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https://www.readbyqxmd.com/read/28087933/ecology-of-fungal-plant-pathogens
#1
Aad J Termorshuizen
Fungal plant pathogens are ubiquitous and highly diverse. Key to their success is high host density, which notably is the case in agroecosystems. Several hypotheses related to the effects of plant pathogens on plant diversity (the Janzen-Connell hypothesis, the dilution effect hypothesis) and the phenomenon of higher biomass in plant mixtures (i.e., overyielding) can all be explained by the quantitative interplay between host and pathogen density. In many agroecosystems, fungal plant pathogens cause great losses, since in monocultures diseased plants cannot be replaced by healthy plants...
December 2016: Microbiology Spectrum
https://www.readbyqxmd.com/read/28087696/genetic-and-biochemical-characterization-of-a-gene-operon-for-trans-aconitic-acid-a-novel-nematicide-from-bacillus-thuringiensis
#2
Cuiying Du, Shiyun Cao, Xiangyu Shi, Xiangtao Nie, Jinshui Zheng, Yun Deng, Lifang Ruan, Donghai Peng, Ming Sun
Trans-aconitic acid (TAA) is an isomer of cis-aconitic acid (CAA), an intermediate of the tricarboxylic acid (TCA) cycle that is synthesized by aconitase. Although TAA production has been detected in bacteria and plants for many years and is known to be a potent inhibitor of aconitase, its biosynthetic origins and the physiological relevance of its activity have remained unclear. We have serendipitously uncovered key information relevant to both of these questions. Specifically, in a search for novel nematicidal factors from Bacillus thuringiensis, a significant nematode pathogen harboring many protein virulence factors, we discovered a high-yielding component that showed activity against the plant-parasitic nematode Meloidogyne incognita and surprisingly identified it as TAA...
January 13, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28087277/identification-of-ubact-a-ubiquitin-like-protein-along-with-other-homologous-components-of-a-conjugation-system-and-the-proteasome-in-different-gram-negative-bacteria
#3
Gilad Lehmann, Ronald G Udasin, Ido Livneh, Aaron Ciechanover
Systems analogous to the eukaryotic ubiquitin-proteasome system have been previously identified in Archaea, and Actinobacteria (gram-positive), but not in gram-negative bacteria. Here, we report the bioinformatic identification of a novel prokaryotic ubiquitin-like protein, which we name UBact. The phyletic distribution of UBact covers at least five gram-negative bacterial phyla, including Nitrospirae, Armatimonadetes, Verrucomicroba, Nitrospinae, and Planctomycetes. Additionally, it was identified in seven candidate (uncultured) phyla and one Archaeon...
January 10, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28080212/heterogeneity-of-carbapenem-resistance-mechanisms-among-gram-negative-pathogens-in-lebanon-results-of-the-first-cross-sectional-countrywide-study
#4
Dalal Hammoudi Halat, Carole Ayoub Moubareck, Dolla Karam Sarkis
Carbapenem-resistant Gram-negative pathogens have progressively disseminated to different countries worldwide, presenting a serious public health concern. The aims of this study were to determine the prevalence of carbapenem resistance in Gram-negative bacteria in Lebanon, to elucidate molecular mechanisms, and to identify genetic relatedness of incriminated strains. Carbapenem nonsusceptible Enterobacteriaceae, Acinetobacter baumannii, and Pseudomonas were collected from 11 Lebanese hospitals in 2012. Antimicrobial susceptibility was assessed with phenotypic tests, genes encoding carbapenemases were screened via PCR-sequencing, and genetic relatedness was examined by PGFE and ERIC-PCR...
January 12, 2017: Microbial Drug Resistance: MDR: Mechanisms, Epidemiology, and Disease
https://www.readbyqxmd.com/read/28067866/horizontally-acquired-at-rich-genes-in-escherichia-coli-cause-toxicity-by-sequestering-rna-polymerase
#5
Lisa E Lamberte, Gabriele Baniulyte, Shivani S Singh, Anne M Stringer, Richard P Bonocora, Mathew Stracy, Achillefs N Kapanidis, Joseph T Wade, David C Grainger
Horizontal gene transfer permits rapid dissemination of genetic elements between individuals in bacterial populations. Transmitted DNA sequences may encode favourable traits. However, if the acquired DNA has an atypical base composition, it can reduce host fitness. Consequently, bacteria have evolved strategies to minimize the harmful effects of foreign genes. Most notably, xenogeneic silencing proteins bind incoming DNA that has a higher AT content than the host genome. An enduring question has been why such sequences are deleterious...
