticeable differences between the fatty acid profiles of the strains isolated from L. ambigua and other type strains of the genus Burkholderia ().…”

supporting

confidence: 82%

Burkholderia dilworthii sp. nov., isolated from Lebeckia ambigua root nodules

Meyer

Cnockaert

Ardley

et al. 2014

International Journal of Systematic and Evolutionary Microbiology

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Three strains of Gram-stain-negative, rod-shaped bacteria were isolated from Lebeckia ambigua root nodules and authenticated on this host. Based on the 16S rRNA gene sequence phylogeny, they were shown to belong to the genus Burkholderia , with the representative strain WSM3556T being most closely related to Burkholderia caledonica LMG 23644T (98.70 % 16S rRNA gene sequence similarity) and Burkholderia rhynchosiae WSM3937T (98.50 %). Additionally, these strains formed a distinct group in phylogenetic trees of the housekeeping genes gyrB and recA. Chemotaxonomic data, including fatty acid profiles and analysis of respiratory quinones, supported the assignment of our strains to the genus Burkholderia . Results of DNA–DNA hybridizations, MALDI-TOF MS analysis and physiological and biochemical tests allowed genotypic and phenotypic differentiation of our strains from their nearest neighbour species. Therefore, these strains represent a novel species, for which the name Burkholderia dilworthii sp. nov. is proposed, with the type strain WSM3556T ( = LMG 27173T = HAMBI 3353T).

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supporting

confidence: 82%

Burkholderia dilworthii sp. nov., isolated from Lebeckia ambigua root nodules

Meyer

Cnockaert

Ardley

et al. 2014

International Journal of Systematic and Evolutionary Microbiology

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“…Clones identified as belonging to Rhodocyclaceae most closely related to the obligately or facultatively anaerobic genus Ferribacterium (Cummings et al, 1999 ) were only detected downstream and post-disturbance. Clones of the Methylophilaceae —a family of aerobic methylotrophic bacteria (Garrity et al, 2005 )—closely associated with the newly designated Candidatus Methylopumilus planktonicus (previously LD28) were only detected downstream post-disturbance, from late August 2011 to November 2011 (Figure S5 ), whereas related Methylophilaceae clones related to Candidatus Methylopumilus turicensis (previously PRD01a001B) were found throughout the sampling period upstream and downstream (Salcher et al, 2015 ).…”

Section: Resultsmentioning

confidence: 98%

Riverine Bacterial Communities Reveal Environmental Disturbance Signatures within the Betaproteobacteria and Verrucomicrobia

et al. 2016

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Riverine bacterial communities play an essential role in the biogeochemical coupling of terrestrial and marine environments, transforming elements and organic matter in their journey from land to sea. However, precisely due to the fact that rivers receive significant terrestrial input, the distinction between resident freshwater taxa vs. land-derived microbes can often become ambiguous. Furthermore, ecosystem perturbations could introduce allochthonous microbial groups and reshape riverine bacterial communities. Using full- and partial-length 16S ribosomal RNA gene sequences, we analyzed the composition of bacterial communities in the Tar River of North Carolina from November 2010 to November 2011, during which a natural perturbation occurred: the inundation of the lower reaches of an otherwise drought-stricken river associated with Hurricane Irene, which passed over eastern North Carolina in late August 2011. This event provided the opportunity to examine the microbiological, hydrological, and geochemical impacts of a disturbance, defined here as the large freshwater influx into the Tar River, superimposed on seasonal changes or other ecosystem variability independent of the hurricane. Our findings demonstrate that downstream communities are more taxonomically diverse and temporally variable than their upstream counterparts. More importantly, pre- vs. post-disturbance taxonomic comparison of the freshwater-dominant Betaproteobacteria class and the phylum Verrucomicrobia reveal a disturbance signature of previously undetected taxa of diverse origins. We use known traits of closely-related taxa to interpret the ecological function of disturbance-associated bacteria, and hypothesize that carbon cycling was enhanced post-disturbance in the Tar River, likely due to the flux of organic carbon into the system associated with the large freshwater pulse. Our analyses demonstrate the importance of geochemical and hydrological alterations in structuring bacterial communities, and illustrate the response of temperate riverine bacteria on fine taxonomic scales to a disturbance.

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“… Commensal human flora, opportunistic pathogens also environmental [ 46 , 47 ] Betaproteobacteria High order taxon (Class). Members largely environmental, also include human pathogens and commensals [ 60 ] Bifidobacterium spp. ( Bifidobacteriaceae ) Normal intestinal flora [ 39 ] Corynebacterium × 1 spp.…”

Section: Resultsmentioning

confidence: 99%

Metagenomic analyses of bacteria on human hairs: a qualitative assessment for applications in forensic science

et al. 2014

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BackgroundMammalian hairs are one of the most ubiquitous types of trace evidence collected in the course of forensic investigations. However, hairs that are naturally shed or that lack roots are problematic substrates for DNA profiling; these hair types often contain insufficient nuclear DNA to yield short tandem repeat (STR) profiles. Whilst there have been a number of initial investigations evaluating the value of metagenomics analyses for forensic applications (e.g. examination of computer keyboards), there have been no metagenomic evaluations of human hairs—a substrate commonly encountered during forensic practice. This present study attempts to address this forensic capability gap, by conducting a qualitative assessment into the applicability of metagenomic analyses of human scalp and pubic hair.ResultsForty-two DNA extracts obtained from human scalp and pubic hairs generated a total of 79,766 reads, yielding 39,814 reads post control and abundance filtering. The results revealed the presence of unique combinations of microbial taxa that can enable discrimination between individuals and signature taxa indigenous to female pubic hairs. Microbial data from a single co-habiting couple added an extra dimension to the study by suggesting that metagenomic analyses might be of evidentiary value in sexual assault cases when other associative evidence is not present.ConclusionsOf all the data generated in this study, the next-generation sequencing (NGS) data generated from pubic hair held the most potential for forensic applications. Metagenomic analyses of human hairs may provide independent data to augment other forensic results and possibly provide association between victims of sexual assault and offender when other associative evidence is absent. Based on results garnered in the present study, we believe that with further development, bacterial profiling of hair will become a valuable addition to the forensic toolkit.

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Class II. Betaproteobacteria class. nov.

Cited by 19 publications

References 1,212 publications

Burkholderia dilworthii sp. nov., isolated from Lebeckia ambigua root nodules

Burkholderia dilworthii sp. nov., isolated from Lebeckia ambigua root nodules

Riverine Bacterial Communities Reveal Environmental Disturbance Signatures within the Betaproteobacteria and Verrucomicrobia

Metagenomic analyses of bacteria on human hairs: a qualitative assessment for applications in forensic science

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