Barley Genomics: An Overview

Barley (Hordeum vulgare), first domesticated in the Near East, is a well-studied crop in terms of genetics, genomics, and breeding and qualifies as a model plant for Triticeae research. Recent advances made in barley genomics mainly include the following: (i) rapid accumulation of EST sequence data, (ii) growing number of studies on transcriptome, proteome, and metabolome, (iii) new modeling techniques, (iv) availability of genome-wide knockout collections as well as efficient transformation techniques, and (v) the recently started genome sequencing effort. These developments pave the way for a comprehensive functional analysis and understanding of gene expression networks linked to agronomically important traits. Here, we selectively review important technological developments in barley genomics and related fields and discuss the relevance for understanding genotype-phenotype relationships by using approaches such as genetical genomics and association studies. High-throughput genotyping platforms that have recently become available will allow the construction of high-density genetic maps that will further promote marker-assisted selection as well as physical map construction. Systems biology approaches will further enhance our knowledge and largely increase our abilities to design refined breeding strategies on the basis of detailed molecular physiological knowledge

Linkage mapping of putative regulator genes of barley grain development characterized by expression profiling

<p>Abstract</p> <p>Background</p> <p>Barley (<it>Hordeum vulgare </it>L.) seed development is a highly regulated process with fine-tuned interaction of various tissues controlling distinct physiological events during prestorage, storage and dessication phase. As potential regulators involved within this process we studied 172 transcription factors and 204 kinases for their expression behaviour and anchored a subset of them to the barley linkage map to promote marker-assisted studies on barley grains.</p> <p>Results</p> <p>By a hierachical clustering of the expression profiles of 376 potential regulatory genes expressed in 37 different tissues, we found 50 regulators preferentially expressed in one of the three grain tissue fractions pericarp, endosperm and embryo during seed development. In addition, 27 regulators found to be expressed during both seed development and germination and 32 additional regulators are characteristically expressed in multiple tissues undergoing cell differentiation events during barley plant ontogeny. Another 96 regulators were, beside in the developing seed, ubiquitously expressed among all tissues of germinating seedlings as well as in reproductive tissues. SNP-marker development for those regulators resulted in anchoring 61 markers on the genetic linkage map of barley and the chromosomal assignment of another 12 loci by using wheat-barley addition lines. The SNP frequency ranged from 0.5 to 1.0 SNP/kb in the parents of the various mapping populations and was 2.3 SNP/kb over all eight lines tested. Exploration of macrosynteny to rice revealed that the chromosomal orders of the mapped putative regulatory factors were predominantly conserved during evolution.</p> <p>Conclusion</p> <p>We identified expression patterns of major transcription factors and signaling related genes expressed during barley ontogeny and further assigned possible functions based on likely orthologs functionally well characterized in model plant species. The combined linkage map and reference expression map of regulators defined in the present study offers the possibility of further directed research of the functional role of regulators during seed development in barley.</p

Haplotyping, linkage mapping and expression analysis of barley genes regulated by terminal drought stress influencing seed quality

<p>Abstract</p> <p>Background</p> <p>The increasingly narrow genetic background characteristic of modern crop germplasm presents a challenge for the breeding of cultivars that require adaptation to the anticipated change in climate. Thus, high priority research aims at the identification of relevant allelic variation present both in the crop itself as well as in its progenitors. This study is based on the characterization of genetic variation in barley, with a view to enhancing its response to terminal drought stress.</p> <p>Results</p> <p>The expression patterns of drought regulated genes were monitored during plant ontogeny, mapped and the location of these genes was incorporated into a comprehensive barley SNP linkage map. Haplotypes within a set of 17 starch biosynthesis/degradation genes were defined, and a particularly high level of haplotype variation was uncovered in the genes encoding sucrose synthase (types I and II) and starch synthase. The ability of a panel of 50 barley accessions to maintain grain starch content under terminal drought conditions was explored.</p> <p>Conclusion</p> <p>The linkage/expression map is an informative resource in the context of characterizing the response of barley to drought stress. The high level of haplotype variation among starch biosynthesis/degradation genes in the progenitors of cultivated barley shows that domestication and breeding have greatly eroded their allelic diversity in current elite cultivars. Prospective association analysis based on core drought-regulated genes may simplify the process of identifying favourable alleles, and help to understand the genetic basis of the response to terminal drought.</p

Control of embryonic stem cells self-renewal and differentiation via coordinated splicing and translation of YY2

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Coastal Erosion of Permafrost Soils Along the Yukon Coastal Plain and Fluxes of Organic Carbon to the Canadian Beaufort Sea

Reducing uncertainties about carbon cycling is important in the Arctic where rapid environmental changes contribute to enhanced mobilization of carbon. Here we quantify soil organic carbon (SOC) contents of permafrost soils along the Yukon Coastal Plain and determine the annual fluxes from coastal erosion. Different terrain units were assessed based on surficial geology, morphology, and ground ice conditions. To account for the volume of wedge ice and massive ice in a unit, SOC contents were reduced by 19% and sediment contents by 16%. The SOC content in a 1 m² column of soil varied according to the height of the bluff, ranging from 30 to 662 kg, with a mean value of 183 kg. Forty‐four per cent of the SOC was within the top 1 m of soil and values varied based on surficial materials, ranging from 30 to 53 kg C/m³, with a mean of 41 kg. Eighty per cent of the shoreline was erosive with a mean annual rate of change of −0.7 m/yr. This resulted in a SOC flux per meter of shoreline of 132 kg C/m/yr, and a total flux for the entire 282 km of the Yukon coast of 35.5 × 10^6 kg C/yr (0.036 Tg C/yr). The mean flux of sediment per meter of shoreline was 5.3 × 103 kg/m/yr, with a total flux of 1,832 × 10^6 kg/yr (1.832 Tg/yr). Sedimentation rates indicate that approximately 13% of the eroded carbon was sequestered in nearshore sediments, where the overwhelming majority of organic carbon was of terrestrial origin

Das Institut Gatersleben 1943-1990. Eine außeruniversitäre Forschungseinrichtung zwischen Selbstbestimmung und politischer Lenkung

Der Autor schildert die politische Geschichte der Genetik und Kulturpflanzenforschung in Gatersleben von seinen Anfängen bis zur Wende. Ein im Frühjahr 1990 neu berufener Direktor ermöglichte einen fließenden und wissenschaftlich weitgehend verlustfreien Übergang. Damit war Gatersleben eine Ausnahme unter den wissenschaftlichen Instituten der Akademie der Wissenschaften der DDR. (HoF/Text übernommen