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https://www.readbyqxmd.com/read/28546474/draft-genome-sequence-of-rhodococcus-sp-strain-66b
#1
Louise F Thatcher, Cindy A Myers, Cathryn A O'Sullivan, Margaret M Roper
We report here the draft genome sequence and annotation of Rhodococcus sp. strain 66b isolated from the soil of southwest Western Australia. This strain exhibits a range of bioactivities, including plant growth promotion, biosurfactant production, and wax degradation. Whole-genome sequencing was conducted to uncover the underlying mechanisms.
May 25, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28544594/diversity-of-aromatic-hydroxylating-dioxygenase-genes-in-mangrove-microbiome-and-their-biogeographic-patterns-across-global-sites
#2
Sanderson T P de Sousa, Lucélia Cabral, Gileno Vieira Lacerda Júnior, Valéria M Oliveira
Aromatic hydrocarbons (AH), such as polycyclic aromatic hydrocarbons, are compounds largely found in nature. Aromatic-ring-hydroxylating dioxygenases (ARHD) are proteins involved in AH degradation pathways. We used ARHD functional genes from an oil-impacted mangrove area and compared their diversity with other sites around the world to understand the ARHD biogeographic distribution patterns. For this, a comprehensive database was established with 166 operational protein families (OPFs) from 1,758 gene sequences obtained from 15 different sites worldwide, of which twelve are already published studies and three are unpublished...
May 23, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28535485/quantification-of-residual-antibiotics-in-cow-manure-being-spread-over-agricultural-land-and-assessment-of-their-behavioral-effects-on-antibiotic-resistant-bacteria
#3
Ji-Ran Yeom, Soon-Uk Yoon, Chang-Gyun Kim
Antibiotic resistant bacteria (ARB) in livestock manure used as fertilizer and spread over agriculture land, may pose a threat to the health of humans. Considering this, the concentrations of tetracycline (TC), oxytetracycline (OTC), and sulfathiazole (STZ) in the surface soil were quantified using LC-MS. These antibiotics have been used in livestock and are found in fertilizer produced from livestock excretions. Species of ABR were identified using 16S rDNA. Soil samples were collected at depths of 0, 7, and 15 cm from farmland in Incheon (South Korea)...
May 16, 2017: Chemosphere
https://www.readbyqxmd.com/read/28528382/optimal-production-of-a-rhodococcus-erythropolis-atcc-4277-biocatalyst-for-biodesulfurization-and-biodenitrogenation-applications
#4
Diego Todescato, Danielle Maass, Diego Alex Mayer, J Vladimir Oliveira, Débora de Oliveira, Selene M A Guelli Ulson de Souza, Antônio Augusto Ulson de Souza
Rhodococcus sp. has a broad catabolic diversity and unique enzymatic capabilities, and it is able to adapt under extreme conditions. Thereby, the production of this remarkable bacterium has a great biotechnological and industrial importance. In this sense, we sought to improve the R. erythropolis ATCC 4277 growth through a central composite design, by varying the components of nutrient medium (glucose, malt extract, yeast extract, CaCO3), temperature, and agitation. It was found that the concentrations of glucose and malt extract are not statistically significant, being reduced of 4...
May 20, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28526795/exploring-a-possible-link-between-the-intestinal-microbiota-and-feed-efficiency-in-pigs
#5
Ursula M McCormack, Tânia Curião, Stefan G Buzoianu, Maria L Prieto, Tomas Ryan, Patrick Varley, Fiona Crispie, Elizabeth Magowan, Barbara U Metzler-Zebeli, Donagh Berry, Orla O'Sullivan, Paul D Cotter, Gillian E Gardiner, Peadar G Lawlor
Feed efficiency (FE) is critical in pig production for both economic and environmental reasons. As the intestinal microbiota plays an important role in energy harvest, it is likely to influence FE. Our aim was therefore to characterize the intestinal microbiota of pigs ranked as low, medium and high residual feed intake (RFI; a metric for FE), where genetic, nutritional and management effects were minimized, in order to explore a possible link between the intestinal microbiota and FE. Eighty one pigs were ranked on RFI between weaning and day 126 post-weaning, and 32 were selected as the extremes in RFI (12 low, 10 medium, 10 high)...
