| paracoccus thiocyanatus sp. nov., a new species of thiocyanate-utilizing facultative chemolithotroph, and transfer of thiobacillus versutus to the genus paracoccus as paracoccus versutus comb. nov. with emendation of the genus. | a facultatively chemolithotrophic thiocyanate-degrading bacterium, strain thi 011t, which was previously isolated from activated sludge and tentatively named thiobacillus sp., was studied taxonomically and phylogenetically. this bacterium utilizes thiocyanate as sole energy source and the specific growth rate for chemolithoautotrophic growth with thiocyanate was 0.059 h-1. molecular phylogenetic relationships of strain thi 011t to thiobacillus versutus and members of the genus paracoccus were el ... | 1995 | 7545513 |
| architecture and functions of a multipartite genome of the methylotrophic bacterium paracoccus aminophilus jcm 7686, containing primary and secondary chromids. | paracoccus aminophilus jcm 7686 is a methylotrophic α-proteobacterium capable of utilizing reduced one-carbon compounds as sole carbon and energy source for growth, including toxic n,n-dimethylformamide, formamide, methanol, and methylamines, which are widely used in the industry. p. aminophilus jcm 7686, as many other paracoccus spp., possesses a genome representing a multipartite structure, in which the genomic information is split between various replicons, including chromids, essential plasm ... | 2014 | 24517536 |
| paracoccus zhejiangensis sp. nov., isolated from activated sludge in wastewater-treatment system. | a bacterial strain, designated j6(t), was isolated from activated sludge, collected from a chemical wastewater treatment system in zhejiang province of china. the cells stained gram-negative, were aerobic, pale-yellow, and non-motile short rods. phylogenetic analysis of the 16s rrna gene sequence indicated that the closest relative of this organism was paracoccus aminophilus kacc 12262(t) = jcm 7686(t) (97.4 % sequence similarity). strain j6(t) grew at 10-37 °c (optimum 30 °c), at ph 6.0-8.0 (op ... | 2013 | 23653121 |
| paracoccus lutimaris sp. nov., isolated from a tidal flat sediment. | a gram-negative, coccoid or oval-shaped and gliding bacterial strain, designated hdm-25(t), belonging to the alphaproteobacteria, was isolated from a tidal flat sediment of the yellow sea, korea, and was subjected to a polyphasic taxonomic study. strain hdm-25(t) grew optimally at ph 7.0-8.0, at 30 °c and in the presence of 2-3% (w/v) nacl. neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16s rrna gene sequences showed that strain hdm-25(t) fell within the ... | 2014 | 24860114 |
| bacterial structure of aerobic granules is determined by aeration mode and nitrogen load in the reactor cycle. | this study investigated how the microbial composition of biomass and kinetics of nitrogen conversions in aerobic granular reactors treating high-ammonium supernatant depended on nitrogen load and the number of anoxic phases in the cycle. excellent ammonium removal and predomination of full nitrification was observed in the reactors operated at 1.1 kg tkn m(-3) d(-1) and with anoxic phases in the cycle. in all reactors, proteobacteria and actinobacteria predominated, comprising between 90.14% and ... | 2015 | 25678296 |
| maintenance and genetic load of plasmid pkon1 of paracoccus kondratievae, containing a highly efficient toxin-antitoxin module of the hipab family. | paracoccus kondratievae ncimb 13773(t), isolated from the maize rhizosphere, carries a large (95,049 bp) plasmid pkon1, whose structure has been significantly influenced by transposition. almost 30% of the plasmid genome is composed of complete or truncated insertion sequences (iss), representing seven is families. the iss are accompanied by numerous genes and gene clusters commonly found in bacterial chromosomes, encoding, among others, (i) a putative type iii secretion system of the rhizobiale ... | 2015 | 25752994 |
| paracoccus cavernae sp. nov., isolated from a show cave. | a gram-stain-negative, aerobic, non-motile, non-spore-forming bacterium, strain 0511ard5e5t, was isolated from an air sample collected in ardales cave (malaga, spain). strain 0511ard5e5t grew at 4-37 °c and in the presence of 0-4 % (w/v) nacl [optimally at 25 °c and with 1 % (w/v) nacl]. cells were catalase- and oxidase-positive. the major respiratory quinone was ubiquinone-10. the predominant fatty acids were c18:1ω7c and c16:0. the dna g+c content was 63.2 mol%. phylogenetic analysis based on ... | 2016 | 26971128 |
| exploration of the 1-deoxy-d-xylulose 5-phosphate synthases suitable for the creation of a robust isoprenoid biosynthesis system. | 1-deoxy-d-xylulose 5-phosphate synthase (dxs) is a rate-limiting enzyme in the 2-c-methyl-d-erythritol 4-phosphate (mep) pathway, which is responsible for production of two precursors of all isoprenoids, isopentenyl diphosphate and dimethylallyl diphosphate (dmapp). previously, we attempted the overexpression of endogenous dxs in synechocystis sp. pcc6803, and revealed that although the mrna level was 4-fold higher, the dxs protein level was only 1.5-fold higher compared with those of the origin ... | 2017 | 27856234 |
