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https://www.readbyqxmd.com/read/28417169/rational-design-of-substrate-binding-pockets-in-polyphosphate-kinase-for-use-in-cost-effective-atp-dependent-cascade-reactions
#1
Hao Cao, Kaili Nie, Chengcheng Li, Haijun Xu, Fang Wang, Tianwei Tan, Luo Liu
Adenosine-5'-triphosphate (ATP) is the energy equivalent of the living system. Polyphosphate (polyP) is the ancient energy storage equivalent of organisms. Polyphosphate kinases (PPKs) catalyze the polyP formation or ATP formation, to store energy or to regenerate ATP, respectively. However, most PPKs are active only in the presence of long polyPs, which are more difficult and more expensive to generate than the short polyPs. We investigated the PPK preference towards polyPs by site-directed mutagenesis and computational simulation, to understand the mechanism and further design enzymes for effective ATP regeneration using short polyPs for in vitro cascade reactions, which are highly desired for research and applications...
April 18, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28416708/phou-allows-rapid-adaptation-to-high-phosphate-concentrations-by-modulating-pstscab-transport-rate-in-sinorhizobium-meliloti
#2
George C diCenzo, Harsh Sharthiya, Anish Nanda, Maryam Zamani, Turlough M Finan
Maintenance of cellular phosphate homeostasis is essential for cellular life. The PhoU protein has emerged as a key regulator of this process in bacteria and it is suggested to modulate phosphate import by PstSCAB and control activation of the phosphate limitation response by the PhoR-PhoB two-component system. However, a proper understanding of PhoU has remained elusive due to numerous complications of mutating phoU, including loss of viability and genetic instability of the mutants. Here, we developed two sets of strains of Sinorhizobium meliloti that overcame these limitations and allowed for a more detailed and comprehensive analysis of the biological and molecular activities of PhoU...
April 17, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28401641/a-conserved-%C3%AE-proteobacterial-small-rna-contributes-to-osmoadaptation-and-symbiotic-efficiency-of-rhizobia-on-legume-roots
#3
Marta Robledo, Alexandra Peregrina, Vicenta Millán, Natalia I García-Tomsig, Omar Torres-Quesada, Pedro F Mateos, Anke Becker, José I Jiménez-Zurdo
Small non-coding RNAs (sRNAs) are expected to have pivotal roles in the adaptive responses underlying symbiosis of nitrogen-fixing rhizobia with legumes. Here, we provide primary insights into the function and activity mechanism of the Sinorhizobium meliloti trans-sRNA NfeR1 (Nodule Formation Efficiency RNA). Northern blot probing and transcription tracking with fluorescent promoter-reporter fusions unveiled high nfeR1 expression in response to salt stress and throughout the symbiotic interaction. The strength and differential regulation of nfeR1 transcription are conferred by a motif, which is conserved in nfeR1 promoter regions in α-proteobacteria...
April 12, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28398840/the-ntry-ntrx-system-of-sinorhizobium-meliloti-gr4-regulates-motility-eps-i-production-and-nitrogen-metabolism-but-is-dispensable-for-symbiotic-nitrogen-fixation
#4
Nieves Calatrava-Morales, Joaquina Nogales, Kinia Ameztoy, Bart van Steenbergen, María José Soto
Sinorhizobium meliloti can translocate over surfaces. However, little is known about the regulatory mechanisms that control this trait and its relevance for establishing symbiosis with alfalfa plants. To gain insights into this field, we isolated Tn5 mutants of S. meliloti GR4 with impaired surface motility. In mutant strain GRS577, the transposon interrupted the ntrY gene encoding the sensor kinase of the NtrY/NtrX two-component regulatory system. GRS577 is impaired in flagella synthesis, and overproduces succinoglycan which is responsible for increased biofilm formation...
April 11, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28398123/heterologous-complementation-reveals-a-specialized-activity-for-baca-in-the-medicago-sinorhizobium-meliloti-symbiosis
#5
George C diCenzo, Maryam Zamani, Hannah N Ludwig, Turlough M Finan
The bacterium Sinorhizobium meliloti Rm2011 forms N2-fixing root nodules on alfalfa and other leguminous plants. The pSymB chromid contains a 110-kb region (the ETR region) showing high synteny to a chromosomally located region in Sinorhizobium fredii NGR234 and related rhizobia. We recently introduced the ETR region from S. fredii NGR234 into the S. meliloti chromosome. Here, we report that, unexpectedly, the S. fredii NGR234 ETR region did not complement deletion of the S. meliloti ETR region in symbiosis with Medicago sativa...