May 19, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28520398/multiple-states-of-nitrile-hydratase-from-rhodococcus-equi-tg328-2-structural-and-mechanistic-insights-from-epr-and-dft-studies
#6
Natalia Stein, Natalie Gumataotao, Natalia Hajnas, Rui Wu, K P Wasantha Lankathilaka, Uwe T Bornscheuer, Dali Liu, Adam T Fiedler, Richard C Holz, Brian Bennett
Iron-type nitrile hydratases (NHases) contain an Fe(III) ion coordinated in a characteristic "claw setting" by an axial cysteine thiolate; two equatorial peptide nitrogens; the sulfur atoms of equatorial cysteine-sulfenic and cysteine-sulfinic acids, respectively; and an axial water/hydroxyl moiety. The cysteine-sulfenic acid is susceptible to oxidation and the enzyme is traditionally prepared using butyric acid as an oxidative protectant. The as-prepared enzyme exhibits a complex EPR spectrum due to multiple low-spin (S = 1/2) Fe(III) species...
May 18, 2017: Biochemistry
https://www.readbyqxmd.com/read/28516483/capabilities-and-limitations-of-dgge-for-the-analysis-of-hydrocarbonoclastic-prokaryotic-communities-directly-in-environmental-samples
#7
Dina M Al-Mailem, Mayada K Kansour, Samir S Radwan
Prokaryotic communities in pristine and oil-contaminated desert soil, seawater, and hypersaline coastal soil were analyzed using culture-dependent and culture-independent approaches. The former technique was the dilution-plating method. For the latter, total genomic DNA was extracted and the 16S rRNA genes were amplified using a universal bacterial primer pair and primer pairs specific for Actinobacteria, Gammaproteobacteria, and Archaea. The amplicons were resolved using denaturing gradient gel electrophoresis (DGGE) and sequenced, and the sequences were compared to those in GenBank...
May 18, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28516417/microbial-lipid-production-from-enzymatic-hydrolysate-of-pecan-nutshell-pretreated-by-combined-pretreatment
#8
Lizhen Qin, Hanyu Qian, Yucai He
Biodiesel is a fuel composed of monoalkyl esters of long-chain fatty acids derived from renewable biomass sources. In this study, biomass waste pecan nutshell (PS) was attempted to be converted into microbial oil. For effective utilization of PS, sequential pretreatment with ethylene glycol-H2SO4-water (78:2:20, wt:wt:wt) at 130 °C for 30 min and aqueous ammonia (25 wt%) at 50 °C for 24 h was used to enhance its enzymatic saccharification. Significant linear correlation was obtained about delignification-saccharification (R (2) = 0...
May 17, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28500722/uv-resistant-actinobacteria-from-high-altitude-andean-lakes-isolation-characterization-and-antagonistic-activities
#9
María Cecilia Rasuk, Gabriela Mónica Ferrer, Daniel Kurth, Luciano Raúl Portero, María Eugenia Farías, Virginia Helena Albarracín
Polyextremophiles are present in a wide variety of extreme environments in which they must overcome various hostile conditions simultaneously such as high UVB radiation, extreme pHs and temperatures, elevated salt and heavy-metal concentration, low-oxygen pressure and scarce nutrients. High-altitude Andean lakes (HAALs; between 2000 and 4000 m) are one example of these kinds of ecosystems suffering from the highest total solar and UVB radiation on Earth where an abundant and diverse polyextremophilic microbiota was reported...
May 2017: Photochemistry and Photobiology
https://www.readbyqxmd.com/read/28499263/effect-of-fumigation-with-chloropicrin-on-soil-bacterial-communities-and-genes-encoding-key-enzymes-involved-in-nitrogen-cycling
#10
Jun Li, Bin Huang, Qiuxia Wang, Yuan Li, Wensheng Fang, Dongdong Yan, Meixia Guo, Aocheng Cao
Chloropicrin (CP) is a potential alternative for methyl bromide as a soil fumigant given that the use of methyl bromide has become limited. However, little is known about how fumigation with CP affects the condition of the soil microbial community. In this study, 16S rRNA amplicon sequencing and quantitative PCR were combined to investigate the effect of CP on soil bacterial community. In total, 938,922 effective reads were obtained from 18 samples and clustered into 58,662 operational taxonomic units at a similarity cut-off of 97%...
