Publications

transcriptome analysis of pseudomonas aeruginosa pao1 grown at both body and elevated temperatures.	functional genomics research can give us valuable insights into bacterial gene function. rna sequencing (rna-seq) can generate information on transcript abundance in bacteria following abiotic stress treatments. in this study, we used the rna-seq technique to study the transcriptomes of the opportunistic nosocomial pathogen pseudomonas aeruginosa pao1 following heat shock. samples were grown at both the human body temperature (37 °c) and an arbitrarily-selected temperature of 46 °c. in this work ...	2016	27547539
genomics of high molecular weight plasmids isolated from an on-farm biopurification system.	the use of biopurification systems (bps) constitutes an efficient strategy to eliminate pesticides from polluted wastewaters from farm activities. bps environments contain a high microbial density and diversity facilitating the exchange of information among bacteria, mediated by mobile genetic elements (mges), which play a key role in bacterial adaptation and evolution in such environments. here we sequenced and characterized high-molecular-weight plasmids from a bacterial collection of an on-fa ...	2016	27321040
proof of concept for the simplified breakdown of cellulose by combining pseudomonas putida strains with surface displayed thermophilic endocellulase, exocellulase and β-glucosidase.	the production and employment of cellulases still represents an economic bottleneck in the conversion of lignocellulosic biomass to biofuels and other biocommodities. this process could be simplified by displaying the necessary enzymes on a microbial cell surface. such an approach, however, requires an appropriate host organism which on the one hand can withstand the rough environment coming along with lignocellulose hydrolysis, and on the other hand does not consume the generated glucose so tha ...	2016	27287198
biological control of rice bakanae by an endophytic bacillus oryzicola yc7007.	in our previous study, we reported that a novel endophytic bacterium bacillus oryzicola yc7007 has suppressed bacterial diseases of rice via induced systemic resistance and antibiotic production. this endophytic strain, b. oryzicola yc7007 was used as a biological control agent against bakanae disease of rice caused by fusarium fujikuroi, and its mechanism of interaction with the pathogen and the rice was further elucidated. root drenching with b. oryzicola yc7007 suspension reduced the disease ...	2016	27298598
when genome-based approach meets the "old but good": revealing genes involved in the antibacterial activity of pseudomonas sp. p482 against soft rot pathogens.	dickeya solani and pectobacterium carotovorum subsp. brasiliense are recently established species of bacterial plant pathogens causing black leg and soft rot of many vegetables and ornamental plants. pseudomonas sp. strain p482 inhibits the growth of these pathogens, a desired trait considering the limited measures to combat these diseases. in this study, we determined the genetic background of the antibacterial activity of p482, and established the phylogenetic position of this strain. pseudomo ...	2016	27303376
in vitro and in vivo antimicrobial activity of combined therapy of silver nanoparticles and visible blue light against pseudomonas aeruginosa.	silver nanoparticles (agnps) have been used as potential antimicrobial agents against resistant pathogens. we investigated the possible therapeutic use of agnps in combination with visible blue light against a multidrug resistant clinical isolate of pseudomonas aeruginosa in vitro and in vivo. the antibacterial activity of agnps against p. aeruginosa (1×10(5) colony forming unit/ml) was investigated at its minimal inhibitory concentration (mic) and sub-mic, alone and in combination with blue lig ...	2016	27175075
unravelling potential virulence factor candidates in xanthomonas citri. subsp. citri by secretome analysis.	citrus canker is a major disease affecting citrus production in brazil. it's mainly caused by xanthomonas citri subsp. citri strain 306 pathotype a (xac). we analysed the differential expression of proteins secreted by wild type xac and an asymptomatic mutant for hrpb4 (δhrpb4) grown in nutrient broth (nb) and a medium mimicking growth conditions in the plant (xam1). this allowed the identification of 55 secreted proteins, of which 37 were secreted by both strains when cultured in xam1. in this ...	2016	26925342
specific gene loci of clinical pseudomonas putida isolates.	pseudomonas putida are ubiquitous inhabitants of soils and clinical isolates of this species have been seldom described. clinical isolates show significant variability in their ability to cause damage to hosts because some of them are able to modulate the host's immune response. in the current study, comparisons between the genomes of different clinical and environmental strains of p. putida were done to identify genetic clusters shared by clinical isolates that are not present in environmental ...	2016	26820467
isolation of polyvalent bacteriophages by sequential multiple-host approaches.	many studies on phage biology are based on isolation methods that may inadvertently select for narrow-host-range phages. consequently, broad-host-range phages, whose ecological significance is largely unexplored, are consistently overlooked. to enhance research on such polyvalent phages, we developed two sequential multihost isolation methods and tested both culture-dependent and culture-independent phage libraries for broad infectivity. lytic phages isolated from activated sludge were capable o ...	2016	26590277
uncovering the transmembrane metal binding site of the novel bacterial major facilitator superfamily-type copper importer ccoa.	uptake and trafficking of metals and their delivery to their respective metalloproteins are important processes. cells need precise control of each step to avoid exposure to excessive metal concentrations and their harmful consequences. copper (cu) is a required micronutrient used as a cofactor in proteins. however, in large amounts, it can induce oxidative damage; hence, cu homeostasis is indispensable for cell survival. biogenesis of respiratory heme-cu oxygen (hco) reductases includes inserti ...	2016	26787831
a loop-mediated isothermal amplification assay and sample preparation procedure for sensitive detection of xanthomonas fragariae in strawberry.	xanthomonas fragariae is a bacterium that causes angular leaf spot of strawberry. asymptomatic infection is common and contributes to the difficulties in disease management. the aim of this study was to develop a loop-mediated isothermal amplification (lamp) assay as an efficient method for detection of asymptomatic infections of x. fragariae. in addition, a new method of sample preparation was developed that allows sampling of a larger amount of plant tissue, hence increasing the detection rate ...	2016	26766068
structure and functional diversity of gcn5-related n-acetyltransferases (gnat).	general control non-repressible 5 (gcn5)-related n-acetyltransferases (gnat) catalyze the transfer of an acyl moiety from acyl coenzyme a (acyl-coa) to a diverse group of substrates and are widely distributed in all domains of life. this review of the currently available data acquired on gnat enzymes by a combination of structural, mutagenesis and kinetic methods summarizes the key similarities and differences between several distinctly different families within the gnat superfamily, with an emp ...	2016	27367672