April 10, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28394919/correction-quantitative-proteomic-analysis-of-the-hfq-regulon-in-sinorhizobium-meliloti-2011
#6
Patricio Sobrero, Jan-Philip Schlüter, Ulrike Lanner, Andreas Schlosser, Anke Becker, Claudio Valverde
[This corrects the article DOI: 10.1371/journal.pone.0048494.].
2017: PloS One
https://www.readbyqxmd.com/read/28386109/the-underlying-process-of-early-ecological-and-genetic-differentiation-in-a-facultative-mutualistic-sinorhizobium-meliloti-population
#7
Nicolás Toro, Pablo J Villadas, María Dolores Molina-Sánchez, Pilar Navarro-Gómez, José M Vinardell, Lidia Cuesta-Berrio, Miguel A Rodríguez-Carvajal
The question of how genotypic and ecological units arise and spread in natural microbial populations remains controversial in the field of evolutionary biology. Here, we investigated the early stages of ecological and genetic differentiation in a highly clonal sympatric Sinorhizobium meliloti population. Whole-genome sequencing revealed that a large DNA region of the symbiotic plasmid pSymB was replaced in some isolates with a similar synteny block carrying densely clustered SNPs and displaying gene acquisition and loss...
April 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28385842/permanent-draft-genome-sequence-of-ensifer-sp-strain-lcm-4579-a-salt-tolerant-nitrogen-fixing-bacterium-isolated-from-senegalese-soil
#8
Nathalie Diagne, Erik Swanson, Céline Pesce, Fatoumata Fall, Fatou Diouf, Niokhor Bakhoum, Dioumacor Fall, Mathieu Ndigue Faye, Rediet Oshone, Stephen Simpson, Krystalynne Morris, W Kelley Thomas, Lionel Moulin, Diegane Diouf, Louis S Tisa
The genus Ensifer (formerly Sinorhizobium) contains many species able to form nitrogen-fixing nodules on plants of the legume family. Here, we report the 6.1-Mb draft genome sequence of Ensifer sp. strain LCM 4579, with a G+C content of 62.4% and 5,613 candidate protein-encoding genes.
April 6, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28314132/rhizobial-symbiosis-alleviates-polychlorinated-biphenyls-induced-systematic-oxidative-stress-via-brassinosteroids-signaling-in-alfalfa
#9
Xiaomi Wang, Ying Teng, Ning Zhang, Peter Christie, Zhengao Li, Yongming Luo, Jun Wang
The role of symbiotic rhizobia in the alleviation of polychlorinated biphenyl (PCB)-induced phytotoxicity in alfalfa and the brassinosteroid (BR) hormone signaling involved were investigated during phytoremediation. The association between alfalfa and Sinorhizobium meliloti was adopted as a remediation model. Phytotoxicity due to PCB 77 (3,3',4,4'-tetrachlorobiphenyl) exerted adverse impacts on plant performance (biomass accumulation and photosynthesis) and elicited cellular oxidative stress (overproduction of reactive oxygen species, lipid peroxidation, and cell necrosis) which was largely attenuated by pre-inoculation with S...
March 14, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28285657/two-component-regulatory-system-acts-actr-is-required-for-sinorhizobium-meliloti-adaptation-to-oxidative-stress
#10
Guirong Tang, Sunjun Wang, Dawei Lu, Leqi Huang, Ningning Li, Li Luo
The two-component system ActS/ActR plays important roles in bacterial adaptation to abiotic stress, including acid tolerance and oxidant resistance. However, the underlying regulatory mechanism is not clear. In this study, we found that the ActS/ActR system is required for adaptation to oxidative stress by regulating the transcription of the genes actR, katB, gshA and gshB1. The actS and actR mutants were sensitive to low pH and oxidants such as H2O2, oxidized glutathione (GSSG) and sodium nitroprusside (SNP)...
