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https://www.readbyqxmd.com/read/28088165/genomic-characterization-of-ensifer-aridi-a-proposed-new-species-of-nitrogen-fixing-rhizobium-recovered-from-asian-african-and-american-deserts
#1
Antoine Le Quéré, Nisha Tak, Hukam Singh Gehlot, Celine Lavire, Thibault Meyer, David Chapulliot, Sonam Rathi, Ilham Sakrouhi, Guadalupe Rocha, Marine Rohmer, Dany Severac, Abdelkarim Filali-Maltouf, Jose-Antonio Munive
BACKGROUND: Nitrogen fixing bacteria isolated from hot arid areas in Asia, Africa and America but from diverse leguminous plants have been recently identified as belonging to a possible new species of Ensifer (Sinorhizobium). In this study, 6 strains belonging to this new clade were compared with Ensifer species at the genome-wide level. Their capacities to utilize various carbon sources and to establish a symbiotic interaction with several leguminous plants were examined. RESULTS: Draft genomes of selected strains isolated from Morocco (Merzouga desert), Mexico (Baja California) as well as from India (Thar desert) were produced...
January 14, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28058638/functional-analysis-of-the-two-cyclophilin-isoforms-of-sinorhizobium-meliloti
#2
Eirini-Evangelia Thomloudi, Aggeliki Skagia, Anastasia Venieraki, Panagiotis Katinakis, Maria Dimou
The nitrogen fixing Sinorhizobium meliloti possesses two genes, ppiA and ppiB, encoding two cyclophilin isoforms which belong to the superfamily of peptidyl prolyl cis/trans isomerases (PPIase, EC: 5.2.1.8). Here, we functionally characterize the two proteins and we demonstrate that both recombinant cyclophilins are able to isomerise the Suc-AAPF-pNA synthetic peptide but neither of them displays chaperone function in the citrate synthase thermal aggregation assay. Furthermore, we observe that the expression of both enzymes increases the viability of E...
February 2017: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/28017611/regulation-of-differentiation-of-nitrogen-fixing-bacteria-by-microsymbiont-targeting-of-plant-thioredoxin-s1
#3
Carolina Werner Ribeiro, Fabien Baldacci-Cresp, Olivier Pierre, Marie Larousse, Sofiane Benyamina, Annie Lambert, Julie Hopkins, Claude Castella, Julie Cazareth, Geneviève Alloing, Eric Boncompagni, Jérémy Couturier, Peter Mergaert, Pascal Gamas, Nicolas Rouhier, Françoise Montrichard, Pierre Frendo
Legumes associate with rhizobia to form nitrogen (N2)-fixing nodules, which is important for plant fitness [1, 2]. Medicago truncatula controls the terminal differentiation of Sinorhizobium meliloti into N2-fixing bacteroids by producing defensin-like nodule-specific cysteine-rich peptides (NCRs) [3, 4]. The redox state of NCRs influences some biological activities in free-living bacteria, but the relevance of redox regulation of NCRs in planta is unknown [5, 6], although redox regulation plays a crucial role in symbiotic nitrogen fixation [7, 8]...
December 19, 2016: Current Biology: CB
https://www.readbyqxmd.com/read/28007516/using-transposition-to-introduce-egfp-fusions-in-sinorhizobium-meliloti-a-tool-to-analyze-protein-localization-patterns-in-bacteria
#4
Hanna Bednarz, Karsten Niehaus
Conventional methods used for the in vivo analysis of subcellular protein localizations and their spatio-temporal dynamics in prokaryotes are based on either the engineering of N(amino)- or C(carboxy)-terminal fusions of fluorescent proteins with the protein of interest, or involved probing internal sites for tag integration. In addition, the use of inducible or constitutive promoters for the expression of fluorescent fusion proteins can lead to overexpression and result in localization artifacts. Here, we describe a method for the synthesis of fluorescent fusion proteins using transposable elements, which can randomly integrate in the internal sections of the protein coding sequence to produce full-length fluorescent fusion proteins expressed at endogenous levels...