cellulases and beyond: the first 70 years of the enzyme producer trichoderma reesei.	more than 70 years ago, the filamentous ascomycete trichoderma reesei was isolated on the solomon islands due to its ability to degrade and thrive on cellulose containing fabrics. this trait that relies on its secreted cellulases is nowadays exploited by several industries. most prominently in biorefineries which use t. reesei enzymes to saccharify lignocellulose from renewable plant biomass in order to produce biobased fuels and chemicals. in this review we summarize important milestones of the ...	2016	27287427
horizontal dna transfer mechanisms of bacteria as weapons of intragenomic conflict.	horizontal dna transfer (hdt) is a pervasive mechanism of diversification in many microbial species, but its primary evolutionary role remains controversial. much recent research has emphasised the adaptive benefit of acquiring novel dna, but here we argue instead that intragenomic conflict provides a coherent framework for understanding the evolutionary origins of hdt. to test this hypothesis, we developed a mathematical model of a clonally descended bacterial population undergoing hdt through ...	2016	26934590
bacterial multidrug efflux pumps: much more than antibiotic resistance determinants.	bacterial multidrug efflux pumps are antibiotic resistance determinants present in all microorganisms. with few exceptions, they are chromosomally encoded and present a conserved organization both at the genetic and at the protein levels. in addition, most, if not all, strains of a given bacterial species present the same chromosomally-encoded efflux pumps. altogether this indicates that multidrug efflux pumps are ancient elements encoded in bacterial genomes long before the recent use of antibi ...	2016	27681908
the two-component system cpxra negatively regulates the locus of enterocyte effacement of enterohemorrhagic escherichia coli involving σ(32) and lon protease.	enterohemorrhagic escherichia coli (ehec) is a significant cause of serious human gastrointestinal disease worldwide. ehec strains contain a pathogenicity island called the locus of enterocyte effacement (lee), which encodes virulence factors responsible for damaging the gut mucosa. the cpx envelope stress response of e. coli is controlled by a two-component system (tcs) consisting of a sensor histidine kinase (cpxa) and a cytoplasmic response regulator (cpxr). in this study, we investigated the ...	2016	26904510
comparative genomics of an endophytic pseudomonas putida isolated from mango orchard.	we analyzed the genome sequence of an endophytic bacterial strain pseudomonas putida tji51 isolated from mango bark tissues. next generation dna sequencing and short read de novo assembly generated the 5,805,096 bp draft genome of p. putida tji51. out of 6,036 protein coding genes in p. putida tji51 sequences, 4,367 (72%) were annotated with functional specifications, while the remaining encoded hypothetical proteins. comparative genome sequence analysis revealed that the p. putida tji51genome c ...	2016	27560648
bacterial transcription as a target for antibacterial drug development.	transcription, the first step of gene expression, is carried out by the enzyme rna polymerase (rnap) and is regulated through interaction with a series of protein transcription factors. rnap and its associated transcription factors are highly conserved across the bacterial domain and represent excellent targets for broad-spectrum antibacterial agent discovery. despite the numerous antibiotics on the market, there are only two series currently approved that target transcription. the determination ...	2016	26764017
characterization of three novel sxt/r391 integrating conjugative elements icemfuind1a and icemfuind1b, and icemprchn1 identified in the genomes of marinomonas fungiae jcm 18476(t) and marinomonas profundimaris strain d104.	the genus marinomonas comprises gram negative bacteria which are widespread in the marine environment and there is no report on the genomic analysis of sxt/r391 ices derived from this group of bacteria. this study describes the genomic features of three new sxt/r391 integrating conjugating elements (ices) identified in the genome of marinomonas fungiae jcm 18476(t) (icemfuind1a and icemfuind1b) and in marinomonas profundimaris strain d104 (icemprchn1). structural organizations of the three ices ...	2016	27933056
diverse functions of small rnas in different plant-pathogen communications.	rna silencing is a conserved mechanism that utilizes small rnas (srnas) to direct the regulation of gene expression at the transcriptional or post-transcriptional level. plants utilizing rna silencing machinery to defend pathogen infection was first identified in plant-virus interaction and later was observed in distinct plant-pathogen interactions. rna silencing is not only responsible for suppressing rna accumulation and movement of virus and viroid, but also facilitates plant immune responses ...	2016	27757103
differential rickettsial transcription in bloodfeeding and non-bloodfeeding arthropod hosts.	crucial factors influencing the epidemiology of rickettsia felis rickettsiosis include pathogenesis and transmission. detection of r. felis dna in a number of arthropod species has been reported, with characterized isolates, r. felis strain lsu and strain lsu-lb, generated from the cat flea, ctenocephalides felis, and the non-hematophagous booklouse, liposcelis bostrychophila, respectively. while it is realized that strain influence on host biology varies, the rickettsial response to these disti ...	2016	27662479
modulation of host mirnas by intracellular bacterial pathogens.	micrornas (mirnas) are short non-coding rnas that regulate the expression of protein coding genes of viruses and eukaryotes at the post-transcriptional level. the eukaryotic genes regulated by mirnas include those whose products are critical for biological processes such as cell proliferation, metabolic pathways, immune response, and development. it is now increasingly recognized that modulation of mirnas associated with biological processes is one of the strategies adopted by bacterial pathogen ...	2016	27536558
biochemical and molecular mechanisms of plant-microbe-metal interactions: relevance for phytoremediation.	plants and microbes coexist or compete for survival and their cohesive interactions play a vital role in adapting to metalliferous environments, and can thus be explored to improve microbe-assisted phytoremediation. plant root exudates are useful nutrient and energy sources for soil microorganisms, with whom they establish intricate communication systems. some beneficial bacteria and fungi, acting as plant growth promoting microorganisms (pgpms), may alleviate metal phytotoxicity and stimulate p ...	2016	27446148
armadillidin h, a glycine-rich peptide from the terrestrial crustacean armadillidium vulgare, displays an unexpected wide antimicrobial spectrum with membranolytic activity.	antimicrobial peptides (amps) are key components of innate immunity and are widespread in nature, from bacteria to vertebrate animals. in crustaceans, there are currently 15 distinct amp families published so far in the literature, mainly isolated from members of the decapoda order. up to now, armadillidin is the sole non-decapod amp isolated from the haemocytes of armadillidium vulgare, a crustacean isopod. its first description demonstrated that armadillidin is a linear glycine-rich (47%) cati ...	2016	27713732
bacterial rna polymerase-dna interaction-the driving force of gene expression and the target for drug action.	dna-dependent multisubunit rna polymerase (rnap) is the key enzyme of gene expression and a target of regulation in all kingdoms of life. it is a complex multifunctional molecular machine which, unlike other dna-binding proteins, engages in extensive and dynamic interactions (both specific and nonspecific) with dna, and maintains them over a distance. these interactions are controlled by dna sequences, dna topology, and a host of regulatory factors. here, we summarize key recent structural and b ...	2016	27882317
