Algoriphagus olei sp. nov., isolated from oil-contaminated soil

Young, Chiu-Chung; Lin, Shi-Yao; Arun, A. B.; Shen, Fo-Ting; Chen, Wen-Ming; Rekha, P. D.; Langer, Stefan; Busse, Hans‐Jürgen; Wu, Ying-Hsin; Kämpfer, Peter

doi:10.1099/ijs.0.009415-0

Cited by 42 publications

(21 citation statements)

References 32 publications

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“…S3). The DNA G+C content of strain W29 T was 46.2 mol%, in agreement with values reported for other members of genus Algoriphagus (Young et al, 2009). Based on phylogenetic distinctness (based on 16S rRNA gene sequences) and DNA-DNA relatedness, along with clear differences in physiochemical and chemotaxonomic characteristics, strain W29 T represents a novel species of the genus Algoriphagus, for which the name Agoriphagus roseus sp.…”

Section: Algoriphagus Boseongensis Bs-r1 T (Kf768344) 'Algoriphagus Ssupporting

confidence: 85%

Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite

Kohli

Nayyar

Sharma

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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A Gram-staining negative, reddish-pink, non-motile, rod-shaped bacterial strain designated W29 T , was isolated from a hexachlorocyclohexane-contaminated dumpsite located in the northern part of India at Ummari Village, Lucknow. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain W29 T formed a lineage within the genus Algoriphagus and exhibited highest sequence similarity to Algoriphagus trabzonensis MS7 T (98.8 %), followed by Algoriphagus alkaliphilus AC-74 T (97.1 %). The 16S rRNA gene sequence similarity between strain W29 T and other species of the genus Algoriphagus ranged from 93.3-98.8 %. The DNA-DNA relatedness between strain W29 T and A. trabzonensis MS7 T was 47 % and with other related strains was found to be less than 45 %, confirming strain W29 T represents a novel species. The DNA G+C content of strain W29 T was 46.2 mol%. Strain W29 T was oxidase-and catalase-positive. The major fatty acids (>10 %) of strain W29 T were iso-C 15 : 0 , summed feature 9 (comprising 10-methyl C 16 : 0 and/or iso-C 17 : 1 !9c) and summed feature 3 (comprising C 16 : 1 !6c and/or C 16 : 1 !7c). The respiratory quinone was MK-7. The polar lipid profile consisted of phosphatidylethanolamine, diphosphatidylglycerol, two unidentified aminolipids, an unidentified aminophospholipid, an unidentified phospholipid and unidentified lipids. On the basis of the results obtained from DNA-DNA hybridization, and biochemical and physiological tests in this study, strain W29 T represents a novel species of the genus Algoriphagus for which the name Algoriphagus roseus sp. nov. is proposed. The type strain is W29 T (=KCTC 42940 T =MCC 2876 T =DSM 100160 T ).

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Section: Algoriphagus Boseongensis Bs-r1 T (Kf768344) 'Algoriphagus Ssupporting

confidence: 85%

Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite

Kohli

Nayyar

Sharma

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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“…1A), and their higher contribution to the NAG‐active community was paralleled by their rising abundances. The ability to grow on NAG seems to be widespread within this group, because 13 of 16 tested Algoriphagus type‐strains were capable of NAG utilization (Young et al ., 2009).…”

Section: Discussionmentioning

confidence: 99%

Rapid successions affect microbial N‐acetyl‐glucosamine uptake patterns during a lacustrine spring phytoplankton bloom