May 9, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/28495629/improving-stability-and-reusability-of-rhodococcus-pyridinivorans-nit-36-nitrilase-by-whole-cell-immobilization-using-chitosan
#11
Jyoti, Kavita Bhatia, Kalpna Chauhan, Chandrika Attri, Amit Seth
Immobilized enzymes have great significance for industrial processes. In this study whole cell immobilization of Rhodococcus pyridinivorans NIT-36 has been undertaken using chitosan microspheres as an immobilized matrix. R. pyridinivorans NIT-36 harbors a significant intracellular enzyme nitrilase. Chitosan microspheres were generated by supplementing chitosan with glutaraldehyde and results, supported the porous microsphere structure via SEM. The resultant microspheres exhibited cell immobilization capacity of 450mg/g...
May 8, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/28490491/comparison-of-the-vitek-ms-and-bruker-maldi-tof-ms-mass-spectrometry-systems-for-the-identification-of-rhodococcus-equi-and-dietzia-spp
#12
Carlos Ruiz de Alegría Puig, Lilian Pilares, Francesc Marco, Jordi Vila, Luis Martínez-Martínez, Jesús Navas
Rhodococcus equi causes pyogranulomatous pneumonia in domesticated animals and immunocompromised humans. Dietzia spp. are environmental bacteria that have been rarely associated with human infections. R. equi and Dietzia spp. are closely related actinomycetes. Phenotypic discrimination between R. equi and Dietzia on the basis of their Gram stain morphology and colony appearance is problematic. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) is a fast, reliable and cost-effective method for identification of a wide variety of microorganisms...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28488064/rhodococcus-gannanensis-sp-nov-a-novel-endophytic-actinobacterium-isolated-from-root-of-sunflower-helianthus-annuus-l
#13
Jun Ma, Liguo Zhang, Guangjin Wang, Shuquan Zhang, Xiaofei Zhang, Yongbin Wang, Chuanqi Shi, Liang Si, Haibin Zhao, Fengqi Liu, Bixian Zhang, Xutang Huang
A novel Gram-positive, aerobic, non-motile strain, designated strain M1(T), was isolated from sunflower root (Helianthus annuus L.) and characterised using a polyphasic taxonomic approach. The morphological and chemotaxonomic properties of the isolate were typical of those of members of the genus Rhodococcus. Phylogenetic analyses based on 16S rRNA gene sequence showed that strain M1(T) belongs to the genus Rhodococcus and clustered with Rhodococcus canchipurensis MBRL 353(T) (99.1%, sequence similarity) and Rhodococcus pedocola UC12(T) (98...
May 9, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/28485586/conjugative-transfer-of-dioxin-catabolic-megaplasmids-and-bioaugmentation-prospects-of-a-rhodococcus-sp
#14
Jiao Sun, Yilun Qiu, Pengfei Ding, Peng Peng, Haiyan Yang, Li Li
Genetic bioaugmentation, in which bacteria harboring conjugative plasmids provide catabolic functions, is a promising strategy to restore dioxin-contaminated environments. Here we examined the conjugative transfer of the dioxin-catabolic plasmids pDF01 and pDF02 harbored by Rhodococcus sp. strain p52. A mating experiment was performed using strain p52 as a donor and a Pseudomonas aeruginosa strain as a recipient. The results showed that pDF01 and pDF02 were transferred concomitantly from strain p52 to the recipient strain at a conjugation frequency of 3×10(-)4 colonies per recipient...
May 9, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28484706/endophytic-actinobacteria-associated-with-dracaena-cochinchinensis-lour-isolation-diversity-and-their-cytotoxic-activities
#15
Nimaichand Salam, Thi-Nhan Khieu, Min-Jiao Liu, Thu-Trang Vu, Son Chu-Ky, Ngoc-Tung Quach, Quyet-Tien Phi, Manik Prabhu Narsing Rao, Angélique Fontana, Samira Sarter, Wen-Jun Li
Dracaena cochinchinensis Lour. is an ethnomedicinally important plant used in traditional Chinese medicine known as dragon's blood. Excessive utilization of the plant for extraction of dragon's blood had resulted in the destruction of the important niche. During a study to provide a sustainable way of utilizing the resources, the endophytic Actinobacteria associated with the plant were explored for potential utilization of their medicinal properties. Three hundred and four endophytic Actinobacteria belonging to the genera Streptomyces, Nocardiopsis, Brevibacterium, Microbacterium, Tsukamurella, Arthrobacter, Brachybacterium, Nocardia, Rhodococcus, Kocuria, Nocardioides, and Pseudonocardia were isolated from different tissues of D...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28472670/heterologous-production-of-different-styrene-oxide-isomerases-for-the-highly-efficient-synthesis-of-phenylacetaldehyde
#16
Michel Oelschlägel, Lysann Richter, Anna Stuhr, Sarah Hofmann, Michael Schlömann
The styrene oxide isomerase (SOI, StyC) represents a key enzyme of the styrene-degrading pathway and has been discussed as promising biocatalyst during recent studies. The enzyme enables the synthesis of pure phenylacetaldehyde from styrene oxide. In this study the native as well as the corresponding codon-optimized genes of three different SOIs from Rhodococcus opacus 1CP (StyC-1CP), Sphingopyxis fribergensis Kp5.2 (StyC-Kp5.2), and Pseudomonas fluorescens ST (StyC-ST) were investigated for the expression in Escherichia coli BL21(DE3)pLysS...
