A5064266194- Legume Nitrogen Fixing Symbiosis
- Plant nutrient uptake and metabolism
- Wheat and Barley Genetics and Pathology
- Plant and soil sciences
- Genomics and Phylogenetic Studies
- Plant Pathogenic Bacteria Studies
- Nematode management and characterization studies
- Genetics and Plant Breeding
- Plant Micronutrient Interactions and Effects
- Cassava research and cyanide
- Coastal wetland ecosystem dynamics
- Bacteriophages and microbial interactions
- Agronomic Practices and Intercropping Systems
- Chromosomal and Genetic Variations
- Microbial Metabolic Engineering and Bioproduction
- Plant Pathogens and Fungal Diseases
- Crop Yield and Soil Fertility
- Algal biology and biofuel production
- Amino Acid Enzymes and Metabolism
- Plant Pathogens and Resistance
- Agricultural and Food Production Studies
- Genomic variations and chromosomal abnormalities
- Photosynthetic Processes and Mechanisms
- Genetic Mapping and Diversity in Plants and Animals
- Banana Cultivation and Research
Lund University
2024
Universidad Nacional Autónoma de México
2008-2021
Instituto Nacional de Investigaciones Forestales Agrícolas y Pecuarias
2007-2020
Universidad Autónoma del Estado de Morelos
1987-2018
Autonomous University of Queretaro
2018
Sonora Institute of Technology
2005-2017
National Research Institute of Brewing
2016
Center for Genomic Science
2007-2011
University of Chicago
2006
Wilfrid Laurier University
2006
We report the complete 6,530,228-bp genome sequence of symbiotic nitrogen fixing bacterium Rhizobium etli . Six large plasmids comprise one-third total size. The chromosome encodes most functions necessary for cell growth, whereas few essential genes or metabolic pathways are located in plasmids. Chromosomal synteny is disrupted by related to insertion sequences, phages, plasmids, and cell-surface components. Plasmids do not show synteny, their orthologs mostly shared accessory replicons...
Rhizobium leguminosarum bv. phaseoli CFN42 contains six plasmids (pa to pf), and pd has been shown be the symbiotic plasmid. To determine participation of other in cellular functions, we used a positive selection scheme isolate derivatives cured each These were obtained for all except one (pe), which only deleted recovered. In regard symbiosis, found that addition pd, pb is also indispensable nodulation, partly owing presence genes involved lipopolysaccharide synthesis. The contribution pb,...
Several lines of evidence suggest that reiterated sequences in the human genome are targets for nonallelic homologous recombination (NAHR), which facilitates genomic rearrangements. We have used a PCR-based approach to identify breakpoint regions rearranged structures genome. In particular, we identified intrachromosomal identical repeats located reverse orientation, may lead chromosomal inversions. A bioinformatic workflow pathway select appropriate analysis was developed. Three such...
Abstract Genomic and pedigree predictions for grain yield agronomic traits were carried out using high density molecular data on a set of 803 spring wheat lines that evaluated in 5 sites characterized by several environmental co-variables. Seven statistical models tested two random cross-validations schemes. Two other prediction problems studied, namely predicting the lines’ performance at one site with another (pairwise-site) untested (leave-one-site-out). Grain ranged from 3.7 to 9.0 t ha...
Experience from different laboratories indicates that Rhizobium strains can generate variability in regard to some phenotypic characteristics such as colony morphology or symbiotic properties. On the other hand, several reports suggest under certain stress conditions genetic manipulations cells present genomic rearrangements. In search of frequent rearrangements, we analyzed three laboratory are not considered cause bacterial populations. DNAs direct descendants a single cell were...
The genetic structure of Bradyrhizobium isolates recovered from three Lupinus species (Lupinus campestris, montanus, and exaltatus) grown in Mexico was examined. Among 41 isolates, 18 electrophoretic types (ETs) were distinguished by multilocus enzyme electrophoresis five metabolic enzymes. mean diversity, 0.64, indicated that there great diversity the population sampled. Most (63%) fell into two closely related clusters (clusters I II) most frequently isolated root nodules L. montanus...
Fabaceae (legumes) is one of the largest families flowering plants, and some members are important crops. In contrast to what we know about their great diversity or economic importance, our knowledge at genomic level chloroplast genomes (cpDNAs plastomes) for these crops limited. We sequenced complete genome common bean (Phaseolus vulgari s cv. Negro Jamapa) chloroplast. The plastome P. vulgaris a 150,285 bp circular molecule. It has gene content similar that other legume plastomes, but...
Repeated DNA sequences are a general characteristic of eucaryotic genomes. Although several examples reiteration have been found in procaryotic organisms, only the case archaebacteria Halobacterium halobium and volcanii [C. Sapienza W. F. Doolittle, Nature (London) 295:384-389, 1982], has reported as common genomic feature. The genomes two Rhizobium phaseoli strains, one meliloti strain, Agrobacterium tumefaciens strain were analyzed for presence repetitive DNA. spp. closely related soil...
ABSTRACT In this work, we isolated and characterized 14 bacteriophages that infect Rhizobium etli . They were obtained from rhizosphere soil of bean plants agricultural lands in Mexico using an enrichment method. The host range these phages was narrow but variable within a collection 48 R. strains. We the complete genome sequence nine phages. Four resistant to several restriction enzymes vivo cloning, probably due nucleotide modifications. size sequenced varied 43 kb 115 kb, with median ∼45...