December 19, 2016: Journal of Biotechnology
https://www.readbyqxmd.com/read/27965651/interaction-between-nitrogen-and-phosphate-stress-responses-in-sinorhizobium-meliloti
#5
Kelly L Hagberg, Svetlana N Yurgel, Monika Mulder, Michael L Kahn
Bacteria have developed various stress response pathways to improve their assimilation and allocation of limited nutrients, such as nitrogen and phosphate. While both the nitrogen stress response (NSR) and phosphate stress response (PSR) have been studied individually, there are few experiments reported that characterize effects of multiple stresses on one or more pathways in Sinorhizobium meliloti, a facultatively symbiotic, nitrogen-fixing bacteria. The PII proteins, GlnB and GlnK, regulate the NSR activity, but analysis of global transcription changes in a PII deficient mutant suggest that the S...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27935141/evolution-of-a-multi-step-phosphorelay-signal-transduction-system-in-ensifer-recruitment-of-the-sigma-factor-rpon-and-a-novel-enhancer-binding-protein-triggers-acid-activated-gene-expression
#6
Rui Tian, Stephan Heiden, Wan A M Osman, Julie K Ardley, Euan K James, Margaret M Gollagher, Ravi Tiwari, Rekha Seshadri, Nikos C Kyrpides, Wayne G Reeve
Most Ensifer strains are comparatively acid sensitive, compromising their persistence in low pH soils. In the acid-tolerant strain Ensifer medicae WSM419, the acid-activated expression of lpiA is essential for enhancing survival in lethal acidic conditions. Here we characterise a multi-step phosphorelay signal transduction pathway consisting of TcsA, TcrA, FsrR, RpoN and its cognate enhancer-binding protein EbpA, which is required for the induction of lpiA and the downstream acvB gene. The fsrR, tcrA, tcsA and rpoN genes were constitutively expressed, whereas lpiA and acvB were strongly acid-induced...
December 9, 2016: Molecular Microbiology
https://www.readbyqxmd.com/read/27923992/sinorhizobium-meliloti-ybey-is-an-endoribonuclease-with-unprecedented-catalytic-features-acting-as-silencing-enzyme-in-riboregulation
#7
Margarida Saramago, Alexandra Peregrina, Marta Robledo, Rute G Matos, Rolf Hilker, Javier Serrania, Anke Becker, Cecilia M Arraiano, José I Jiménez-Zurdo
Structural and biochemical features suggest that the almost ubiquitous bacterial YbeY protein may serve catalytic and/or Hfq-like protective functions central to small RNA (sRNA)-mediated regulation and RNA metabolism. We have biochemically and genetically characterized the YbeY ortholog of the legume symbiont Sinorhizobium meliloti (SmYbeY). Co-immunoprecipitation (CoIP) with a FLAG-tagged SmYbeY yielded a poor enrichment in RNA species, compared to Hfq CoIP-RNA uncovered previously by a similar experimental setup...
December 6, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27918247/type-iv-effector-proteins-involved-in-the-sinorhizobium-medicago-symbiosis
#8
Matthew S Nelson, Chan Lan Chun, Michael Jay Sadowsky
In this study, we investigated genetic elements of the type IV secretion system (T4SS) found in Sinorhizobium and the role they play in symbiosis. Sinorhizobium meliloti and S. medicae each contain a putative T4SS, similar to that used by Agrobacterium tumefaciens during pathogenesis. The Cre reporter assay for translocation (CRAfT) system was used to validate potential effector proteins. Both S. meliloti and S. medicae contained the effector protein TfeA, which was translocated into the host plant. Sequence analysis revealed the presence of a nod box, involved in transcriptional activation of symbiosis-related genes, upstream of the transcriptional regulator (virG) in the Sinorhizobium T4SS...
December 5, 2016: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/27911408/defining-substrate-specificities-for-lipase-and-phospholipase-candidates
#9
Diana X Sahonero-Canavesi, Maritza Zavaleta-Pastor, Lourdes Martínez-Aguilar, Isabel M López-Lara, Otto Geiger
Microorganisms produce a wide spectrum of (phospho)lipases that are secreted in order to make external substrates available for the organism. Alternatively, other (phospho)lipases may be physically associated with the producing organism causing a turnover of intrinsic lipids and frequently giving rise to a remodeling of the cellular membranes. Although potential (phospho)lipases can be predicted with a number of algorithms when the gene/protein sequence is available, experimental proof of the enzyme activities, substrate specificities, and potential physiological functions has frequently not been obtained...
November 23, 2016: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/27902438/dna-double-strand-break-repair-is-involved-in-desiccation-resistance-of-sinorhizobium-meliloti-but-is-not-essential-for-its-symbiotic-interaction-with-medicago-truncatula
#10
Pierre Dupuy, Benjamin Gourion, Laurent Sauviac, Claude Bruand
The soil bacterium Sinorhizobium meliloti, a nitrogen-fixing symbiont of legume plants, is exposed to numerous stress conditions in nature, some of which cause the formation of harmful DNA double strand breaks (DSB). In particular, the reactive oxygen (ROS) and nitrogen (RNS) species produced during symbiosis, and the desiccation occurring in dry soils, are conditions which induce DSB. Two major systems of DSB repair are known in S. meliloti: homologous recombination (HR) and non-homologous end-joining (NHEJ)...