January 9, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28067311/supra-operonic-clusters-of-functionally-related-genes-socs-are-a-source-of-horizontal-gene-co-transfers
#6
Tin Yau Pang, Martin J Lercher
Adaptation of bacteria occurs predominantly via horizontal gene transfer (HGT). While it is widely recognized that horizontal acquisitions frequently encompass multiple genes, it is unclear what the size distribution of successfully transferred DNA segments looks like and what evolutionary forces shape this distribution. Here, we identified 1790 gene family pairs that were consistently co-gained on the same branches across a phylogeny of 53 E. coli strains. We estimated a lower limit of their genomic distances at the time they were transferred to their host genomes; this distribution shows a sharp upper bound at 30 kb...
January 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28066124/cymbomonas-tetramitiformis-a-peculiar-prasinophyte-with-a-taste-for-bacteria-sheds-light-on-plastid-evolution
#7
REVIEW
Przemysław Gagat, Paweł Mackiewicz
Cymbomonas tetramitiformis is a peculiar green alga that unites in one cell the abilities of photosynthesis and phagocytosis, which makes it a very useful model for the study of the evolution of plastid endosymbiosis. We have pondered over this issue and propose an evolutionary scenario of trophic strategies in eukaryotes, including primary and secondary plastid endosymbioses. C. tetramitiformis is a prototroph, just like the common ancestor of Archaeplastida was, and can synthesize most small organic molecules contrary to other eukaryotic phagotrophs, e...
2017: Symbiosis
https://www.readbyqxmd.com/read/28063194/evolution-of-copper-resistance-in-the-kiwifruit-pathogen-pseudomonas-syringae-pv-actinidiae-through-acquisition-of-integrative-conjugative-elements-and-plasmids
#8
Elena Colombi, Christina Straub, Sven Künzel, Matthew D Templeton, Honour C McCann, Paul B Rainey
Horizontal gene transfer can precipitate rapid evolutionary change. In 2010 the global pandemic of kiwifruit canker disease caused by Pseudomonas syringae pv. actinidiae (Psa) reached New Zealand. At the time of introduction, the single clone responsible for the outbreak was sensitive to copper, however, analysis of a sample of isolates taken in 2015 and 2016 showed that a quarter were copper resistant. Genome sequences of seven strains showed that copper resistance - comprising czc/cusABC and copABCD systems - along with resistance to arsenic and cadmium, was acquired via uptake of integrative conjugative elements (ICEs), but also plasmids...
January 7, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28062463/ymc-2011-a-temperate-phage-of-streptococcus-salivarius-57-i
#9
Wen-Chun Chou, Szu-Chuan Huang, Cheng-Hsun Chiu, Yi-Ywan M Chen
: Streptococcus salivarius is an abundant isolate of the oral cavity. The genome of S. salivarius 57.I consists of a 2-Mb chromosome and a 40,758-bp circular molecule, designated YMC-2011. Annotation of YMC-2011 revealed 55 open reading frames, most of them associated with phage production, although plaque formation is not observed in S. salivarius 57.I after lytic induction using mitomycin C. Results from Southern hybridization and quantitative real-time PCR confirmed that YMC-2011 exists extrachromosomally with an estimated copy number of 3 to 4...
January 6, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28061804/the-extracellular-proteome-of-two-bifidobacterium-species-reveals-different-adaptation-strategies-to-low-iron-conditions
#10
Pamela Vazquez-Gutierrez, Marc J A Stevens, Peter Gehrig, Simon Barkow-Oesterreicher, Christophe Lacroix, Christophe Chassard
BACKGROUND: Bifidobacteria are among the first anaerobic bacteria colonizing the gut. Bifidobacteria require iron for growth and their iron-sequestration mechanisms are important for their fitness and possibly inhibit enteropathogens. Here we used combined genomic and proteomic analyses to characterize adaptations to low iron conditions of B. kashiwanohense PV20-2 and B. pseudolongum PV8-2, 2 strains isolated from the feces of iron-deficient African infants and selected for their high iron-sequestering ability...