One remarkable characteristic of the genomes some Rhizobium species is frequent occurrence rearrangements. In instances these rearrangements alter symbiotic properties strains. However, no detailed molecular mechanisms have been proposed for generation To understand involved in formation genome phaseoli, we designed a system which allows positive selection amplification and deletion events. We applied this to investigate stability plasmid R. phaseoli. High-frequency events were detected...
The complete nucleotide sequence of the genome Sinorhizobium meliloti, symbiont alfalfa, was reported in 2001 by an international consortium laboratories. comprises a chromosome 3.65 megabases (Mb) and two megaplasmids, pSymA pSymB, 1.35 Mb 1.68 Mb, respectively. Based on whole genome, we designed pathway consecutive rearrangements leading to novel genomic architectures. In first step obtained derivative strains containing replicons; second strain genetic information one single replicon 6.68...
This work centres on the genomic comparisons of two closely-related nitrogen-fixing symbiotic bacteria, Rhizobium leguminosarum biovar viciae 3841 and etli CFN42. These strains maintain a stable core that is also common to other rhizobia species plus very variable significant accessory component. The chromosomes are highly syntenic, whereas plasmids related by fewer syntenic blocks have mosaic structures. pairs p42f-pRL12, p42e-pRL11 p42b-pRL9 as well large parts p42c with pRL10 shown be...
ABSTRACT Strains of the same bacterial species often show considerable genomic variation. To examine extent such variation in Rhizobium etli , complete genome sequence R. CIAT652 and partial sequences six additional strains having different geographical origins were determined. The compared with each other previously reported CFN42. DNA common to all constituted greater part these genomes localized both chromosome large plasmids. About 700 1,000 kb that did not match CFN42 was unique strain....
ABSTRACT Bacterial genomes are usually partitioned in several replicons, which dynamic structures prone to mutation and genomic rearrangements, thus contributing genome evolution. Nevertheless, much remains be learned about the origins dynamics of formation bacterial alternative states their possible biological consequences. To address these issues, we have studied architecture Rhizobium sp. strain NGR234 analyzed its significance. consists three replicons: symbiotic plasmid pNGR234 a...
Based on the DNA sequence of symbiotic plasmid Rhizobium strain NGR234, we predicted potential rearrangements generated by homologous recombination. All were identified experimentally using a PCR-based methodology. Thus, and actual dynamic maps replicon coincide. By an approach that does not involve introduction exogenous genetic elements, derivative populations are pure for specific obtained. We propose knowledge genome offers possibility designing pathways sequential leading to alternative...
The complete physical map of the symbiotic plasmid Rhizobium leguminosarum bv. phaseoli strain CFN42 was established. data support concept that genes are part a complex genomic structure which contains large amount reiterated DNA sequences. This is circular 390 kb with approximately 10 families internally sequences two to three elements each. One family includes directly oriented nitrogenase operons situated 120 apart. We also found several stretches pSym in other replicons cell....
The physiological role and transcriptional expression of Rhizobium etli sigma factors rpoH1 rpoH2 are reported in this work. Both were able to complement the temperature-sensitive phenotype an Escherichia coli rpoH mutant. R. mutant was sensitive heat shock, sodium hypochlorite hydrogen peroxide, whereas NaCl sucrose. double had increased sensitivity shock oxidative stress when compared with single This suggests that , RpoH1 is main heat-shock factor, but a more complete protective response...
Regulation of transcription is essential for any organism and Rhizobium etli (a multi-replicon, nitrogen-fixing symbiotic bacterium) no exception. This bacterium commonly found in the rhizosphere (free-living) or inside root-nodules common bean (Phaseolus vulgaris) a relationship. Abiotic stresses, such as high soil temperatures salinity, compromise genetic stability R. therefore its interaction with P. vulgaris. However, it still unclear which genes are up- down-regulated to cope these...
High-frequency genomic rearrangements affecting the plasmids of Rhizobium leguminosarum bv. phaseoli CFN42 were analyzed. This strain contains six large ranging in size from 200 to 600 kb. In absence any selective pressure, we found 11 strains 320 analyzed colonies that presented different kinds plasmid-borne rearrangements, including sequence amplification, deletion, cointegration, and loss plasmids. These data support concept R. genome is a dynamic structure imply are mixtures similar but...
Abstract Background Bean-nodulating Rhizobium etli originated in Mesoamerica, while soybean-nodulating Sinorhizobium fredii evolved East Asia. S. strains, such as GR64, have been isolated from bean nodules Spain, suggesting the occurrence of conjugative transfer events between introduced and native strains. In R. CFN42, symbiotic plasmid (pRet42d) requires cointegration with endogenous self-transmissible pRet42a. Aiming at further understanding generation diversity among nodulating we...
Summary: The replicator region of the symbiotic plasmid Rhizobium etli CFN42 was cloned and sequenced. A derivative (pH3) harbouring a 5.6 kb Hin dIII fragment from found to be capable independent replication eliminated when introduced into R. CFNX101 strain ( recA derivative). stability copy number pH3 were same as that plasmid, indicating information required for stable incompatibility resides in fragment. sequence analysis this showed presence three ORFs similar organization repA, repB...