November 23, 2016: Microbiology
https://www.readbyqxmd.com/read/27900694/methods-for-the-isolation-of-genes-encoding-novel-pha-metabolism-enzymes-from-complex-microbial-communities
#11
Jiujun Cheng, Ricardo Nordeste, Maria A Trainer, Trevor C Charles
Development of different PHAs as alternatives to petrochemically derived plastics can be facilitated by mining metagenomic libraries for diverse PHA cycle genes that might be useful for synthesis of bio-plastics. The specific phenotypes associated with mutations of the PHA synthesis pathway genes in Sinorhizobium meliloti and Pseudomonas putida, allows the use of powerful selection and screening tools to identify complementing novel PHA synthesis genes. Identification of novel genes through their function rather than sequence facilitates the functional proteins that may otherwise have been excluded through sequence-only screening methodology...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27864973/the-evolution-of-symbiont-preference-traits-in-the-model-legume-medicago-truncatula
#12
Rebecca T Batstone, Emily M Dutton, Donglin Wang, Molly Yang, Megan E Frederickson
Many hosts preferentially associate with or reward better symbionts, but how these symbiont preference traits evolve is an open question. Legumes often form more nodules with or provide more resources to rhizobia that fix more nitrogen (N), but they also acquire N from soil via root foraging. It is unclear whether root responses to abiotically and symbiotically derived N evolve independently. Here, we measured root foraging and both preferential allocation of root resources to and preferential association with an effective vs an ineffective N-fixing Ensifer meliloti strain in 35 inbred lines of the model legume Medicago truncatula...
November 16, 2016: New Phytologist
https://www.readbyqxmd.com/read/27818838/optical-disassembly-of-cellular-clusters-by-tunable-tug-of-war-tweezers
#13
Anna S Bezryadina, Daryl C Preece, Joseph C Chen, Zhigang Chen
Bacterial biofilms underlie many persistent infections, posing major hurdles in antibiotic treatment. Here we design and demonstrate 'tug-of-war' optical tweezers that can facilitate the assessment of cell-cell adhesion-a key contributing factor to biofilm development, thanks to the combined actions of optical scattering and gradient forces. With a customized optical landscape distinct from that of conventional tweezers, not only can such 'tug-of-war' tweezers stably trap and stretch a rod-shaped bacterium in the observing plane, but, more importantly, they can also impose a tunable lateral force that pulls apart cellular clusters without any tethering or mechanical movement...
2016: Light, Science & Applications
https://www.readbyqxmd.com/read/27795315/negative-regulation-of-ectoine-uptake-and-catabolism-in-sinorhizobium-meliloti-characterization-of-the-ehur-gene
#14
Qinli Yu, Hanlin Cai, Yanfeng Zhang, Yongzhi He, Lincai Chen, Justin Merritt, Shan Zhang, Zhiyang Dong
: Ectoine has osmoprotective effects on Sinorhizobium meliloti that differ from its effects in other bacteria. Ectoine does not accumulate in S. meliloti cells; instead, it is degraded. The products of the ehuABCD-eutABCDE operon were previously discovered to be responsible for the uptake and catabolism of ectoine in S. meliloti However, the mechanism by which ectoine is involved in the regulation of the ehuABCD-eutABCDE operon remains unclear. The ehuR gene, which is upstream of and oriented in the same direction as the ehuABCD-eutABCDE operon, encodes a member of the MocR/GntR family of transcriptional regulators...
January 1, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/27748981/sinorhizobium-meliloti-chemotaxis-to-quaternary-ammonium-compounds-is-mediated-by-the-chemoreceptor%C3%A2-mcpx
#15
Benjamin A Webb, K Karl Compton, Rafael Castañeda Saldaña, Timofey D Arapov, W Keith Ray, Richard F Helm, Birgit E Scharf
The bacterium Sinorhizobium meliloti is attracted to seed exudates of its host plant alfalfa (Medicago sativa). Since quaternary ammonium compounds (QACs) are exuded by germinating seeds, we assayed chemotaxis of S. meliloti towards betonicine, choline, glycine betaine, stachydrine and trigonelline. The wild type displayed a positive response to all QACs. Using LC-MS, we determined that each germinating alfalfa seed exuded QACs in the nanogram range. Compared to the closely related nonhost species, spotted medic (Medicago arabica), unique profiles were released...
