A modification of bulked segregant analysis was used to raise the density of markers in a 34.5 cM region between Ugp2 and Ugp1, on chromosome 3 of the Harrington x TR306 barley Hordeum vulgare L.) cross. A computer program was used to select pools contrasting for parental alleles at the target site. Of 257 RAPD primers tested on DNA pools, one, UBC 508, detected a polymorphic DNA fragment (UBC508(C)). It mapped 10.2 cM distal to Ugp2. Two additional DNA polymorphisms, (UBC508(A) and UBC508(B)), mapped on chromosome 2. An additional marker, BCD 1796B, mapped 4.9 cM proximal to Ugp1. Both strands of the UBC508(C) fragment were sequenced. They were 588 bp long and had some homology to a region of the DNA that regulates transcription of the H. vulgare pazx gene encoding protein Zx. The effect of adding new marker(s) on the QTL analysis of agronomic and quality traits of barley, was investigated. For extract beta-glucan, a new peak was identified in the analysis when only UBC508(C) or when both UBC508(C) and BCD1796B were added. For fine-coarse difference a QTL x E interaction peak was detected when only BCD 1796B was added or when both UBC508(C) and BCD 1796B were added.

Two studies were conducted on gene mapping analysis. For the first study, genetic simulation experiments were conducted to address the effects of marker density, method of mapping analysis, and gaps in a marker map on the efficiency of QTL detection and the accuracy of QTL parameter estimation. The simulated genome consisted of seven chromosomes with seven or eight segregating QTL affecting the simulated quantitative trait. A set of six randomly segregating QTL outside the test region was consistently used to represent 40% of phenotypic variation. An individual QTL or a linkage block of two QTL on a target chromosome contributed 10% of phenotypic variation. The marker map was either dense (with markers every 4 cM) or sparse (with markers every 20 cM). The gap in the marker map was either 32 cM or 56 cM. Interval mapping and composite interval mapping were used to map QTL on the target chromosome. A dense map provided more power of QTL detection, better accuracy of QTL parameter estimation, and higher false-positive error rates for the target chromosome than a sparse map. Composite interval mapping provided more power of QTL detection, better accuracy of QTL parameter estimation, and lower false-positive error rates than interval mapping. Presence of a large gap in a marker map affected QTL detection and QTL parameter estimation for a QTL inside or near the gap. The use of a dense map with composite interval mapping was the most efficient combination tested in this study. For the second study, a mixed factorial regression model for interval mapping was developed for conducting QTL-by-environment interaction analysis and for providing inferences about QTL that are applicable beyond the environments used in the experiments. Genetic simulation was used to test the model for the power of detecting QTL-by-environment interaction and identifying the types of such interaction as crossover or non-crossover, and for the accuracy of estimating QTL parameters. The model prov

Thesis (Ph.D.)-- University of Adelaide, Dept. of Plant Science, 2001. / Includes bibliographical references (leaves 192-211).

Thesis (Ph. D.)--Illinois State University, 1996. / Title from title page screen, viewed May 31, 2006. Dissertation Committee: David F. Weber (chair), Alan J. Katz, Marjorie A. Jones, Radheshyam K. Jayaswal, Jefferey A. Dole. Includes bibliographical references (leaves 96-108) and abstract. Also available in print.

M.Sc. (Biochemistry) / A 14-member, closely-spaced cluster of genes coding for leucine-rich repeat receptor-like kinases (LRR-RLKs) is located on chromosome 1 of Arabidopsis thaliana. Following on from previous microarray studies that found some of the members of this cluster to be upregulated in response to biotic stressors, including the bacterial elicitor flg22, the present study sought to confirm, using a luciferase-based protoplast assay, that flg22 does in fact induce the expression of the genes, and then to investigate the promoters of the genes. The promoters of At1g51790, At1g51850 and At1g51890 responded positively in this particular assay, and bioinformatic analyses determined that W-boxes are over-represented in the cloned regions. Mutational inactivation of individual W-boxes in the promoter of At1g51790 drastically reduced the flg22 response, except for the W-box closest to the start site, which seemed to increase both basal and flg22-inducible expression. In the promoter of At1g51850, mutational inactivation of either or both of its W-box dyads resulted in virtually no flg22 inducibility. The deletion of 6 W-boxes in the promoter of At1g51890, done via truncation, drastically reduced both its basal expression and its inducible response to flg22. These results provide evidence that W-box cis-elements are responsible for the upregulation of these LRR-RLKs in response to flg22. WRKYs -7, -11, -22,and -26 were found bioinformatically to have similar expression patterns to some of the genes in the cluster, and are thus good candidates to investigate as transcriptional regulators of the cluster in future studies.

No description available.

No description available.

Nurse plant and object facilitation is an important factor mitigating abiotic stress, improving seedling recruitment, and shaping the fine-scale spatial patterns of many plant communities. I investigate the role of facilitation on lodgepole pine regeneration following blowdown in central Oregon. My objective is to examine the importance of nurse objects on seedling recruitment under varying stand conditions. I base my analysis on 1) the mapped locations and attributes of seedlings, saplings, trees, shrubs, snags, stumps, and sound and decomposed logs in each of five, 500 m2 circular plots, 2) water holding capacity estimates of woody and leafy litter and pumice soil, and 3) growing-season air temperatures. My analysis identifies seedling patterns at multiple spatial scales (~0-8 m) using nearest neighbor and Ripley’s K statistics and identifies differences in canopy structure, seedling development, and temperature using non-parametric rank-sum tests. My results show blowdown severity varies with pre-disturbance stand structure, resulting in a multi-modal stand structure with a wide range of canopy and seedling microhabitat conditions. Stand-wide, post-blowdown regeneration patterns reveal >80% of seedlings grow near nurse shrubs, logs, and woody litter, suggesting preferential germination and survival in these microhabitats. High seedling densities correspond with median shrub diameters, and up to 38% of seedlings grow near recently downed logs, indicating both shrubs and logs serve as important nurse objects. The role of nurse objects in mitigating moisture stress is implicated by the potentially high evaporative stress under extreme growing season temperatures in areas of severe blowdown and by the high moisture-holding capacity of woody litter relative to the pumice soil. Stand-wide, 91% of all seedlings and 87% of all shrubs grow on woody litter, and seedlings growing on woody litter show the greatest development. The positive spatial correlation of seedlings and shrubs with nurse plants and woody litter supports the assertion that both are important facilitators for seedling regeneration and emerging spatial patterns of stand recovery. These results have important management implications, suggesting that the removal of nurse plants and objects through salvage logging or prescribed burning may have negative long-term impacts on local and regional forest regeneration.

No description available.

Abstract not available