May 2017: Microbiological Research
https://www.readbyqxmd.com/read/28284052/high-yield-production-of-rhizobium-nodb-chitin-deacetylase-and-its-use-for-in%C3%A2-vitro-synthesis-of-lipo-chitinoligosaccharide-precursors
#11
Rémi Chambon, Stéphanie Pradeau, Sébastien Fort, Sylvain Cottaz, Sylvie Armand
Lipo-chitinoligosaccharides (LCOs) are key molecules for the establishment of plant-microorganisms symbiosis. Interactions of leguminous crops with nitrogen-fixing rhizobial bacteria involve Nod factors, while Myc-LCOs improve the association of most plants with arbuscular mycorrhizal fungi. Both Nod factors and Myc-LCOs are composed of a chitinoligosaccharide fatty acylated at the non-reducing end accompanied with various substituting groups. One straightforward way to access LCOs is starting from chitin hydrolysate, an abundant polysaccharide found in crustacean shells, followed by regioselective enzymatic cleavage of an acetyl group from the non-reducing end of chitin tetra- or pentaose, and subsequent chemical introduction of N-acyl group...
April 10, 2017: Carbohydrate Research
https://www.readbyqxmd.com/read/28273103/functional-metagenomics-reveals-novel-%C3%AE-galactosidases-not-predictable-from-gene-sequences
#12
Jiujun Cheng, Tatyana Romantsov, Katja Engel, Andrew C Doxey, David R Rose, Josh D Neufeld, Trevor C Charles
The techniques of metagenomics have allowed researchers to access the genomic potential of uncultivated microbes, but there remain significant barriers to determination of gene function based on DNA sequence alone. Functional metagenomics, in which DNA is cloned and expressed in surrogate hosts, can overcome these barriers, and make important contributions to the discovery of novel enzymes. In this study, a soil metagenomic library carried in an IncP cosmid was used for functional complementation for β-galactosidase activity in both Sinorhizobium meliloti (α-Proteobacteria) and Escherichia coli (γ-Proteobacteria) backgrounds...
2017: PloS One
https://www.readbyqxmd.com/read/28264559/a-family-of-single-copy-repabc-type-shuttle-vectors-stably-maintained-in-the-alpha-proteobacterium-sinorhizobium-meliloti
#13
Johannes Döhlemann, Marcel Wagner, Carina Happel, Martina Carrillo, Patrick Sobetzko, Tobias J Erb, Martin Thanbichler, Anke Becker
A considerable share of bacterial species maintains segmented genomes. Plant symbiotic α-proteobacterial rhizobia contain up to six repABC-type replicons in addition to the primary chromosome. These low or unit-copy replicons, classified as secondary chromosomes, chromids, or megaplasmids, are exclusively found in α-proteobacteria. Replication and faithful partitioning of these replicons to the daughter cells is mediated by the repABC region. The importance of α-rhizobial symbiotic nitrogen fixation for sustainable agriculture and Agrobacterium-mediated plant transformation as a tool in plant sciences has increasingly moved biological engineering of these organisms into focus...
March 20, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28253454/common-dyes-used-to-determine-bacterial-polysaccharides-on-agar-are-affected-by-medium-acidification
#14
Justin P Hawkins, Barney A Geddes, Ivan John Oresnik
In this work the effects of pH on bacterial phenotypes when using the bacteriological dyes Aniline blue, Congo red, and Calcofluor white to analyze polysaccharide production. Study of galactose catabolism in <i>Sinorhizobium melilot</i>i led to the isolation of a mutation in <i>dgok1</i>, which was observed to overproduce exopolysaccharides when grown in the presence of galactose. When this strain was spotted onto plates containing Aniline blue, Congo red, or Calcofluor white, the intensity of the associated staining was strikingly different when compared to the Wild-type...
March 2, 2017: Canadian Journal of Microbiology
https://www.readbyqxmd.com/read/28235609/massive-parallel-insertion-site-sequencing-of-an-arrayed-sinorhizobium-meliloti-signature-tagged-mini-tn-5-transposon-mutant-library
#15
Javier Serrania, Tobias Johner, Oliver Rupp, Alexander Goesmann, Anke Becker
Transposon mutagenesis in conjunction with identification of genomic transposon insertion sites is a powerful tool for gene function studies. We have implemented a protocol for parallel determination of transposon insertion sites by Illumina sequencing involving a hierarchical barcoding method that allowed for tracking back insertion sites to individual clones of an arrayed signature-tagged transposon mutant library. This protocol was applied to further characterize a signature-tagged mini-Tn 5 mutant library comprising about 12,000 mutants of the symbiotic nitrogen-fixing alphaproteobacterium Sinorhizobium meliloti (Pobigaylo et al...