protein domain architectures provide a fast, efficient and scalable alternative to sequence-based methods for comparative functional genomics.	a functional comparative genome analysis is essential to understand the mechanisms underlying bacterial evolution and adaptation. detection of functional orthologs using standard global sequence similarity methods faces several problems; the need for defining arbitrary acceptance thresholds for similarity and alignment length, lateral gene acquisition and the high computational cost for finding bi-directional best matches at a large scale. we investigated the use of protein domain architectures ...	2016	27703668
bacterial cell biology outside the streetlight.	as much as vertical transmission of microbial symbionts requires their deep integration into the host reproductive and developmental biology, symbiotic lifestyle might profoundly affect bacterial growth and proliferation. this review describes the reproductive oddities displayed by bacteria associated - more or less intimately - with multicellular eukaryotes.	2016	27306428
mechanism and function of type iv secretion during infection of the human host.	bacterial pathogens employ type iv secretion systems (t4sss) for various purposes to aid in survival and proliferation in eukaryotic hosts. one large t4ss subfamily, the conjugation systems, confers a selective advantage to the invading pathogen in clinical settings through dissemination of antibiotic resistance genes and virulence traits. besides their intrinsic importance as principle contributors to the emergence of multiply drug-resistant "superbugs," detailed studies of these highly tractab ...	2016	27337453
functional and structural analysis of a β-glucosidase involved in β-1,2-glucan metabolism in listeria innocua.	despite the presence of β-1,2-glucan in nature, few β-1,2-glucan degrading enzymes have been reported to date. recently, the lin1839 protein from listeria innocua was identified as a 1,2-β-oligoglucan phosphorylase. since the adjacent lin1840 gene in the gene cluster encodes a putative glycoside hydrolase family 3 β-glucosidase, we hypothesized that lin1840 is also involved in β-1,2-glucan dissimilation. here we report the functional and structural analysis of lin1840. a recombinant lin1840 prot ...	2016	26886583
overexpression of a pathogenesis-related protein 10 enhances biotic and abiotic stress tolerance in rice.	pathogenesis-related proteins play multiple roles in plant development and biotic and abiotic stress tolerance. here, we characterize a rice defense related gene named "jasmonic acid inducible pathogenesis-related class 10" (jiospr10) to gain an insight into its functional properties. semi-quantitative rt-pcr analysis showed up-regulation of jiospr10 under salt and drought stress conditions. constitutive over-expression jiospr10 in rice promoted shoot and root development in transgenic plants, h ...	2016	27904462
transcriptomic effects of the cell cycle regulator lgo in arabidopsis sepals.	endoreduplication is a specialized cell cycle in which dna replication occurs, but mitosis is skipped creating enlarged polyploid cells. endoreduplication is associated with the differentiation of many specialized cell types. in the arabidopsis thaliana sepal epidermis endoreduplicated giant cells form interspersed between smaller cells. both the transcription factor arabidopsis thaliana meristem layer1 (atml1) and the plant-specific cyclin dependent kinase inhibitor loss of giant cells from org ...	2016	27920789
identification, characterization, and gene expression analysis of nucleotide binding site (nb)-type resistance gene homologues in switchgrass.	switchgrass (panicum virgatum l.) is a warm-season perennial grass that can be used as a second generation bioenergy crop. however, foliar fungal pathogens, like switchgrass rust, have the potential to significantly reduce switchgrass biomass yield. despite its importance as a prominent bioenergy crop, a genome-wide comprehensive analysis of nb-lrr disease resistance genes has yet to be performed in switchgrass.	2016	27821048
genomic analysis of phylotype i strain ep1 reveals substantial divergence from other strains in the ralstonia solanacearum species complex.	ralstonia solanacearum species complex is a devastating group of phytopathogens with an unusually wide host range and broad geographical distribution. r. solanacearum isolates may differ considerably in various properties including host range and pathogenicity, but the underlying genetic bases remain vague. here, we conducted the genome sequencing of strain ep1 isolated from guangdong province of china, which belongs to phylotype i and is highly virulent to a range of solanaceous crops. its comp ...	2016	27833603
inducible expression of the de-novo designed antimicrobial peptide sp1-1 in tomato confers resistance to xanthomonas campestris pv. vesicatoria.	antimicrobial peptides (amps) are small peptides with less than 50 amino acids and are part of the innate immune response in almost all organisms, including bacteria, vertebrates, invertebrates and plants. amps are active against a broad-spectrum of pathogens. the inducible expression of amps in plants is a promising approach to combat plant pathogens with minimal negative side effects, such as phytotoxicity or infertility. in this study, inducible expression of the de-novo designed amp sp1-1 in ...	2016	27706237
plant resistance inducers against pathogens in solanaceae species-from molecular mechanisms to field application.	this review provides a current summary of plant resistance inducers (pris) that have been successfully used in the solanaceae plant family to protect against pathogens by activating the plant's own defence. solanaceous species include many important crops such as potato and tomato. we also present findings regarding the molecular processes after application of pris, even if the number of such studies still remains limited in this plant family. in general, there is a lack of patterns regarding th ...	2016	27706100
differential control efficacies of vitamin treatments against bacterial wilt and grey mould diseases in tomato plants.	bacterial wilt and grey mould in tomato plants are economically destructive bacterial and fungal diseases caused by ralstonia solanacearum and botrytis cinerea, respectively. various approaches including chemical and biological controls have been attempted to arrest the tomato diseases so far. in this study, in vitro growths of bacterial r. solanacearum and fungal b. cinerea were evaluated using four different vitamins including thiamine (vitamin b1), niacin (vitamin b3), pyridoxine (vitamin b6) ...	2016	27721697
overexpression of the eggplant (solanum melongena) nac family transcription factor smnac suppresses resistance to bacterial wilt.	bacterial wilt (bw) is a serious disease that affects eggplant (solanum melongena) production. although resistance to this disease has been reported, the underlying mechanism is unknown. in this study, we identified a nac family transcription factor (smnac) from eggplant and characterized its expression, its localization at the tissue and subcellular levels, and its role in bw resistance. to this end, transgenic eggplant lines were generated in which the expression of smnac was constitutively up ...	2016	27528282
