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111.
Large-scale deployment of a rice 6 K SNP array for genetics and breeding applications 总被引：1，自引：0，他引：1
Michael J. Thomson Namrata Singh Maria S. Dwiyanti Diane R. Wang Mark H. Wright Francisco Agosto Perez Genevieve DeClerck Joong Hyoun Chin Geraldine A. Malitic-Layaoen Venice Margarette Juanillas Christine J. Dilla-Ermita Ramil Mauleon Tobias Kretzschmar Susan R. McCouch 《Rice》2017,10(1):40
Background
Fixed arrays of single nucleotide polymorphism (SNP) markers have advantages over reduced representation sequencing in their ease of data analysis, consistently higher call rates, and rapid turnaround times. A 6 K SNP array represents a cost-benefit “sweet spot” for routine genetics and breeding applications in rice. Selection of informative SNPs across species and subpopulations during chip design is essential to obtain useful polymorphism rates for target germplasm groups. This paper summarizes results from large-scale deployment of an Illumina 6 K SNP array for rice.Results
Design of the Illumina Infinium 6 K SNP chip for rice, referred to as the Cornell_6K_Array_Infinium_Rice (C6AIR), includes 4429 SNPs from re-sequencing data and 1571 SNP markers from previous BeadXpress 384-SNP sets, selected based on polymorphism rate and allele frequency within and between target germplasm groups. Of the 6000 attempted bead types, 5274 passed Illumina’s production quality control. The C6AIR was widely deployed at the International Rice Research Institute (IRRI) for genetic diversity analysis, QTL mapping, and tracking introgressions and was intensively used at Cornell University for QTL analysis and developing libraries of interspecific chromosome segment substitution lines (CSSLs) between O. sativa and diverse accessions of O. rufipogon or O. meridionalis. Collectively, the array was used to genotype over 40,000 rice samples. A set of 4606 SNP markers was used to provide high quality data for O. sativa germplasm, while a slightly expanded set of 4940 SNPs was used for O. sativa X O. rufipogon populations. Biparental polymorphism rates were generally between 1900 and 2500 well-distributed SNP markers for indica x japonica or interspecific populations and between 1300 and 1500 markers for crosses within indica, while polymorphism rates were lower for pairwise crosses within U.S. tropical japonica germplasm. Recently, a second-generation array containing ~7000 SNP markers, referred to as the C7AIR, was designed by removing poor-performing SNPs from the C6AIR and adding markers selected to increase the utility of the array for elite tropical japonica material.Conclusions
The C6AIR has been successfully used to generate rapid and high-quality genotype data for diverse genetics and breeding applications in rice, and provides the basis for an optimized design in the C7AIR.112.
The Creative Economies of Texas Metropolitan Regions: A Comparative Analysis Before,During, and After the Recession 
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下载免费PDF全文 With the exception of Austin, metropolitan regions in Texas are not commonly included in research and analysis concerning creative economies—attention is largely focused on either the traditional capitals of creative production, New York and Los Angeles, or emerging, secondary regions such as Austin and Seattle, Washington. This article utilizes an industrial approach to examine the creative economies of the four most populous metropolitan regions of Texas—Austin, Dallas‐Ft. Worth, Houston, and San Antonio—and detail their scale, scope, and change between 2005 and 2015. Results help establish the creative economies of the Dallas‐Ft. Worth, Houston, and San Antonio metropolitan regions in the existing stream of creative research and discussion, offer further perspective on the dynamics and strength of the Austin region's creative economy, and provide insight into how regional creative economies emerge in rapidly urbanizing regions during the digital era. Additionally, special attention is paid to how these four creative economies transformed during the recessionary period from 2007 to 2009. Results of that attention build on prior research which points to the recession having a varied influence on creative economies depending on trends in the broader regional economies that house them. 相似文献
113.
Blair L. Waldron Michael D. Peel Steven R. Larson Ivan W. Mott J. Earl Creech 《Euphytica》2017,213(3):67
High fertilizer prices and improved environmental stewardship have increased interest in grass-legume mixed pastures. It has been hypothesized, but not validated, that the ecological combining ability between grasses and legumes can be improved by breeding specifically for mixture performance. This experiment examined the predicted efficiency of selection in a grass monoculture environment to indirectly improve tall fescue (Lolium arundinaceum (Schreb.) Darbysh.) forage mass in a grass-legume mixture. Heritability, genetic and rank correlations, and selection efficiencies were estimated for forage mass in a tall fescue half-sib population grown as spaced-plants overseeded with either turf-type tall fescue (monoculture) or alfalfa (mixture). Heritability for tall fescue forage mass in monoculture ranged from 0.32 to 0.70 and were always similar or greater than those in mixture (range 0.27–0.55) for four successive harvests and annual total. Genetic correlations between monoculture and mixture tall fescue forage mass varied with values of 0.48, 0.92, ?0.31, 0.70, and 0.25 in June, July, August, October, and annual total, respectively. Indirect selection efficiencies exceeded or approached direct selection for mixtures only in July and October (1.29, and 0.73, respectively). Whereas, indirect selection efficiencies were low in June, August, and annual forage mass (0.58, ?0.31, and 0.28, respectively). Moreover, low Spearman’s rank correlations (?0.03 to 0.35) indicated differing half-sib family performance between the monoculture and mixture environments. Results indicate that direct selection should be used to improve tall fescue forage mass in a grass-legume mixture, and support the hypothesis of increasing ecological combining ability by breeding for mixtures per se. 相似文献
114.
