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Motivation Pangenomes provide novel insights for population and quantitative genetics, genomics and breeding not available from studying a single reference genome. Instead, a species is better represented by a pangenome or collection of genomes. Unfortunately, managing and using pangenomes for genomically diverse species is computationally and practically challenging. We developed a trellis graph representation anchored to the reference genome that represents most pangenomes well and can be used to impute complete genomes from low density sequence or variant data. Results The Practical Haplotype Graph (PHG) is a pangenome pipeline, database (PostGRES & SQLite), data model (Java, Kotlin or R) and Breeding API (BrAPI) web service. The PHG has already been able to accurately represent diversity in four major crops including maize, one of the most genomically diverse species, with up to 1000-fold data compression. Using simulated data, we show that, at even 0.1× coverage, with appropriate reads and sequence alignment, imputation results in extremely accurate haplotype reconstruction. The PHG is a platform and environment for the understanding and application of genomic diversity. Availability and implementation All resources listed here are freely available. The PHG Docker used to generate the simulation results is https://hub.docker.com/ as maizegenetics/phg:0.0.27. PHG source code is at https://bitbucket.org/bucklerlab/practicalhaplotypegraph/src/master/. The code used for the analysis of simulated data is at https://bitbucket.org/bucklerlab/phg-manuscript/src/master/. The PHG database of NAM parent haplotypes is in the CyVerse data store (https://de.cyverse.org/de/) and named/iplant/home/shared/panzea/panGenome/PHG_db_maize/phg_v5Assemblies_20200608.db. Supplementary information Supplementary data are available at Bioinformatics online.

Funded by the NSF CubeSat and NASA ELaNa programs, the Dynamic Ionosphere CubeSat Experiment (DICE) mission consists of two 1.5U CubeSats which were launched into an eccentric low Earth orbit on October 28, 2011. Each identical spacecraft carries two Langmuir probes to measure ionospheric in-situ plasma densities, electric field probes to measure in-situ DC and AC electric fields, and a science grade magnetometer to measure in-situ DC and AC magnetic fields. Given the tight integration of these multiple sensors with the CubeSat platforms, each of the DICE spacecraft is effectively a “sensor-sat” capable of comprehensive ionospheric diagnostics. The use of two identical sensor-sats at slightly different orbiting velocities in nearly identical orbits permits the de-convolution of spatial and temporal ambiguities in the observations of the ionosphere from a moving platform. In addition to demonstrating nanosat-based constellation science, the DICE mission is advancing a number of groundbreaking CubeSat technologies including miniaturized mechanisms and high-speed downlink communications.

Canopy temperatures of wheat, barley, rape and perennial rye grass crops, grown under temperate humid climatic conditions at different irrigation regimes were measured during two growing seasons, 1986 and 1987, by determining the emission of radiation in the wavelength interval 8

Membrane suspensions prepared from Micrococcus luteus (sodonensis) in both the exponential and stationary phases of growth contained a transglycosidase activity capable of synthesizing linear peptidoglycan. Exponential-phase membranes also contained an N-acetylmuramyl-L-alanine amidase activity which degraded the peptidoglycan as it was formed. The product of this amidase was purified and found to be free pentapeptide. The amidase was specific for peptidoglycan and could not attack lower-molecular-weight substrates even though the susceptible bond was present. Crude cell wall preparations isolated from exponential-phase cells also contained high levels of amidase. This cell wall-bound amidase would preferentially degrade in vitro-synthesized peptidoglycan over its own cell wall. Amidase activity could be solubilized from both cell walls and membranes by Triton X-100 treatment, butanol extraction, or LiCl extraction. Both membrane- and cell wall-derived amidases, solubilized by LiCl extraction, appeared to be of high molecular weight (greater than 150,000). Once solubilized, these wall- and membrane-derived amidases could attack the cross-bridged peptidoglycan of purified native cell walls, whereas bound amidases could not.

A defined medium capable of supporting growth and exocellular protease production by clinical isolates of Pseudomonas aeruginosa has been developed. Control of protease production is effected by a mixture of three amino acids and glucose.

Two enzyme activities involved in the biosynthesis of peptidoglycan in Micrococcus luteus (sodonensis), a transglycosidase and a phosphodiesterase, have been demonstrated in isolated membrane preparations. The transglycosidase activity promotes the in vitro synthesis of an uncross-bridged peptidoglycan that is completely susceptible to lysozyme. This in vitro-synthesized peptidoglycan consists of 76% "soluble" and 24% "insoluble" material. The soluble peptidoglycan is primarily a single low-molecular-weight species of approximately 20 disaccharide peptide units. "Insoluble" peptidoglycan, which likely represents newly synthesized material incorporated into an existing cell wall, was solubilized by butanol extraction, and the two were compared. The phosphodiesterase activity demonstrated in this system cleaves uridine diphosphate-N-acetylmuramyl-L-alanyl-D-isoglutamyl-L-lysyl-D-alanyl-D-alanine to yield N-acetylmuramyl-L-alanyl-D-isoglutamyl-L-lysyl-D-alanyl-D-alanine plus uridine 5'-monophosphate plus inorganic phosphate. This phosphodiesterase activity, not detected under normal transglycosidase assay conditions, is a recycling mechanism and acts indirectly through formation and subsequent cleavage of a lipid-linked intermediate.

A comprehensive soil-plant-atmosphere computer simulation model (SPAM) predicted up to a 45 percent increase in carbon dioxide uptake by a crop enriched with carbon dioxide at ground level. Enrichment rates of 225 and 450 kilograms of carbon dioxide per hectare per hour were used. Simulations covered a wide range of wind speed, crop height, and leaf area display.

The paper has discussed the development of treatment services for severely emotionally disturbed children by an outpatient Mental Health Clinic adopting an approach which may be illustrated by such modern key-words as ‘Community Psychiatry’, ‘Total approach’, ‘Therapy in Crisis’ and ‘Family Therapy’. Basically, the approach we used has included: 1. The setting up of a special educational program for the child in close collaboration with school authorities. The details of such a program will vary with local legislation. 2. A program of intensive psychiatric treatment or play therapy with the child and with the parents individually, and in groups. 3. A program of instruction or counselling the parents in how to meet the special needs and problems in caring for their ‘exceptional’ child. This counselling was conducted on a group basis. 4. The intelligent but aggressive use of all other resources within the community, which might be able and willing to structure themselves to meet the child's needs. We do not pretend that we have offered ideal therapy. We do want to suggest that the lack of facilities for treatment of this psychiatric category, which exists almost everywhere, gives us no excuse to despair or give up. We submit that it is possible to offer a very real help in these cases by the intelligent and aggressive use of all the resources existing within the Community. The nature of the available facilities will vary but almost everywhere there are resources which are able and willing to structure themselves to meet some of the child's needs, if encouraged to do so. The Community Psychiatric Clinic is in a unique position to encourage and develop this.