Abstract:
:Biuret is a minor component of urea fertilizer and an intermediate in s-triazine herbicide biodegradation. The microbial metabolism of biuret has never been comprehensively studied. Here, we enriched and isolated bacteria from a potato field that grew on biuret as a sole nitrogen source. We sequenced the genome of the fastest-growing isolate, Herbaspirillum sp. BH-1 and identified genes encoding putative biuret hydrolases (BHs). We purified and characterized a functional BH enzyme from Herbaspirillum sp. BH-1 and two other bacteria from divergent phyla. The BH enzymes reacted exclusively with biuret in the range of 2-11 µmol min-1 mg-1 protein. We then constructed a global protein superfamily network to map structure-function relationships in the BH subfamily and used this to mine > 7000 genomes. High-confidence BH sequences were detected in Actinobacteria, Alpha- and Beta-proteobacteria, and some fungi, archaea and green algae, but not animals or land plants. Unexpectedly, no cyanuric acid hydrolase homologs were detected in > 90% of genomes with BH homologs, suggesting BHs may have arisen independently of s-triazine ring metabolism. This work links genotype to phenotype by enabling accurate genome-mining to predict microbial utilization of biuret. Importantly, it advances understanding of the microbial capacity for biuret biodegradation in agricultural systems.
journal_name
Environ Microbioljournal_title
Environmental microbiologyauthors
Robinson SL,Badalamenti JP,Dodge AG,Tassoulas LJ,Wackett LPdoi
10.1111/1462-2920.14094subject
Has Abstractpub_date
2018-06-01 00:00:00pages
2099-2111issue
6eissn
1462-2912issn
1462-2920journal_volume
20pub_type
杂志文章abstract::Bacterial small regulatory RNAs (sRNAs) function in post-transcriptional control of gene expression and control a variety of processes including metabolic reactions, stress responses and pathogenesis in response to environmental signals. A variety of approaches have been used previously to identify 44 sRNAs in the opp...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2012.02759.x
更新日期:2012-08-01 00:00:00
abstract::When bacterial lineages make the transition from free-living to permanent association with hosts, they can undergo massive gene losses, for which the selective forces within host tissues are unknown. We identified here melanogenic clinical isolates of Pseudomonas aeruginosa with large chromosomal deletions (66 to 270 ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13336
更新日期:2016-10-01 00:00:00
abstract::Model denitrifiers convert NO3- to N2 , but it appears that a significant fraction of natural populations are truncated, conducting only one or two steps of the pathway. To better understand the diversity of partial denitrifiers in soil and whether discrepancies arise between the presence of known N-oxide reductase ge...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13250
更新日期:2017-06-01 00:00:00
abstract::The rice blast fungus Magnaporthe oryzae has eight regulators of G-protein signaling (RGS) and RGS-like proteins (MoRgs1 to MoRgs8) that exhibit both distinct and shared regulatory functions in the growth, differentiation and pathogenicity of the fungus. We found MoRgs7 with a unique RGS-seven transmembrane (7-TM) dom...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14102
更新日期:2018-09-01 00:00:00
abstract::The cattle tick Rhipicephalus (Boophilus) microplus lays eggs in the soil near the roots of grass, or in similar highly moist environments that are prone to biofilm formation. Tick eggs have a protective wax coating that may be a source of nutrients for microorganisms. However, as the eggs remain viable and show no vi...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12082
更新日期:2013-07-01 00:00:00
abstract::Previous studies of hot (>80 degrees C) microbial ecosystems have primarily relied on the study of pure cultures or analysis of 16S rDNA sequences. In order to gain more information on anaerobic metabolism by natural communities in hot environments, sediments were collected from a shallow marine hydrothermal vent syst...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2003.00441.x
更新日期:2003-07-01 00:00:00
abstract::The APSES protein family comprises a conserved class of fungus-specific transcriptional regulators. Some members have been identified in partial ascomycetes. In this study, the APSES protein StuA (AoStuA) of the nematode-trapping fungus Arthrobotrys oligospora was characterized. Compared with the wild-type (WT) strain...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14785
更新日期:2019-12-01 00:00:00