behind the lines-actions of bacterial type iii effector proteins in plant cells.	pathogenicity of most gram-negative plant-pathogenic bacteria depends on the type iii secretion (t3s) system, which translocates bacterial effector proteins into plant cells. type iii effectors modulate plant cellular pathways to the benefit of the pathogen and promote bacterial multiplication. one major virulence function of type iii effectors is the suppression of plant innate immunity, which is triggered upon recognition of pathogen-derived molecular patterns by plant receptor proteins. type ...	2016	27526699
nudix effectors: a common weapon in the arsenal of plant pathogens.		2016	27513453
the plant cell wall: a complex and dynamic structure as revealed by the responses of genes under stress conditions.	the plant cell wall has a diversity of functions. it provides a structural framework to support plant growth and acts as the first line of defense when the plant encounters pathogens. the cell wall must also retain some flexibility, such that when subjected to developmental, biotic, or abiotic stimuli it can be rapidly remodeled in response. genes encoding enzymes capable of synthesizing or hydrolyzing components of the plant cell wall show differential expression when subjected to different str ...	2016	27559336
virus-induced gene silencing-based functional analyses revealed the involvement of several putative trehalose-6-phosphate synthase/phosphatase genes in disease resistance against botrytis cinerea and pseudomonas syringae pv. tomato dc3000 in tomato.	trehalose and its metabolism have been demonstrated to play important roles in control of plant growth, development, and stress responses. however, direct genetic evidence supporting the functions of trehalose and its metabolism in defense response against pathogens is lacking. in the present study, genome-wide characterization of putative trehalose-related genes identified 11 sltpss for trehalose-6-phosphate synthase, 8 sltpps for trehalose-6-phosphate phosphatase and one sltre1 for trehalase i ...	2016	27540389
identification and expression profiles of six transcripts encoding carboxylesterase protein in vitis flexuosa infected with pathogens.	plants protect themselves from pathogen attacks via several mechanisms, including hypersensitive cell death. recognition of pathogen attack by the plant resistance gene triggers expression of carboxylesterase genes associated with hypersensitive response. we identified six transcripts of carboxylesterase genes, vitis flexuosa carboxylesterase 5585 (vfcxe5585), vfcxe12827, vfcxe13132, vfcxe17159, vfcxe18231, and vfcxe47674, which showed different expression patterns upon transcriptome analysis of ...	2016	27493610
modification of bacterial effector proteins inside eukaryotic host cells.	pathogenic bacteria manipulate their hosts by delivering a number of virulence proteins -called effectors- directly into the plant or animal cells. recent findings have shown that such effectors can suffer covalent modifications inside the eukaryotic cells. here, we summarize the recent reports where effector modifications by the eukaryotic machinery have been described. we restrict our focus on proteins secreted by the type iii or type iv systems, excluding other bacterial toxins. we describe t ...	2016	27489796
acetylome analysis reveals the involvement of lysine acetylation in diverse biological processes in phytophthora sojae.	lysine acetylation is a dynamic and highly conserved post-translational modification that plays an important regulatory role in almost every aspects of cell metabolism in both eukaryotes and prokaryotes. phytophthora sojae is one of the most important plant pathogens due to its huge economic impact. however, to date, little is known about the functions of lysine acetylation in this phytopthora. here, we conducted a lysine acetylome in p. sojae. overall, 2197 lysine acetylation sites in 1150 prot ...	2016	27412925
erecta and bak1 receptor like kinases interact to regulate immune responses in arabidopsis.	erecta (er) receptor-like kinase (rlk) regulates arabidopsis thaliana organ growth, and inflorescence and stomatal development by interacting with the erecta-family genes (erf) paralogs, er-like 1 (erl1) and erl2, and the receptor-like protein (rlp) too many mouths (tmm). er also controls immune responses and resistance to pathogens such as the bacterium pseudomonas syringae pv. tomato dc3000 (pto) and the necrotrophic fungus plectosphaerella cucumerina bmm (pcbmm). we found that er null-mutant ...	2016	27446127
impact of a bacterial volatile 2,3-butanediol on bacillus subtilis rhizosphere robustness.	volatile compounds, such as short chain alcohols, acetoin, and 2,3-butanediol, produced by certain strains of root-associated bacteria (rhizobacteria) elicit induced systemic resistance in plants. the effects of bacterial volatile compounds (bvcs) on plant and fungal growth have been extensively studied; however, the impact of bacterial bvcs on bacterial growth remains poorly understood. in this study the effects of a well-characterized bacterial volatile, 2,3-butanediol, produced by the rhizoba ...	2016	27446033
molecular cloning of hbpr-1 gene from rubber tree, expression of hbpr-1 gene in nicotiana benthamiana and its inhibition of phytophthora palmivora.	this is the first report to present a full-length cdna (designated hbpr-1) encoding a putative basic hbpr-1 protein from rubber tree (hevea brasiliensis) treated with salicylic acid. it was characterized and also expressed in nicotiana benthamiana using agrobacterium-mediated transient gene expression system in order to investigate the role of hbpr-1 gene in rubber tree against its oomycete pathogen phytopthora palmivora and to produce recombinant hbpr-1 protein for microbial inhibition test. th ...	2016	27337148
degradation of the plant defense signal salicylic acid protects ralstonia solanacearum from toxicity and enhances virulence on tobacco.	plants use the signaling molecule salicylic acid (sa) to trigger defenses against diverse pathogens, including the bacterial wilt pathogen ralstonia solanacearum sa can also inhibit microbial growth. most sequenced strains of the heterogeneous r. solanacearum species complex can degrade sa via gentisic acid to pyruvate and fumarate. r. solanacearum strain gmi1000 expresses this sa degradation pathway during tomato pathogenesis. transcriptional analysis revealed that subinhibitory sa levels induc ...	2016	27329752
understanding the impact of drought on foliar and xylem invading bacterial pathogen stress in chickpea.	in field conditions, plants are concurrently exposed to multiple stresses, where one stressor impacts the plant's response to another stressor, and the resultant net effect of these stresses differs from individual stress response. the present study investigated the effect of drought stress on interaction of chickpea with pseudomonas syringae pv. phaseolicola (psp; foliar pathogen) and ralstonia solanacearum (rs; xylem inhabiting wilt causing pathogen), respectively, and the net-effect of combin ...	2016	27446132
gamr, the lysr-type galactose metabolism regulator, regulates hrp gene expression via transcriptional activation of two key hrp regulators, hrpg and hrpx, in xanthomonas oryzae pv. oryzae.	xanthomonas oryzae pv. oryzae is the causal agent of bacterial leaf blight of rice. for the virulence of the bacterium, the hrp genes, encoding components of the type iii secretion system, are indispensable. the expression of hrp genes is regulated by two key hrp regulators, hrpg and hrpx: hrpg regulates hrpx, and hrpx regulates other hrp genes. several other regulators have been shown to be involved in the regulation of hrp genes. here, we found that a lysr-type transcriptional regulator that w ...	2016	27107122