January 6, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28054239/the-protein-content-of-extracellular-vesicles-derived-from-expanded-human-umbilical-cord-blood-derived-cd133-and-human-bone-marrow-derived-mesenchymal-stem-cells-partially-explains-why-both-sources-are-advantageous-for-regenerative-medicine
#11
Addeli B B Angulski, Luiz G Capriglione, Michel Batista, Bruna H Marcon, Alexandra C Senegaglia, Marco A Stimamiglio, Alejandro Correa
Adult stem cells have beneficial effects when exposed to damaged tissue due, at least in part, to their paracrine activity, which includes soluble factors and extracellular vesicles (EVs). Given the multiplicity of signals carried by these vesicles through the horizontal transfer of functional molecules, human mesenchymal stem cell (hMSCs) and CD133(+) cell-derived EVs have been tested in various disease models and shown to recover damaged tissues. In this study, we profiled the protein content of EVs derived from expanded human CD133(+) cells and bone marrow-derived hMSCs with the intention of better understanding the functions performed by these vesicles/cells and delineating the most appropriate use of each EV in future therapeutic procedures...
January 4, 2017: Stem Cell Reviews
https://www.readbyqxmd.com/read/28049657/the-ectocarpus-immediate-upright-gene-encodes-a-member-of-a-novel-family-of-cysteine-rich-proteins-that-have-an-unusual-distribution-across-the-eukaryotes
#12
Nicolas Macaisne, Fuli Liu, Delphine Scornet, Akira F Peters, Agnieszka Lipinska, Marie-Mathilde Perrineau, Antoine Henry, Martina Strittmatter, Susana M Coelho, J Mark Cock
The sporophyte generation of the brown alga Ectocarpus sp. exhibits an unusual pattern of development compared to the majority of brown algae. The first cell division is symmetrical and the apical/basal axis is established late in development. In the IMMEDIATE UPRIGHT mutant the initial cell undergoes an asymmetric division to immediately establish the apical/basal axis. We provide evidence which suggests that this phenotype corresponds to the ancestral state of the sporophyte. The IMM gene encodes a protein of unknown function, containing a repeated motif also found in the EsV-1-7 gene of the Ectocarpus virus...
January 3, 2017: Development
https://www.readbyqxmd.com/read/28049420/horizontal-gene-transfer-drives-the-evolution-of-rh50-permeases-in-prokaryotes
#13
Giorgio Matassi
BACKGROUND: Rh50 proteins belong to the family of ammonia permeases together with their Amt/MEP homologs. Ammonia permeases increase the permeability of NH3/NH4(+) across cell membranes and are believed to be involved in excretion of toxic ammonia and in the maintenance of pH homeostasis. RH50 genes are widespread in eukaryotes but absent in land plants and fungi, and remarkably rare in prokaryotes. The evolutionary history of RH50 genes in prokaryotes is just beginning to be unveiled...
January 3, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28045495/bacterial-networks-on-hydrophobic-micropillars
#14
Zeinab Jahed, Hamed Shahsavan, Mohit S Verma, Jacob L Rogowski, Brandon B Seo, Boxin Zhao, Ting Y Tsui, Frank X Gu, Mohammad R K Mofrad
Bacteria have evolved as intelligent microorganisms that can colonize and form highly structured and cooperative multicellular communities with sophisticated singular and collective behaviors. The initial stages of colony formation and intercellular communication are particularly important to understand and depend highly on the spatial organization of cells. Controlling the distribution and growth of bacterial cells at the nanoscale is, therefore, of great interest in understanding the mechanisms of cell-cell communication at the initial stages of colony formation...
January 9, 2017: ACS Nano
https://www.readbyqxmd.com/read/28045086/comparative-genome-analyses-of-mycobacterium-avium-reveal-genomic-features-of-its-subspecies-and-strains-that-cause-progression-of-pulmonary-disease
#15
Kei-Ichi Uchiya, Shuta Tomida, Taku Nakagawa, Shoki Asahi, Toshiaki Nikai, Kenji Ogawa
Pulmonary disease caused by nontuberculous mycobacteria (NTM) is increasing worldwide. Mycobacterium avium is the most clinically significant NTM species in humans and animals, and comprises four subspecies: M. avium subsp. avium (MAA), M. avium subsp. silvaticum (MAS), M. avium subsp. paratuberculosis (MAP), and M. avium subsp. hominissuis (MAH). To improve our understanding of the genetic landscape and diversity of M. avium and its role in disease, we performed a comparative genome analysis of 79 M. avium strains...