| genome-guided insight into the methylotrophy of paracoccus aminophilus jcm 7686. | paracoccus aminophilus jcm 7686 (alphaproteobacteria) is a facultative, heterotrophic methylotroph capable of utilizing a wide range of c1 compounds as sole carbon and energy sources. analysis of the jcm 7686 genome revealed the presence of genes involved in the oxidation of methanol, methylamine, dimethylamine, trimethylamine, n,n-dimethylformamide, and formamide, as well as the serine cycle, which appears to be the only c1 assimilatory pathway in this strain. many of these genes are located in ... | 2015 | 26347732 |
| functional characterization of the type ii pami restriction-modification system derived from plasmid pami7 of paracoccus aminophilus jcm 7686. | plasmid pami7 of the methylotrophic bacterium paracoccus aminophilus jcm 7686 (alphaproteobacteria) encodes a functional type ii restriction-modification (r-m) system designated pami. homologous systems were identified in the genomes of distinct taxonomic groups of bacteria and archaea, which provides evidence that horizontal gene transfer has contributed to the wide dissemination of r-m modules - even between domains. analysis of the cleavage specificity of the r.pami endonuclease revealed that ... | 2011 | 22092764 |
| diy series of genetic cassettes useful in construction of versatile vectors specific for alphaproteobacteria. | we have developed a diy (do it yourself) series of genetic cassettes, which facilitate construction of novel versatile vectors for alphaproteobacteria. all the cassettes are based on defined genetic modules derived from three natural plasmids of paracoccus aminophilus jcm 7686. we have constructed over 50 diy cassettes, which differ in structure and specific features. all of them are functional in eight strains representing three orders of alphaproteobacteria: rhodobacterales, rhizobiales and ca ... | 2011 | 21569803 |
| plasmid pami2 of paracoccus aminophilus jcm 7686 carries n,n-dimethylformamide degradation-related genes whose expression is activated by a luxr family regulator. | n,n-dimethylformamide (dmf), a toxic solvent used in the chemical industry, is frequently present in industrial wastes. plasmid pami2 (18.6 kb) of paracoccus aminophilus jcm 7686 carries genetic information which is crucial for methylotrophic growth of this bacterium, using dmf as the sole source of carbon and energy. besides a conserved backbone related to pagk84 of agrobacterium radiobacter k84, pami2 carries a three-gene cluster coding for the protein dmfr, which has sequence similarities to ... | 2010 | 20118371 |
| paracoccus marinus sp. nov., an adonixanthin diglucoside-producing bacterium isolated from coastal seawater in tokyo bay. | two novel marine, gram-negative, non-motile, catalase- and oxidase-positive, aerobic bacteria were isolated from coastal seawater in tokyo bay. analysis of almost-complete 16s rrna gene sequences showed that the two isolates are members of the genus paracoccus, sharing highest 16s rrna gene sequence similarity (96.5 %) with paracoccus aminophilus nbrc 16710(t). the dna-dna reassociation values between p. aminophilus nbrc 16710(t) and these isolates were only 10-20 %, in contrast to the high dna ... | 2008 | 18218935 |
| the sxt conjugative element and linear prophage n15 encode toxin-antitoxin-stabilizing systems homologous to the tad-ata module of the paracoccus aminophilus plasmid pami2. | a group of proteic toxin-antitoxin (ta) cassettes whose representatives are widely distributed among bacterial genomes has been identified. these cassettes occur in chromosomes, plasmids, bacteriophages, and noncomposite transposons, as well as in the sxt conjugative element of vibrio cholerae. the following four homologous loci were subjected to detailed comparative studies: (i) tad-ata from plasmid pami2 of paracoccus aminophilus (the prototype of this group), (ii) gp49-gp48 from the linear ba ... | 2007 | 17158670 |
| paracoccus aminophilus sp. nov. and paracoccus aminovorans sp. nov., which utilize n,n-dimethylformamide. | two methylamine- and n,n-dimethylformamide-utilizing paracoccus spp. are described. these bacteria are gram-negative, nonsporeforming, nonmotile, coccoid or short rod-shaped organisms. their dna base composition is 62 to 68 mol% g + c. their cellular fatty acids include large amounts of c18:1 acid. their major hydroxy acids are 3-oh c10:0 and 3-oh c14:0 acids. the major ubiquinone is q-10. these bacteria are distinguished from paracoccus denitrificans and paracoccus alcaliphilus by physiological ... | 1990 | 2397196 |