directed evolution of fls2 towards novel flagellin peptide recognition.	microbe-associated molecular patterns (mamps) are molecules, or domains within molecules, that are conserved across microbial taxa and can be recognized by a plant or animal immune system. although mamp receptors have evolved to recognize conserved epitopes, the mamps in some microbial species or strains have diverged sufficiently to render them unrecognizable by some host immune systems. in this study, we carried out in vitro evolution of the arabidopsis thaliana flagellin receptor flagellin-se ...	2016	27270917
the effector awr5 from the plant pathogen ralstonia solanacearum is an inhibitor of the tor signalling pathway.	bacterial pathogens possess complex type iii effector (t3e) repertoires that are translocated inside the host cells to cause disease. however, only a minor proportion of these effectors have been assigned a function. here, we show that the t3e awr5 from the phytopathogen ralstonia solanacearum is an inhibitor of tor, a central regulator in eukaryotes that controls the switch between cell growth and stress responses in response to nutrient availability. heterologous expression of awr5 in yeast ca ...	2016	27257085
wrky transcription factors: molecular regulation and stress responses in plants.	plants in their natural habitat have to face multiple stresses simultaneously. evolutionary adaptation of developmental, physiological, and biochemical parameters give advantage over a single window of stress but not multiple. on the other hand transcription factors like wrky can regulate diverse responses through a complicated network of genes. so molecular orchestration of wrkys in plant may provide the most anticipated outcome of simultaneous multiple responses. activation or repression throu ...	2016	27375634
dna microarray and gene ontology enrichment analysis reveals that a mutation in opsx affects virulence and chemotaxis in xanthomonas oryzae pv. oryzae.	xanthomonas oryzae pv. oryzae (xoo) causes bacterial leaf blight (blb) in rice (oryza sativa l.). in this study, we investigated the effect of a mutation in opsx (xoo1056), which encodes a saccharide biosynthesis regulatory protein, on the virulence and bacterial chemotaxis of xoo. we performed dna microarray analysis, which showed that 63 of 2,678 genes, including genes related to bacterial motility (flagellar and chemotaxis proteins) were significantly downregulated (<-2 log2 fold changes) by ...	2016	27298594
aba suppresses botrytis cinerea elicited no production in tomato to influence h2o2 generation and increase host susceptibility.	abscisic acid (aba) production has emerged a susceptibility factor in plant-pathogen interactions. this work examined the interaction of aba with nitric oxide (no) in tomato following challenge with the aba-synthesizing pathogen, botrytis cinerea. trace gas detection using a quantum cascade laser detected no production within minutes of challenge with b. cinerea whilst photoacoustic laser detection detected ethylene production - an established mediator of defense against this pathogen - occurrin ...	2016	27252724
overexpression of cotton ghmpk11 decreases disease resistance through the gibberellin signaling pathway in transgenic nicotiana benthamiana.	many changes in development, growth, hormone activity and environmental stimuli responses are mediated by mitogen-activated protein kinase (mapk) cascades. however, in plants, studies on mapks have mainly focused on mpk3, mpk4 and mpk6. here, a novel group b mapk gene, ghmpk11, was isolated from cotton (gossypium hirsutum l.) and characterized. both promoter and expression pattern analyses revealed that ghmpk11 is involved in defense responses and signaling pathways. ghmpk11 overexpression in ni ...	2016	27242882
bacterial avrrpt2-like cysteine proteases block activation of the arabidopsis mitogen-activated protein kinases, mpk4 and mpk11.	to establish infection, pathogens deliver effectors into host cells to target immune signaling components, including elements of mitogen-activated protein kinase (mpk) cascades. the virulence function of avrrpt2, one of the first identified pseudomonas syringae effectors, involves cleavage of the plant defense regulator, rpm1-interacting protein4 (rin4), and interference with plant auxin signaling. we show now that avrrpt2 specifically suppresses the flagellin-induced phosphorylation of arabidop ...	2016	27208280
hrcu and hrpp are pathogenicity factors in the fire blight pathogen erwinia amylovora required for the type iii secretion of dspa/e.	many gram-negative bacterial pathogens mediate host-microbe interactions via utilization of the type iii secretion (t3s) system. the t3s system is a complex molecular machine consisting of more than 20 proteins. collectively, these proteins translocate effectors across extracellular space and into the host cytoplasm. successful translocation requires timely synthesis and allocation of both structural and secreted t3s proteins. based on amino acid conservation in animal pathogenic bacteria, hrcu ...	2016	27206522
direct and indirect targeting of pp2a by conserved bacterial type-iii effector proteins.	bacterial avre-family type-iii effector proteins (t3es) contribute significantly to the virulence of plant-pathogenic species of pseudomonas, pantoea, ralstonia, erwinia, dickeya and pectobacterium, with hosts ranging from monocots to dicots. however, the mode of action of avre-family t3es remains enigmatic, due in large part to their toxicity when expressed in plant or yeast cells. to search for targets of wtse, an avre-family t3e from the maize pathogen pantoea stewartii subsp. stewartii, we e ...	2016	27191168
the n-end rule pathway regulates pathogen responses in plants.	to efficiently counteract pathogens, plants rely on a complex set of immune responses that are tightly regulated to allow the timely activation, appropriate duration and adequate amplitude of defense programs. the coordination of the plant immune response is known to require the activity of the ubiquitin/proteasome system, which controls the stability of proteins in eukaryotes. here, we demonstrate that the n-end rule pathway, a subset of the ubiquitin/proteasome system, regulates the defense ag ...	2016	27173012
enhanced rice blast resistance by crispr/cas9-targeted mutagenesis of the erf transcription factor gene oserf922.	rice blast is one of the most destructive diseases affecting rice worldwide. the adoption of host resistance has proven to be the most economical and effective approach to control rice blast. in recent years, sequence-specific nucleases (ssns) have been demonstrated to be powerful tools for the improvement of crops via gene-specific genome editing, and crispr/cas9 is thought to be the most effective ssn. here, we report the improvement of rice blast resistance by engineering a crispr/cas9 ssn (c ...	2016	27116122
ralstonia solanacearum type iii effector ripay is a glutathione-degrading enzyme that is activated by plant cytosolic thioredoxins and suppresses plant immunity.	the plant pathogen ralstonia solanacearum uses a large repertoire of type iii effector proteins to succeed in infection. to clarify the function of effector proteins in host eukaryote cells, we expressed effectors in yeast cells and identified seven effector proteins that interfere with yeast growth. one of the effector proteins, ripay, was found to share homology with the chac family proteins that function as γ-glutamyl cyclotransferases, which degrade glutathione (gsh), a tripeptide that plays ...	2016	27073091