Eckert

Salcher

Posch

et al. 2011

Environmental Microbiology

129

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The vernal successions of phytoplankton, heterotrophic nanoflagellates (HNF) and viruses in temperate lakes result in alternating dominance of top-down and bottom-up factors on the bacterial community. This may lead to asynchronous blooms of bacteria with different life strategies and affect the channelling of particular components of the dissolved organic matter (DOM) through microbial food webs. We followed the dynamics of several bacterial populations and of other components of the microbial food web throughout the spring phytoplankton bloom period in a pre-alpine lake, and we assessed bacterial uptake patterns of two constituents of the labile DOM pool (N-acetyl-glucosamine [NAG] and leucine). There was a clear genotypic shift within the bacterial assemblage, from fast growing Cytophaga-Flavobacteria (CF) affiliated with Fluviicola and from Betaproteobacteria (BET) of the Limnohabitans cluster to more grazing resistant AcI Actinobacteria (ACT) and to filamentous morphotypes. This was paralleled by successive blooms of viruses and HNF. We also noted the transient rise of other CF (related to Cyclobacteriaceae and Sphingobacteriaceae) that are not detected by fluorescence in situ hybridization with the general CF probe. Both, the average uptake rates of leucine and the fractions of leucine incorporating bacteria were approximately five to sixfold higher than of NAG. However, the composition of the NAG-active community was much more prone to genotypic successions, in particular of bacteria with different life strategies: While 'opportunistically' growing BET and CF dominated NAG uptake in the initial period ruled by bottom-up factors, ACT constituted the major fraction of NAG active cells during the subsequent phase of high predation pressure. This indicates that some ACT could profit from a substrate that might in parts have originated from the grazing of protists on their bacterial competitors.

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“…Strikingly, we found that it is present in 100% (18/18) of Photorhabdus genomes in our dataset with 2-5 eCIS operon copies per genome (Fisher exact test, odds ra o = infinity, q value = 2.97e -28 ), 89% of sequenced Chi nophaga (odds ra o = 276, q value = 1.69e -35 ), 86% of sequenced Dickeya (odds ra o = 211, q value = 3.78e -52 ), and 69% of sequenced Algoriphagus (odds ra o = 73, q value = 1.99e -24 ). These genera are known as environmental microbes; Photorhabdus is a commensal of entomopathogenic nematodes 18 , Chi nophaga is a soil microbe and a fungal endosymbiont 19 , Dickeya is a plant and pea aphid pathogen 20,21 , and Algoriphagus is an aqua c or terrestrial microbe [22][23][24][25][26] . In contrast, eCIS is strongly depleted from the most cultured and sequenced genera of Gram-posi ve and nega ve human pathogens, including Staphylococcus , Escherichia , Salmonella , Streptococcus , Acinetobacter , and Klebsiella .…”

Section: Ecis Displays a Highly Biased Taxonomic Distribu Onmentioning

confidence: 99%

The extracellular contractile injection system is enriched in environmental microbes and associates with numerous toxins

Geller

Pollin

Zlotkin

et al. 2020

Preprint

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Bacteria employ toxin delivery systems to exclude bacterial competitors and to infect host cells. Characterization of these systems and the toxins they secrete is important for understanding microbial interactions and virulence in different ecosystems. The extracellular Contractile Injection System (eCIS) is a toxin delivery particle that evolved from a bacteriophage tail. Four known eCIS systems have been shown to mediate interactions between bacteria and their invertebrate hosts, but the broad ecological function of these systems remains unknown. Here, we identify eCIS loci in 1,249 prokaryotic genomes and reveal a striking enrichment of these loci in environmental microbes and absence from mammalian pathogens. We uncovered 13 toxin genes that associate with eCIS from diverse microbes and show that they can inhibit growth of bacteria, yeast or both. We also found immunity genes that protect bacteria from self-intoxication, supporting an antibacterial role for eCIS. Furthermore, we identified multiple new eCIS core genes including a conserved eCIS transcriptional regulator. Finally, we present our data through eCIStem; an extensive eCIS repository. Our findings define eCIS as a widespread environmental prokaryotic toxin delivery system that likely mediates antagonistic interactions with eukaryotes and prokaryotes. Future understanding of eCIS functions can be leveraged for the development of new biological control systems, antimicrobials, and cell-free protein delivery tools.

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Algoriphagus olei sp. nov., isolated from oil-contaminated soil

Cited by 42 publications

References 32 publications

Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite

Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite

Rapid successions affect microbial N‐acetyl‐glucosamine uptake patterns during a lacustrine spring phytoplankton bloom

The extracellular contractile injection system is enriched in environmental microbes and associates with numerous toxins

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