abstract::Although common knowledge dictates that the lichen thallus is formed solely by a fungus (mycobiont) that develops a symbiotic relationship with an alga and/or cyanobacterium (photobiont), the non-photoautotrophic bacteria found in lichen microbiomes are increasingly regarded as integral components of lichen thalli. Fo...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2011.02560.x
更新日期:2012-01-01 00:00:00
abstract::Manganese chemistry in soils is a function of complex, competing biotic and abiotic reactions. The role of soil-borne fungi in mediating these reactions is poorly understood. The objective of this article is to document direct observation of fungal Mn oxidation in soil under near in situ conditions, and to isolate, de...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2005.00842.x
更新日期:2005-09-01 00:00:00
abstract::Thin, vertically structured topsoil communities that become ecologically important in arid regions (biological soil crusts or BSCs) are responsible for much of the nitrogen inputs into pristine arid lands. We studied N(2) fixation and ammonium oxidation (AO) at subcentimetre resolution within BSCs from the Colorado Pl...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2004.00649.x
更新日期:2005-01-01 00:00:00
abstract::The severe environmental stresses of the Arctic may have promoted unique soil bacterial communities compared with those found in lower latitude environments. Here, we present a comprehensive analysis of the biogeography of soil bacterial communities in the Arctic using a high resolution bar-coded pyrosequencing techni...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2010.02277.x
更新日期:2010-11-01 00:00:00
abstract::Multiprotein bridging factors (MBFs) are evolutionarily highly conserved cofactors that link TATA-binding protein and the associated basal transcription machinery to transcription factors. The filamentous fungus, Beauveria bassiana, has a multipotential lifestyle capable of growing as a saprophyte, plant endophyte and...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12450
更新日期:2014-06-01 00:00:00
abstract::The Pmk1 and Mps1 MAP kinases are essential for appressorium formation and plant infection in Magnaporthe oryzae. However, their exact roles during invasive growth are not clear because pmk1 and mps1 mutants are defective in penetration. To further characterize their functions after penetration, in this study we expre...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13884
更新日期:2017-10-01 00:00:00
abstract::The distribution of nitrifying bacteria of the genera Nitrosomonas, Nitrosospira, Nitrobacter and Nitrospira was investigated in a membrane-bound biofilm system with opposed supply of oxygen and ammonium. Gradients of oxygen, pH, nitrite and nitrate were determined by means of microsensors while the nitrifying populat...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2000.00150.x
更新日期:2000-12-01 00:00:00
abstract::The number of icebergs produced from ice-shelf disintegration has increased over the past decade in Antarctica. These drifting icebergs mix the water column, influence stratification and nutrient condition, and can affect local productivity and food web composition. Data on whether icebergs affect bacterioplankton fun...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13769
更新日期:2017-06-01 00:00:00
abstract::Wheat stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is an important disease in Canada. The worldwide genetic structure of Pst populations have been characterized, excluding Canada. Here, we elucidated the genetic structure of the western Canadian Pst population using molecular markers, revealing th...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14067
更新日期:2018-04-01 00:00:00
abstract::The presence of two insertion sequences, IS406 and IS407, was tested by polymerase chain reaction (PCR) amplification in 25 strains representing 15 Burkholderia species and the close relative Ralstonia pickettii. A total of 50% of the 25 strains contained at least one of the two insertion sequences (ISs) and a statist...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.2001.00251.x
更新日期:2001-12-01 00:00:00
abstract::Although increasing knowledge suggests that bacteriophages play important roles in regulating microbial ecosystems, phage-bacteria interaction in human oral cavities remains less understood. Here we performed a metagenomic analysis to explore the composition and variation of oral dsDNA phage populations and potential ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12923
更新日期:2016-07-01 00:00:00
abstract::High-throughput sequencing (HTS) surveys, among the most common approaches currently used in environmental microbiology, require reliable reference databases to be correctly interpreted. The EukRef Initiative (eukref.org) is a community effort to manually screen available small subunit (SSU) rRNA gene sequences and pr...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14264