reactive oxygen species and nitric oxide control early steps of the legume - rhizobium symbiotic interaction.	the symbiotic interaction between legumes and nitrogen-fixing rhizobium bacteria leads to the formation of a new organ, the nodule. early steps of the interaction are characterized by the production of bacterial nod factors, the reorientation of root-hair tip growth, the formation of an infection thread (it) in the root hair, and the induction of cell division in inner cortical cells of the root, leading to a nodule primordium formation. reactive oxygen species (ros) and nitric oxide (no) have b ...	2016	27092165
dynamic protein acetylation in plant-pathogen interactions.	pathogen infection triggers complex molecular perturbations within host cells that results in either resistance or susceptibility. protein acetylation is an emerging biochemical modification that appears to play central roles during host-pathogen interactions. to date, research in this area has focused on two main themes linking protein acetylation to plant immune signaling. firstly, it has been established that proper gene expression during defense responses requires modulation of histone acety ...	2016	27066055
identification and functional analysis of secreted effectors from phytoparasitic nematodes.	plant parasitic nematodes develop an intimate and long-term feeding relationship with their host plants. they induce a multi-nucleate feeding site close to the vascular bundle in the roots of their host plant and remain sessile for the rest of their life. nematode secretions, produced in the oesophageal glands and secreted through a hollow stylet into the host plant cytoplasm, are believed to play key role in pathogenesis. to combat these persistent pathogens, the identity and functional analysi ...	2016	27001199
comparative analysis of plant immune receptor architectures uncovers host proteins likely targeted by pathogens.	plants deploy immune receptors to detect pathogen-derived molecules and initiate defense responses. intracellular plant immune receptors called nucleotide-binding leucine-rich repeat (nlr) proteins contain a central nucleotide-binding (nb) domain followed by a series of leucine-rich repeats (lrrs), and are key initiators of plant defense responses. however, recent studies demonstrated that nlrs with non-canonical domain architectures play an important role in plant immunity. these composite immu ...	2016	26891798
fusarium culmorum affects expression of biofilm formation key genes in bacillus subtilis.	it is known that there is correlation between biofilm formation and antagonistic activities of bacillus subtilis strains; but, the mechanism of this correlation is not clear. so, the effect of the plant pathogen (fusarium culmorum) on the biofilm formation in a b. subtilis strain with high antagonistic and biofilm formation activities was studied. the expression of sinr and tasa genes involved in the biofilm formation was studied in both single culture of bacterium (b) and co-culture with f. cul ...	2016	26887226
phytohormone pathways as targets of pathogens to facilitate infection.	plants are constantly threatened by potential pathogens. in order to optimize the output of defense against pathogens with distinct lifestyles, plants depend on hormonal networks to fine-tune specific responses and regulate growth-defense tradeoffs. to counteract, pathogens have evolved various strategies to disturb hormonal homeostasis and facilitate infection. many pathogens synthesize plant hormones; more importantly, toxins and effectors are produced to manipulate hormonal crosstalk. accumul ...	2016	26879412
integration of decoy domains derived from protein targets of pathogen effectors into plant immune receptors is widespread.	plant immune receptors of the class of nucleotide-binding and leucine-rich repeat domain (nlr) proteins can contain additional domains besides canonical nb-arc (nucleotide-binding adaptor shared by apaf-1, r proteins, and ced-4 (nb-arc)) and leucine-rich repeat (lrr) domains. recent research suggests that these additional domains act as integrated decoys recognizing effectors from pathogens. proteins homologous to integrated decoys are suspected to be effector targets and involved in disease or ...	2016	26848538
involvement of agrobacterium tumefaciens galacturonate tripartite atp-independent periplasmic (trap) transporter gaapqm in virulence gene expression.	monosaccharides capable of serving as nutrients for the soil bacterium agrobacterium tumefaciens are also inducers of the vir regulon present in the tumor-inducing (ti) plasmid of this plant pathogen. one such monosaccharide is galacturonate, the predominant monomer of pectin found in plant cell walls. this ligand is recognized by the periplasmic sugar binding protein chve, which interacts with the vira histidine kinase that controls vir gene expression. although chve is also a member of the chv ...	2016	26637603
proteome analysis of disease resistance against ralstonia solanacearum in potato cultivar ct206-10.	potato is one of the most important crops worldwide. its commercial cultivars are highly susceptible to many fungal and bacterial diseases. among these, bacterial wilt caused by ralstonia solanacearum causes significant yield loss. in the present study, integrated proteomics and genomics approaches were used in order to identify bacterial wilt resistant genes from rs resistance potato cultivar ct-206-10. 2-de and maldi-tof/tof-ms analysis identified eight differentially abundant proteins includi ...	2016	26889112
rutin-mediated priming of plant resistance to three bacterial pathogens initiating the early sa signal pathway.	flavonoids are ubiquitous in the plant kingdom and have many diverse functions, including uv protection, auxin transport inhibition, allelopathy, flower coloring and insect resistance. here we show that rutin, a proud member of the flavonoid family, could be functional as an activator to improve plant disease resistances. three plant species pretreated with 2 mm rutin were found to enhance resistance to xanthomonas oryzae pv. oryzae, ralstonia solanacearum, and pseudomonas syringae pv. tomato st ...	2016	26751786
leucine zipper motif in rrs1 is crucial for the regulation of arabidopsis dual resistance protein complex rps4/rrs1.	arabidopsis thaliana leucine-rich repeat-containing (nlr) proteins rps4 and rrs1, known as dual resistance proteins, confer resistance to multiple pathogen isolates, such as the bacterial pathogens pseudomonas syringae and ralstonia solanacearum and the fungal pathogen colletotrichum higginsianum. rps4 is a typical toll/interleukin 1 receptor (tir)-type nlr, whereas rrs1 is an atypical tir-nlr that contains a leucine zipper (lz) motif and a c-terminal wrky domain. rps4 and rrs1 are localised nea ...	2016	26750751
bacillus subtilis early colonization of arabidopsis thaliana roots involves multiple chemotaxis receptors.	colonization of plant roots by bacillus subtilis is mutually beneficial to plants and bacteria. plants can secrete up to 30% of their fixed carbon via root exudates, thereby feeding the bacteria, and in return the associated b. subtilis bacteria provide the plant with many growth-promoting traits. formation of a biofilm on the root by matrix-producing b. subtilis is a well-established requirement for long-term colonization. however, we observed that cells start forming a biofilm only several hou ...	2016	27899502