Context
Regime shifts are well known for driving penetrating ecological change, yet we do not recognise the consequences of these shifts much beyond species diversity and productivity. Sound represents a multidimensional space that carries decision-making information needed for some dispersing species to locate resources and evaluate their quantity and quality.Objectives
Here we assessed the effect of regime shifts on marine soundscapes, which we propose has the potential function of strengthening the positive or negative feedbacks that mediate ecosystem shifts.Methods
We tested whether biologically relevant cues are altered by regime shifts in kelp forests and seagrass systems and how specific such shifted soundscapes are to the type of driver; i.e. local pollution (eutrophication) vs. global change (ocean acidification).Results
Here, we not only provide the first evidence for regime-shifted soundscapes, but also reveal that the modified cues of shifted ecosystems are similar regardless of spatial scale and type of environmental driver. Importantly, biological sounds can act as functional cues for orientation by dispersing larvae, and observed shifts in soundscape loudness may alter this function.Conclusions
These results open the question as to whether shifted soundscapes provide a functional role in mediating the positive or negative feedbacks that govern the arrival of species associated with driving change or stasis in ecosystem state.115.
Penta Pristijono Konstantinos Papoutsis Christopher J. Scarlett Michael C. Bowyer Quan V. Vuong Costas E. Stathopoulos 《The Journal of Horticultural Science and Biotechnology》2017,92(5):521-529
Mature green tomatoes (Solanum lycopersicum L. cv Neang Pich) were exposed to 13.6 kJ m?2 UV-C or 0.5 μL L?1 1-MCP or combination of 13.6 kJ m?2 UV-C and 0.5 μL L?1 1-MCP, with appropriate untreated controls. After treatment, tomatoes were stored in air containing 0.1 μL L?1 ethylene at 20°C and 100% RH. The untreated fruit ripened significantly faster than those of all other treatments. UV-C treatment alone was able to delay fruit ripening by up to 5 days longer compared to untreated fruits whilst the additional of 1-MCP further delayed fruit ripening. UV-C and 1-MCP treatments alone or in combination had significantly slower ethylene production rates throughout the storage period. The fruit treated with the combination of 1-MCP and UV-C was significantly firmer and had higher total phenolic content compared to that of the other treatments. However, there was no difference between treatments in soluble solids content/titratable acids ratio, chlorophyll content, lycopene content and total antioxidant activity. These results show that UV-C and 1-MCP treatment delay ripening and improve the quality of tomatoes in the presence of low-level ethylene during storage. This new treatment could be used to extend the shelf-life of mature green tomatoes through the supply chain without the use of refrigeration. 相似文献
116.
Intra‐household constraints on educational attainment in rural households in Papua New Guinea 下载免费PDF全文
下载免费PDF全文 Sean Ryan Gina Koczberski George Nicolas Curry Emmanuel Germis 《Asia Pacific viewpoint》2017,58(1):27-40
This paper examines intra‐household and socio‐cultural factors leading to differential outcomes in educational attainment by gender and birth order amongst smallholder oil palm households in Papua New Guinea. Not all children share equitably in the household resources allocated to education: females have lower average education levels than males, and high birth order children have higher education attainment than lower birth order siblings, indicating preferential parental investment in sons and early born children. The findings demonstrate that despite households having regular access to relatively high incomes from oil palm and residing in close proximity to schools, primary school net enrolment rates remain significantly lower than those for East Asia and the Pacific region, and the millennium development goal of universal primary education has not been met. This finding is likely to be the result of a combination of intra‐household factors including gender power imbalances, low parental education levels, the agency of youth in educational decision‐making and the weakening attraction of education as a means of improving income‐earning potential. 相似文献
117.
118.
Waseem Akbar Anilkumar Gowda Jeffrey E Ahrens Jason W Stelzer Robert S Brown Scott L Bollman John T Greenplate Jeffrey Gore Angus L Catchot Gus Lorenz Scott D Stewart David L Kerns Jeremy K Greene Michael D Toews David A Herbert Dominic D Reisig Gregory A Sword Peter C Ellsworth Larry D Godfrey Thomas L Clark 《Pest management science》2019,75(3):867-877
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