更新日期:2018-06-01 00:00:00
abstract::The effect of environmental conditions, especially ammonium concentration, on community composition and nitrification activity of nitrifying bacterial biofilms in a pilot wastewater treatment plant was examined. A decreasing ammonium gradient was created when four aerated tanks with suspended carrier material were ser...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2007.01336.x
更新日期:2007-09-01 00:00:00
abstract::The depolymerase enzyme (DpoL1) encoded by the T7-like phage L1 efficiently degrades amylovoran, an important virulence factor and major component of the extracellular polysaccharide (EPS) of its host, the plant pathogen Erwinia amylovora. Mass spectrometry analysis of hydrolysed EPS revealed that DpoL1 cleaves the ga...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.12212
更新日期:2014-07-01 00:00:00
abstract::Although the roles of introns have been much debated in eukaryotic organisms, none of them have been functionally characterized in Fusarium graminearum. In this study, we characterized the roles of introns in regulation of fungicide-sensitivity of F. graminearum. β2 tub, cyp51A and myosin-5 are important target genes ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13863
更新日期:2017-10-01 00:00:00
abstract::The effect of the plasmid-encoded rulAB (resistance to ultraviolet radiation) determinant on responses of Pseudomonas syringae to ultraviolet-B (UV-B) radiation and the distribution of rulAB among pathovars of P. syringae were determined. The cloned rulAB determinant and the native rulAB+ plasmid pPSR1 both conferred ...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1046/j.1462-2920.1999.00008.x
更新日期:1999-02-01 00:00:00
abstract::The complex ecology of free-living amoebae (FLA) and their role in spreading pathogenic microorganisms through water systems have recently raised considerable interest. In this study, we investigated the presence of FLA and amoebae-resisting bacteria (ARB) at various stages of a drinking water plant fed with river wat...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2008.01693.x
更新日期:2008-10-01 00:00:00
abstract::Sub-seafloor sediments are populated by large numbers of microbial cells but not much is known about their metabolic activities, growth rates and carbon assimilation pathways. Here we introduce a new method enabling the sensitive detection of microbial lipid production and the distinction of auto- and heterotrophic ca...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2012.02739.x
更新日期:2012-06-01 00:00:00
abstract::The frequent production of the hepatotoxin microcystin (MC) and its impact on the lifestyle of bloom-forming cyanobacteria are poorly understood. Here, we report that MC interferes with the assembly and the subcellular localization of RubisCO, in Microcystis aeruginosa PCC7806. Immunofluorescence, electron microscopic...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.14837
更新日期:2019-12-01 00:00:00
abstract::Chloride channel proteins (ClC) are found in living systems where they transport chloride ions across cell membranes. Recently, the structure/function of two prokaryotic ClC has been determined but little is known about the role of these proteins in the microbial metabolism of chlorinated compounds. Here we show that ...
journal_title:Environmental microbiology
pub_type: 杂志文章,收录出版
doi:10.1111/j.1462-2920.2006.01136.x
更新日期:2007-01-01 00:00:00
abstract::The cyclohexane derivative cis-2-(carboxymethyl)cyclohexane-1-carboxylic acid [(1R,2R)-/(1S,2S)-2-(carboxymethyl)cyclohexane-1-carboxylic acid] has previously been identified as metabolite in the pathway of anaerobic degradation of naphthalene by sulfate-reducing bacteria. We tested the corresponding CoA esters of iso...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/1462-2920.13806
更新日期:2017-07-01 00:00:00
abstract::The Deepwater Horizon oil spill resulted in a massive influx of hydrocarbons into the Gulf of Mexico (the Gulf). To better understand the fate of the oil, we enriched and isolated indigenous hydrocarbon-degrading bacteria from deep, uncontaminated waters from the Gulf with oil (Macondo MC252) and dispersant used durin...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2012.02780.x
更新日期:2012-09-01 00:00:00
abstract::Cultures of the non-heterocystous cyanobacterium, Leptolyngbya nodulosa, could be grown indefinitely in media devoid of combined nitrogen. Acetylene reduction assays showed that these cultures fixed nitrogen in the dark period of a diurnal cycle under micro-oxygenic or anaerobic conditions. Addition of DCMU to culture...
journal_title:Environmental microbiology
pub_type: 杂志文章
doi:10.1111/j.1462-2920.2010.02159.x
更新日期:2010-05-01 00:00:00