Description of Afipia birgiae sp. nov. and Afipia massiliensis sp. nov. and recognition of Afipia felis genospecies A.

Scola, Bernard La; Mallet, M N; Grimont, Patrick A. D.; Raoult, Didier

doi:10.1099/00207713-52-5-1773

Cited by 33 publications

(23 citation statements)

References 49 publications

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“…4 G9018, with a similarity of greater than 99.9% within the determined sequence regions. Afipia species are diverged in the a-2 group (La Scola et al 2002) and, very recently, similar clustering to the above result was reported using Afipia genosp. 4 and Rhodopseudomonas species including strain E13 (Lester et al 2007).…”

Section: Resultssupporting

confidence: 86%

Composition and localization of bacteriochlorophyll a intermediates in the purple photosynthetic bacterium Rhodopseudomonas sp. Rits

et al. 2007

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Rhodopseudomonas sp. Rits is a recently isolated new species of photosynthetic bacteria and found to accumulate a significantly high amount of bacteriochlorophyll (BChl) a intermediates possessing non-, di- and tetra-hydrogenated geranylgeranyl groups at the 17-propionate as well as normal phytylated BChl a (Mizoguchi T et al. (2006) FEBS Lett 580:137-143). A phylogenetic analysis showed that this bacterium was closely related to Rhodopseudomonas palustris. The strain Rits synthesizes light-harvesting complexes 2 and 4 (LH2/4), as peripheral antennas, as well as the reaction center and light-harvesting 1 core complex (RC-LH1 core). The amounts of these complexes were dependent upon the incident light intensities, which was also a typical behavior of Rhodopseudomonas palustris. HPLC analyses of extracted pigments indicated that all four BChls a were associated with the purified photosynthetic pigment-protein, as complexes described above. The results suggested that this bacterium could use these pigments as functional molecules within the LH2/4 and RC-LH1 core. Pigment compositional analyses in several purple photosynthetic bacteria showed that such BChl a intermediates were always detected and were more widely distributed than expected. Long chains in the propionate moiety of BChl a would be one of the important factors for assembly of LH systems in purple photosynthetic bacteria.

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Section: Resultssupporting

confidence: 86%

Composition and localization of bacteriochlorophyll a intermediates in the purple photosynthetic bacterium Rhodopseudomonas sp. Rits

et al. 2007

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“…The test results obtained displaying important sugar assimilations and biochemical reactions are listed in Table 1. Since the genomic studies revealed that OHSU_II and OHSU_I bacteria were most closely related to Afipia bacteria (see below), properties of established Afipia species reported in previous studies [9], [13] are also listed in Table 1 for comparison. It was noted that the un-cloned bacteria pre-grown on different kinds of agar plates produced different biochemical reaction results in some tests.…”

Section: Resultsmentioning

confidence: 99%

“…Afipia species were found to be amoeba-resistant [21], a property allowing the microbes to survive inside macrophages. Using the amoebal co-cultivation system, La Scola et al reported isolation of 2 species A. birgiae and A. massiliensis as well as an A. felis genospecies A from a hospital water supply [9]. It was hypothesized that some Afipia bacteria were likely causative agents of nosocomial infections.…”

Section: Discussionmentioning

confidence: 99%

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Isolation of Novel Afipia septicemium and Identification of Previously Unknown Bacteria Bradyrhizobium sp. OHSU_III from Blood of Patients with Poorly Defined Illnesses

Hung

et al. 2013

PLoS ONE

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Cultures previously set up for isolation of mycoplasmal agents from blood of patients with poorly-defined illnesses, although not yielding positive results, were cryopreserved because of suspicion of having low numbers of unknown microbes living in an inactive state in the broth. We re-initiated a set of 3 cultures for analysis of the "uncultivable" or poorly-grown microbes using NGS technology. Broth of cultures from 3 blood samples, submitted from OHSU between 2000 and 2004, were inoculated into culture flasks containing fresh modified SP4 medium and kept at room temperature (RT), 30°C and 35°C. The cultures showing evidence of microbial growth were expanded and subjected to DNA analysis by genomic sequencing using Illumina MiSeq. Two of the 3 re-initiated blood cultures kept at RT after 7–8 weeks showed evidence of microbial growth that gradually reached into a cell density with detectable turbidity. The microbes in the broth when streaked on SP4 agar plates produced microscopic colonies in ∼ 2 weeks. Genomic studies revealed that the microbes isolated from the 2 blood cultures were a novel Afipia species, tentatively named Afipia septicemium. Microbes in the 3rd culture (OHSU_III) kept at RT had a limited level of growth and could not reach a plateau with high cell density. Genomic sequencing identified the microbe in the culture as a previously unknown species of Bradyrhizobium bacteria. This study reports on the isolation of novel Afipia and Bradyrhizobium species. Isolation of Bradyrhizobium species bacteria has never been reported in humans. The study also reveals a previously unrecognized nature of hematogenous infections by the 2 unique groups of Bradyrhizobiaceae. Our studies show that improvement of culture system plus effective use of NGS technology can facilitate findings of infections by unusual microbes in patients having poorly-defined, sometimes mysterious illnesses.

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“…This genus comprises of gram-negative, motile, oxidase-positive bacteria belonging to the alpha-2 subgroup of the class Proteobacteria . Subsequently, the isolation of Afipia birgiae , Afipia massiliensis and A. felis genospecies A from hospital water supply using amoeba co-cultivation was described in 2002 [2]. More recently, our lab isolated a novel species A. septicemium OHSU_I and OHSU_II from the blood cultures of 2 patients with poorly defined clinical illnesses [3].…”

Section: Experimental Design Materials and Methodsmentioning

confidence: 99%

Genome sequencing and annotation of Afipia septicemium strain OHSU_II

et al. 2014

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Description of Afipia birgiae sp. nov. and Afipia massiliensis sp. nov. and recognition of Afipia felis genospecies A.

Cited by 33 publications

References 49 publications

Composition and localization of bacteriochlorophyll a intermediates in the purple photosynthetic bacterium Rhodopseudomonas sp. Rits

Composition and localization of bacteriochlorophyll a intermediates in the purple photosynthetic bacterium Rhodopseudomonas sp. Rits

Isolation of Novel Afipia septicemium and Identification of Previously Unknown Bacteria Bradyrhizobium sp. OHSU_III from Blood of Patients with Poorly Defined Illnesses

Genome sequencing and annotation of Afipia septicemium strain OHSU_II

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