October 17, 2016: Molecular Microbiology
https://www.readbyqxmd.com/read/27748755/a-proteomic-atlas-of-the-legume-medicago-truncatula-and-its-nitrogen-fixing-endosymbiont-sinorhizobium-meliloti
#16
Harald Marx, Catherine E Minogue, Dhileepkumar Jayaraman, Alicia L Richards, Nicholas W Kwiecien, Alireza F Sihapirani, Shanmugam Rajasekar, Junko Maeda, Kevin Garcia, Angel R Del Valle-Echevarria, Jeremy D Volkening, Michael S Westphall, Sushmita Roy, Michael R Sussman, Jean-Michel Ané, Joshua J Coon
Legumes are essential components of agricultural systems because they enrich the soil in nitrogen and require little environmentally deleterious fertilizers. A complex symbiotic association between legumes and nitrogen-fixing soil bacteria called rhizobia culminates in the development of root nodules, where rhizobia fix atmospheric nitrogen and transfer it to their plant host. Here we describe a quantitative proteomic atlas of the model legume Medicago truncatula and its rhizobial symbiont Sinorhizobium meliloti, which includes more than 23,000 proteins, 20,000 phosphorylation sites, and 700 lysine acetylation sites...
October 17, 2016: Nature Biotechnology
https://www.readbyqxmd.com/read/27739645/interkingdom-responses-to-bacterial-quorum-sensing-signals-regulate-frequency-and-rate-of-nodulation-in-legume-rhizobia-symbiosis
#17
Andrew G Palmer, Arijit Mukherjee, Danielle M Stacy, Stephen Lazar, Jean-Michel Ané, Helen E Blackwell
Density-dependent phenotypic switching in bacteria, the phenomenon of quorum sensing (QS), is instrumental in many pathogenic and mutualistic behaviors. In many Gram-negative bacteria, QS is regulated by N-acylated-l-homoserine lactones (AHLs). Synthetic analogues of these AHLs hold significant promise for regulating QS at the host-symbiont interface. Regulation depends on refined temporal and spatial models of quorums under native conditions. Critical to this is an understanding of how the presence of these signals may affect a prospective host...
October 14, 2016: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/27730127/functionality-of-in-vitro-reconstituted-group-ii-intron-rmint1-derived-ribonucleoprotein-particles
#18
Maria D Molina-Sánchez, Fernando M García-Rodríguez, Nicolás Toro
The functional unit of mobile group II introns is a ribonucleoprotein particle (RNP) consisting of the intron-encoded protein (IEP) and the excised intron RNA. The IEP has reverse transcriptase activity but also promotes RNA splicing, and the RNA-protein complex triggers site-specific DNA insertion by reverse splicing, in a process called retrohoming. In vitro reconstituted ribonucleoprotein complexes from the Lactococcus lactis group II intron Ll.LtrB, which produce a double strand break, have recently been studied as a means of developing group II intron-based gene targeting methods for higher organisms...
2016: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/27727485/a-putative-3-hydroxyisobutyryl-coa-hydrolase-is-required-for-efficient-symbiotic-nitrogen-fixation-in-sinorhizobium-meliloti-and-sinorhizobium-fredii-ngr234
#19
Maryam Zamani, George C diCenzo, Branislava Milunovic, Turlough M Finan
We report that the smb20752 gene of the alfalfa symbiont Sinorhizobium meliloti is a novel symbiotic gene required for full N2 -fixation. Deletion of smb20752 resulted in lower nitrogenase activity and smaller nodules without impacting overall nodule morphology. Orthologs of smb20752 were present in all alpha and beta rhizobia, including the ngr_b20860 gene of Sinorhizobium fredii NGR234. A ngr_b20860 mutant formed Fix(-) determinate nodules that developed normally to a late stage of the symbiosis on the host plants Macroptilium atropurpureum and Vigna unguiculata...
October 11, 2016: Environmental Microbiology
https://www.readbyqxmd.com/read/27712144/regulation-of-fixlj-by-hfq-controls-symbiotically-important-genes-in-sinorhizobium-meliloti
#20
Mengsheng Gao, Hahn Nguyen, Isai Salas González, Max Teplitski
The RNA-binding chaperone Hfq plays critical roles in the establishment and functionality of the symbiosis between Sinorhizobium meliloti and its legume hosts. A mutation in hfq reduces symbiotic efficiency resulting in a Fix(-) phenotype, characterized by the inability of the bacterium to fix nitrogen. At least in part, this is due to the ability of Hfq to regulate the fixLJ operon, which encodes a sensor kinase-response regulator pair that controls expression of the nitrogenase genes. The ability of Hfq to bind fixLJ in vitro and in planta was demonstrated with gel shift and coimmunoprecipitation experiments...
November 2016: Molecular Plant-microbe Interactions: MPMI
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