May 1, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28466204/assessment-of-bacterial-biodetoxification-of-herbicide-atrazine-using-aliivibrio-fischeri-cytotoxicity-assay-with-prolonged-contact-time
#17
Judit Háhn, Sándor Szoboszlay, Gergő Tóth, Balázs Kriszt
In our study, we determined and compared the atrazine-biodetoxification ability of 41 bacterial strains and 21 consortia created of those with over 50% degradation rate in pure cultures. Biodegradation capacity was measured with GC-MS. Detoxification was assessed based on the cytotoxic effect of end-products to Aliivibrio fischeri in chronic bioluminescence inhibition assay with 25 h contact time. Chronic A. fischeri assay adapted to a microplate, which is suitable for examine numerous residues simultaneously, also appeared to be significantly more sensitive to atrazine compared to the standard acute (30 min) test...
May 2, 2017: Ecotoxicology
https://www.readbyqxmd.com/read/28439813/simultaneous-heavy-metal-removal-and-anthracene-biodegradation-by-the-oleaginous-bacteria-rhodococcus-opacus
#18
Lalit Goswami, N Arul Manikandan, Kannan Pakshirajan, G Pugazhenthi
This study investigated simultaneous heavy metals removal and anthracene biodegradation by Rhodococcus opacus at different initial anthracene concentrations in the range 50-200 mg L(-1). The heavy metals tested were Fe(III), Cu(II), Zn(II), Cd(II), Ni(II), and Pb(II) at 10 mg L(-1) initial concentration: The organism was found to be well capable of removing the heavy metals along with high anthracene biodegradation efficiency. However, anthracene biodegradation rate by the organism was reduced due to these heavy metals...
May 2017: 3 Biotech
https://www.readbyqxmd.com/read/28433913/simultaneous-partial-nitrification-and-2-fluorophenol-biodegradation-with-aerobic-granular-biomass-reactor-performance-and-microbial-communities
#19
Carlos Ramos, Catarina L Amorim, Daniela P Mesquita, Eugénio C Ferreira, Julián Carrera, Paula M L Castro
An aerobic granular bioreactor was operated for over 4months, treating a synthetic wastewater with a high ammonium content (100mgNL(-1)). The inoculum was collected from a bioreactor performing simultaneous partial nitrification and aromatic compounds biodegradation. From day-56 onwards, 2-fluorophenol (2-FP) (12.4mgL(-1)) was added to the feeding wastewater and the system was bioaugmented with a 2-FP degrading bacteria (Rhodococcus sp. FP1). By the end of operation, complete 2-FP biodegradation and partial nitrification were simultaneously achieved...
March 30, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28429809/successful-pegylation-of-hollow-encapsulin-nanoparticles-from-rhodococcus-erythropolis-n771-without-affecting-their-disassembly-and-reassembly-properties
#20
Seiichi Sonotaki, Taku Takami, Keiichi Noguchi, Masafumi Odaka, Masafumi Yohda, Yoshihiko Murakami
We developed a hollow PEGylated encapsulin nanoparticle from Rhodococcus erythropolis N771. The hollow engineered encapsulin nanoparticles with His-Tag and Lys residues on the surface were constructed by means of genetic recombination. The Lys residues on the particle surface were successfully PEGylated with a PEG derivative, methoxy-PEG-SCM. Consequently, we demonstrated that the hollow PEGylated engineered encapsulin nanoparticle could successfully disassemble or reassemble even after PEGylation in the presence or absence of a protein denaturing agent...
April 21, 2017: Biomaterials Science
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