January 3, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28041851/acquisition-of-phage-sensitivity-by-bacteria-through-exchange-of-phage-receptors
#16
Elhanan Tzipilevich, Michal Habusha, Sigal Ben-Yehuda
Bacteriophages (phages) typically exhibit a narrow host range, yet they tremendously impact horizontal gene transfer (HGT). Here, we investigate phage dynamics in communities harboring phage-resistant (R) and sensitive (S) bacteria, a common scenario in nature. Using Bacillus subtilis and its lytic phage SPP1, we demonstrate that R cells, lacking SPP1 receptor, can be lysed by SPP1 when co-cultured with S cells. This unanticipated lysis was triggered in part by phage lytic enzymes released from nearby infected cells...
January 12, 2017: Cell
https://www.readbyqxmd.com/read/28034347/the-fate-of-mitochondria-after-infection-of-the-mucoralean-fungus-absidia-glauca-by-the-fusion-parasite-parasitella-parasitica-comparison-of-mitochondrial-genomes-in-zygomycetes
#17
Sabrina Ellenberger, Anke Burmester, Johannes Wöstemeyer
Absidia glauca and Parasitella parasitica constitute a versatile experimental system for studying horizontal gene transfer between a mucoralean host and its fusion parasite. The A. glauca chondriome has a length of approximately 63 kb and a GC content of 28%. The chondriome of P. parasitica is larger, 83 kb, and contains 31% GC base pairs. These mtDNAs contain the standard fungal mitochondrial gene set, small and large subunit rRNAs, plus ribonuclease P RNA. Comparing zygomycete chondriomes reveals an unusually high number of homing endonuclease genes in P...
December 30, 2016: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://www.readbyqxmd.com/read/28033323/transient-duplication-dependent-divergence-and-horizontal-transfer-underlie-the-evolutionary-dynamics-of-bacterial-cell-cell-signaling
#18
Eran Even-Tov, Shira Omer Bendori, Shaul Pollak, Avigdor Eldar
Evolutionary expansion of signaling pathway families often underlies the evolution of regulatory complexity. Expansion requires the acquisition of a novel homologous pathway and the diversification of pathway specificity. Acquisition can occur either vertically, by duplication, or through horizontal transfer, while divergence of specificity is thought to occur through a promiscuous protein intermediate. The way by which these mechanisms shape the evolution of rapidly diverging signaling families is unclear...
December 2016: PLoS Biology
https://www.readbyqxmd.com/read/28029340/horizontal-gene-transfer-versus-biostimulation-a-strategy-for-bioremediation-in-goa
#19
Rajesh Pasumarthi, Srikanth Mutnuri
Bioaugmentation, Biostimulation and Horizontal gene transfer (HGT) of catabolic genes have been proven for their role in bioremediation of hydrocarbons. It also has been proved that selection of either biostimulation or bioremediation varies for every contaminated site. The reliability of HGT compared to biostimulation and bioremediation was not tested. The present study focuses on reliability of biostimulatiion, bioaugmentation and HGT during biodegradation of Diesel oil and Non aqueous phase liquids (NAPL)...
October 28, 2016: Marine Pollution Bulletin
https://www.readbyqxmd.com/read/28028472/candidate-pathogenicity-islands-in-the-genome-of-candidatus-rickettsiella-isopodorum-an-intracellular-bacterium-infecting-terrestrial-isopod-crustaceans
#20
YaDong Wang, Christopher Chandler
The bacterial genus Rickettsiellabelongs to the order Legionellales in the Gammaproteobacteria, and consists of several described species and pathotypes, most of which are considered to be intracellular pathogens infecting arthropods. Two members of this genus, R. grylliand R. isopodorum, are known to infect terrestrial isopod crustaceans. In this study, we assembled a draft genomic sequence for R. isopodorum, and performed a comparative genomic analysis with R. grylli. We found evidence for several candidate genomic island regions in R...
2016: PeerJ
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