February 21, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28217917/a-comprehensive-phylogenetic-analysis-of-copper-transporting-p1b-atpases-from-bacteria-of-the-rhizobiales-order-uncovers-multiplicity-diversity-and-novel-taxonomic-subtypes
#16
Ciro Cubillas, Fabiola Miranda-Sánchez, Antonio González-Sánchez, José Pedro Elizalde, Pablo Vinuesa, Susana Brom, Alejandro García-de Los Santos
The ubiquitous cytoplasmic membrane copper transporting P1B-1 and P1B-3 -type ATPases pump out Cu(+) and Cu(2+) , respectively, to prevent cytoplasmic accumulation and avoid toxicity. The presence of five copies of Cu-ATPases in the symbiotic nitrogen-fixing bacteria Sinorhizobium meliloti is remarkable; it is the largest number of Cu(+) -transporters in a bacterial genome reported to date. Since the prevalence of multiple Cu-ATPases in members of the Rhizobiales order is unknown, we performed an in silico analysis to understand the occurrence, diversity and evolution of Cu(+) -ATPases in members of the Rhizobiales order...
February 20, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28216096/alkalinity-of-lanzarote-soils-is-a-factor-shaping-rhizobial-populations-with-sinorhizobium-meliloti-being-the-predominant-microsymbiont-of-lotus-lancerottensis
#17
Milagros León-Barrios, Juan Pérez-Yépez, Paola Dorta, Ana Garrido, Concepción Jiménez
Lotus lancerottensis is an endemic species that grows widely throughout Lanzarote Island (Canary Is.). Characterization of 48 strains isolated from root nodules of plants growing in soils from eleven locations on the island showed that 38 isolates (79.1%) belonged to the species Sinorhizobium meliloti, whereas only six belonged to Mesorhizobium sp., the more common microsymbionts for the Lotus. Other genotypes containing only one isolate were classified as Pararhizobium sp., Sinorhizobium sp., Phyllobacterium sp...
February 2, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28197647/the-overproduction-of-indole-3-acetic-acid-iaa-in-endophytes-upregulates-nitrogen-fixation-in-both-bacterial-cultures-and-inoculated-rice-plants
#18
Roberto Defez, Anna Andreozzi, Carmen Bianco
Endophytic bacteria from roots and leaves of rice plants were isolated and identified in order to select the diazotrophs and improve their nitrogen-fixing abilities. The nitrogen-fixing endophytes were identified by PCR amplification of the nifH gene fragment. For this purpose, two isolates, Enterobacter cloacae RCA25 and Klebsiella variicola RCA26, and two model bacteria (Herbaspirillum seropedicae z67 and Sinorhizobium fredii NGR234) were transformed to increase the biosynthesis of the main plant auxin indole-3-acetic acid (IAA)...
February 14, 2017: Microbial Ecology
https://www.readbyqxmd.com/read/28194158/role-and-regulation-of-acc-deaminase-gene-in-sinorhizobium-meliloti-is-it-a-symbiotic-rhizospheric-or-endophytic-gene
#19
Alice Checcucci, Elisa Azzarello, Marco Bazzicalupo, Anna De Carlo, Giovanni Emiliani, Stefano Mancuso, Giulia Spini, Carlo Viti, Alessio Mengoni
Plant-associated bacteria exhibit a number of different strategies and specific genes allow bacteria to communicate and metabolically interact with plant tissues. Among the genes found in the genomes of plant-associated bacteria, the gene encoding the enzyme 1-aminocyclopropane-1-carboxylate (ACC) deaminase (acdS) is one of the most diffused. This gene is supposed to be involved in the cleaving of plant-produced ACC, the precursor of the plant stress-hormone ethylene toning down the plant response to infection...
2017: Frontiers in Genetics
https://www.readbyqxmd.com/read/28180335/sinorhizobium-meliloti-ybey-is-an-endoribonuclease-with-unprecedented-catalytic-features-acting-as-silencing-enzyme-in-riboregulation
#20
Margarida Saramago, Alexandra Peregrina, Marta Robledo, Rute G Matos, Rolf Hilker, Javier Serrania, Anke Becker, Cecilia M Arraiano, José I Jiménez-Zurdo
No abstract text is available yet for this article.
February 17, 2017: Nucleic Acids Research
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