comparative genomics of pseudomonas syringae pathovar tomato reveals novel chemotaxis pathways associated with motility and plant pathogenicity.	the majority of bacterial foliar plant pathogens must invade the apoplast of host plants through points of ingress, such as stomata or wounds, to replicate to high population density and cause disease. how pathogens navigate plant surfaces to locate invasion sites remains poorly understood. many bacteria use chemical-directed regulation of flagellar rotation, a process known as chemotaxis, to move towards favorable environmental conditions. chemotactic sensing of the plant surface is a potential ...	2016	27812402
aboveground whitefly infestation-mediated reshaping of the root microbiota.	plants respond to various types of herbivore and pathogen attack using well-developed defensive machinery designed for self-protection. infestation from phloem-sucking insects such as whitefly and aphid on plant leaves was previously shown to influence both the saprophytic and pathogenic bacterial community in the plant rhizosphere. however, the modulation of the root microbial community by plants following insect infestation has been largely unexplored. only limited studies of culture-dependent ...	2016	27656163
a carotenoid-deficient mutant in pantoea sp. yr343, a bacteria isolated from the rhizosphere of populus deltoides, is defective in root colonization.	the complex interactions between plants and their microbiome can have a profound effect on the health and productivity of the plant host. a better understanding of the microbial mechanisms that promote plant health and stress tolerance will enable strategies for improving the productivity of economically important plants. pantoea sp. yr343 is a motile, rod-shaped bacterium isolated from the roots of populus deltoides that possesses the ability to solubilize phosphate and produce the phytohormone ...	2016	27148182
broomrape weeds. underground mechanisms of parasitism and associated strategies for their control: a review.	broomrapes are plant-parasitic weeds which constitute one of the most difficult-to-control of all biotic constraints that affect crops in mediterranean, central and eastern europe, and asia. due to their physical and metabolic overlap with the crop, their underground parasitism, their achlorophyllous nature, and hardly destructible seed bank, broomrape weeds are usually not controlled by management strategies designed for non-parasitic weeds. instead, broomrapes are in current state of intensifi ...	2016	26925071
hiph catalyzes the hydroxylation of 4-hydroxyisophthalate to protocatechuate in 2,4-xylenol catabolism by pseudomonas putida ncimb 9866.	in addition to growing on p-cresol, pseudomonas putida ncimb 9866 is the only reported strain capable of aerobically growing on 2,4-xylenol, which is listed as a priority pollutant by the u.s. environmental protection agency. several enzymes involved in the oxidation of the para-methyl group, as well as the corresponding genes, have previously been reported. the enzyme catalyzing oxidation of the catabolic intermediate 4-hydroxyisophthalate to the ring cleavage substrate protocatechuate was also ...	2016	26567311
plant root-microbe communication in shaping root microbiomes.	a growing body of research is highlighting the impacts root-associated microbial communities can have on plant health and development. these impacts can include changes in yield quantity and quality, timing of key developmental stages and tolerance of biotic and abiotic stresses. with such a range of effects it is clear that understanding the factors that contribute to a plant-beneficial root microbiome may prove advantageous. increasing demands for food by a growing human population increases t ...	2016	26729479
metabolic network modeling of microbial interactions in natural and engineered environmental systems.	we review approaches to characterize metabolic interactions within microbial communities using stoichiometric metabolic network (smn) models for applications in environmental and industrial biotechnology. smn models are computational tools used to evaluate the metabolic engineering potential of various organisms. they have successfully been applied to design and optimize the microbial production of antibiotics, alcohols and amino acids by single strains. to date however, such models have been ra ...	2016	27242701
comparative genomic analysis of the flagellin glycosylation island of the gram-positive thermophile geobacillus.	protein glycosylation involves the post-translational attachment of sugar chains to target proteins and has been observed in all three domains of life. post-translational glycosylation of flagellin, the main structural protein of the flagellum, is a common characteristic among many gram-negative bacteria and archaea. several distinct functions have been ascribed to flagellin glycosylation, including stabilisation and maintenance of the flagellar filament, motility, surface recognition, adhesion, ...	2016	27842516
mechanistic insights into c-di-gmp-dependent control of the biofilm regulator fleq from pseudomonas aeruginosa.	bacterial biofilm formation during chronic infections confers increased fitness, antibiotic tolerance, and cytotoxicity. in many pathogens, the transition from a planktonic lifestyle to collaborative, sessile biofilms represents a regulated process orchestrated by the intracellular second-messenger c-di-gmp. a main effector for c-di-gmp signaling in the opportunistic pathogen pseudomonas aeruginosa is the transcription regulator fleq. fleq is a bacterial enhancer-binding protein (bebp) with a ce ...	2016	26712005
mechanistic insights into c-di-gmp-dependent control of the biofilm regulator fleq from pseudomonas aeruginosa.	bacterial biofilm formation during chronic infections confers increased fitness, antibiotic tolerance, and cytotoxicity. in many pathogens, the transition from a planktonic lifestyle to collaborative, sessile biofilms represents a regulated process orchestrated by the intracellular second-messenger c-di-gmp. a main effector for c-di-gmp signaling in the opportunistic pathogen pseudomonas aeruginosa is the transcription regulator fleq. fleq is a bacterial enhancer-binding protein (bebp) with a ce ...	2016	26712005
chloroplast genomes: diversity, evolution, and applications in genetic engineering.	chloroplasts play a crucial role in sustaining life on earth. the availability of over 800 sequenced chloroplast genomes from a variety of land plants has enhanced our understanding of chloroplast biology, intracellular gene transfer, conservation, diversity, and the genetic basis by which chloroplast transgenes can be engineered to enhance plant agronomic traits or to produce high-value agricultural or biomedical products. in this review, we discuss the impact of chloroplast genome sequences on ...	2016	27339192
challenges with using names to link digital biodiversity information.		2016	27346955
flagellin glycosylation in paenibacillus alvei ccm 2051t.	flagellin glycosylation impacts, in several documented cases, the functionality of bacterial flagella. the basis of flagellin glycosylation has been studied for various gram-negative bacteria, but less is known about flagellin glycans of gram-positive bacteria including paenibacillus alvei, a secondary invader of honeybee colonies diseased with european foulbrood. paenibacillus alvei ccm 2051(t) swarms vigorously on solidified culture medium, with swarming relying on functional flagella as evide ...	2016	26405108
flagellin glycosylation in paenibacillus alvei ccm 2051t.	flagellin glycosylation impacts, in several documented cases, the functionality of bacterial flagella. the basis of flagellin glycosylation has been studied for various gram-negative bacteria, but less is known about flagellin glycans of gram-positive bacteria including paenibacillus alvei, a secondary invader of honeybee colonies diseased with european foulbrood. paenibacillus alvei ccm 2051(t) swarms vigorously on solidified culture medium, with swarming relying on functional flagella as evide ...	2016	26405108
identification of anion channels responsible for fluoride resistance in oral streptococci.	recently, it has been reported that eric and crcb are involved in bacterial fluoride resistance. however, the fluoride-resistance mechanism in oral streptococci remains unclear. blast studies showed that two types of erics (eric1 and eric2) and two types of crcbs (crcb1 and crcb2) are present across 18 oral streptococci, which were identified in ≥ 10% of 166 orally healthy subjects with ≥ 0.01% of the mean relative abundance. they were divided into three groups based on the distribution of these ...	2016	27824896
bioprospecting red sea coastal ecosystems for culturable microorganisms and their antimicrobial potential.	microorganisms that inhabit unchartered unique soil such as in the highly saline and hot red sea lagoons on the saudi arabian coastline, represent untapped sources of potentially new bioactive compounds. in this study, a culture-dependent approach was applied to three types of sediments: mangrove mud (mn), microbial mat (mm), and barren soil (bs), collected from rabigh harbor lagoon (rhl) and al-kharrar lagoon (akl). the isolated bacteria were evaluated for their potential to produce bioactive c ...	2016	27626430
a new member of the growing family of contact-dependent growth inhibition systems in xenorhabdus doucetiae.	xenorhabdus is a bacterial symbiont of entomopathogenic steinernema nematodes and is pathogenic for insects. its life cycle involves a stage inside the insect cadaver, in which it competes for environmental resources with microorganisms from soil and the insect gut. xenorhabdus is, thus, a useful model for identifying new interbacterial competition systems. for the first time, in an entomopathogenic bacterium, xenorhabdus doucetiae strain frm16, we identified a cdi-like locus. the cdi loci encod ...	2016	27907104
simultaneous detection of three bacterial seed-borne diseases in rice using multiplex polymerase chain reaction.	burkholderia glumae (bacterial grain rot), xanthomonas oryzae pv. oryzae (bacterial leaf blight), and acidovorax avenae subsp. avenae (bacterial brown stripe) are major seedborne pathogens of rice. based on the 16s and 23s rdna sequences for a. avenae subsp. avenae and b. glumae, and transposase a gene sequence for x. oryzae pv. oryzae, three sets of primers had been designed to produce 402 bp for b. glumae, 490 bp for x. oryzae, and 290 bp for a. avenae subsp. avenae with the 63°c as an optimum ...	2016	27904465
accumulation and secretion of coumarinolignans and other coumarins in arabidopsis thaliana roots in response to iron deficiency at high ph.	root secretion of coumarin-phenolic type compounds has been recently shown to be related to arabidopsis thaliana tolerance to fe deficiency at high ph. previous studies revealed the identity of a few simple coumarins occurring in roots and exudates of fe-deficient a. thaliana plants, and left open the possible existence of other unknown phenolics. we used hplc-uv/vis/esi-ms(tof), hplc/esi-ms(ion trap) and hplc/esi-ms(q-tof) to characterize (identify and quantify) phenolic-type compounds accumula ...	2016	27933069
a dna-based real-time pcr assay for robust growth quantification of the bacterial pathogen pseudomonas syringae on arabidopsis thaliana.	the interaction of pseudomonas syringae with arabidopsis is one of the most commonly used systems to study various bacterial-host interrelationships. currently, most studies are based on the growth quantification of the pathogen to characterize resistance or virulence targets. however, the standard available method for determining bacterial proliferation in planta is laborious and has several limitations.	2016	27895701
the systematic investigation of the quorum sensing system of the biocontrol strain pseudomonas chlororaphis subsp. aurantiaca pb-st2 unveils auri to be a biosynthetic origin for 3-oxo-homoserine lactones.	the shoot endophytic biocontrol strain pseudomonas chlororaphis subsp. aurantiaca pb-st2 produces a wide range of exoproducts, including enzymes and antibiotics. the production of exoproducts is commonly tightly regulated. in order to get a deeper insight into the regulatory network of pb-st2, the strain was systematically investigated regarding its quorum sensing systems, both on the genetic and metabolic level. the genome analysis of pb-st2 revealed the presence of four putative acyl homoserin ...	2016	27861617
role of the gacs sensor kinase in the regulation of volatile production by plant growth-promoting pseudomonas fluorescens sbw25.	in plant-associated pseudomonas species, the production of several secondary metabolites and exoenzymes is regulated by the gacs/gaca two-component regulatory system (the gac-system). here, we investigated if a mutation in the gacs sensor kinase affects the production of volatile organic compounds (vocs) in p. fluorescens sbw25 (pf.sbw25) and how this impacts on vocs-mediated growth promotion and induced systemic resistance of arabidopsis and tobacco. a total of 205 vocs were detected by gas chr ...	2016	27917180
the genome of the toluene-degrading pseudomonas veronii strain 1ydbtex2 and its differential gene expression in contaminated sand.	the natural restoration of soils polluted by aromatic hydrocarbons such as benzene, toluene, ethylbenzene and m- and p-xylene (btex) may be accelerated by inoculation of specific biodegraders (bioaugmentation). bioaugmentation mainly involves introducing bacteria that deploy their metabolic properties and adaptation potential to survive and propagate in the contaminated environment by degrading the pollutant. in order to better understand the adaptive response of cells during a transition to con ...	2016	27812150
pseudomonas aeruginosa type iii secretory toxin exou and its predicted homologs.	pseudomonas aeruginosa exou, a type iii secretory toxin and major virulence factor with patatin-like phospholipase activity, is responsible for acute lung injury and sepsis in immunocompromised patients. through use of a recently updated bacterial genome database, protein sequences predicted to be homologous to ps. aeruginosa exou were identified in 17 other pseudomonas species (ps. fluorescens, ps. lundensis, ps. weihenstephanensis, ps. marginalis, ps. rhodesiae, ps. synxantha, ps. libanensis, ...	2016	27792159
involvement of type vi secretion system in secretion of iron chelator pyoverdine in pseudomonas taiwanensis.	rice bacterial blight caused by xanthomonas oryzae pv. oryzae (xoo) is one of the most destructive rice diseases worldwide. therefore, in addition to breeding disease-resistant rice cultivars, it is desirable to develop effective biocontrol agents against xoo. here, we report that a soil bacterium pseudomonas taiwanensis displayed strong antagonistic activity against xoo. using matrix-assisted laser desorption/ionization imaging mass spectrometry, we identified an iron chelator, pyoverdine, secr ...	2016	27605490
screen of non-annotated small secreted proteins of pseudomonas syringae reveals a virulence factor that inhibits tomato immune proteases.	pseudomonas syringae pv. tomato dc3000 (ptodc3000) is an extracellular model plant pathogen, yet its potential to produce secreted effectors that manipulate the apoplast has been under investigated. here we identified 131 candidate small, secreted, non-annotated proteins from the ptodc3000 genome, most of which are common to pseudomonas species and potentially expressed during apoplastic colonization. we produced 43 of these proteins through a custom-made gateway-compatible expression system for ...	2016	27603016