Characterizing changes in soybean spectral response curves with breeding advancements

Citation: Christenson, Brent S., William T. Schapaugh, Nan An, Kevin P. Price, and Allan K. Fritz. “Characterizing Changes in Soybean Spectral Response Curves with Breeding Advancements.” Crop Science 54, no. 4 (2014): 1585–97. https://doi.org/10.2135/cropsci2013.08.0575.Soybean (Glycine max (L.) Merr.) crop yield has steadily increased in the past 60 yr due in part to breeding advances. Relations between canopy spectral reflectance to specific plant functions may help characterize the impact of breeding on soybean cultivar development. The objectives of this study were to: 1) find specific regions of the soybean canopy spectral reflectance response curves that show genotypic differences; and 2) determine the effect of the breeding process on spectral reflectance response curves of soybean cultivars. Canopy spectral reflectance measurements were taken on 20 maturity group III (MGIII) and 20 maturity group IV (MGIV) soybean cultivars ranging in release year from 1923 to 2010 (arranged in a randomized complete block design) in 2011 and 2012 in Manhattan, KS. Large genotypic differences were found among cultivars, especially in the green (500 nm–600 nm), red (600 nm–700 nm), and red-edge (700nm–730 nm) portions of the spectra. Reflectance in the visible (VIS) (400–700 nm), red-edge (700–730 nm), and near-infrared (NIR) (730–1305) portions of the spectra varied with year of release (YOR) among cultivars. The more recently released cultivars tended to have lower reflectance values in the VIS and red-edge spectra portions and higher values in the NIR portion of the spectra than earlier-released cultivars. Results also indicate that spectral reflectance in the NIR portion of the spectra are highly confounded with maturity and other agronomic traits. These results indicate that breeding advancement has had an impact on canopy spectral reflectance curves and the VIS and red-edge portions of the spectra may be a source of variation for further cultivar development and advancement

Genome-wide association analysis on pre-harvest sprouting resistance and grain color in US winter wheat

Citation: Lin, M., Zhang, D. D., Liu, S. B., Zhang, G. R., Yu, J. M., Fritz, A. K., & Bai, G. H. (2016). Genome-wide association analysis on pre-harvest sprouting resistance and grain color in US winter wheat. Bmc Genomics, 17, 16. doi:10.1186/s12864-016-3148-6Background: Pre-harvest sprouting (PHS) in wheat can cause substantial reduction in grain yield and end-use quality. Grain color (GC) together with other components affect PHS resistance. Several quantitative trait loci (QTL) have been reported for PHS resistance, and two of them on chromosome 3AS (TaPHS1) and 4A have been cloned. Methods: To determine genetic architecture of PHS and GC and genetic relationships of the two traits, a genome-wide association study (GWAS) was conducted by evaluating a panel of 185 U.S. elite breeding lines and cultivars for sprouting rates of wheat spikes and GC in both greenhouse and field experiments. The panel was genotyped using the wheat 9K and 90K single nucleotide polymorphism (SNP) arrays. Results: Four QTL for GC on four chromosomes and 12 QTL for PHS resistance on 10 chromosomes were identified in at least two experiments. QTL for PHS resistance showed varied effects under different environments, and those on chromosomes 3AS, 3AL, 3B, 4AL and 7A were the more frequently identified QTL. The common QTL for GC and PHS resistance were identified on the long arms of the chromosome 3A and 3D. Conclusions: Wheat grain color is regulated by the three known genes on group 3 chromosomes and additional genes from other chromosomes. These grain color genes showed significant effects on PHS resistance in some environments. However, several other QTL that did not affect grain color also played a significant role on PHS resistance. Therefore, it is possible to breed PHS-resistant white wheat by pyramiding these non-color related QTL

APPLICATION OF THE DYA METHOD TO COMPARE WHEAT CULTIVAR YIELDS

At the 1998 conference, we proposed use of the DYA (differential yielding ability) method to compare the yielding ability of wheat cultivars. In this paper we review the method: its models and assumptions, and then show computation of sample statistics. An example will exhibit the output from performance trial yields when the method is applied in one of the nine ecogeographic areas of fall-planted wheat in the Midwest. Results of comparable outputs over years forecasted which cultivars would become popular with growers in Kansa

Weather, disease, and wheat breeding effects on Kansas wheat varietal yields, 1985 to 2011.

Wheat (Triticum aestivum L.) yields in Kansas have increased due to wheat breeding and improved agronomic practices, but are subject to climate and disease challenges. The objective of this research is to quantify the impact of weather, disease, and genetic improvement on wheat yields of varieties grown in 11 locations in Kansas from 1985 to 2011. Wheat variety yield data from Kansas performance tests were matched with comprehensive location-specific disease and weather data, including seasonal precipitation, monthly air temperature, air temperature and solar radiation around anthesis, and vapor pressure deficit (VPD). The results show that wheat breeding programs increased yield by 34 kg ha⁻¹ yr⁻¹. From 1985 through 2011, wheat breeding increased average wheat yields by 917 kg ha⁻¹, or 27% of total yield. Weather was found to have a large impact on wheat yields. Simulations demonstrated that a 1°C increase in projected mean temperature was associated with a decrease in wheat yields of 715 kg ha⁻¹, or 21%. Weather, diseases, and genetics all had significant impacts on wheat yields in 11 locations in Kansas during 1985 to 2011

The albedo of Earth

The fraction of the incoming solar energy scattered by Earth back to space is referred to as the planetary albedo. This reflected energy is a fundamental component of the Earth’s energy balance, and the processes that govern its magnitude, distribution, and variability shape Earth’s climate and climate change. We review our understanding of Earth’s albedo as it has progressed to the current time and provide a global perspective of our understanding of the processes that define it. Joint analyses of surface solar flux data that are a complicated mix of measurements and model calculations with top-of-atmosphere (TOA) flux measurements from current orbiting satellites yield a number of surprising results including (i) the Northern and Southern Hemispheres (NH, SH) reflect the same amount of sunlight within ~ 0.2Wm�2. This symmetry is achieved by increased reflection from SH clouds offsetting precisely the greater reflection from the NH land masses. (ii) The albedo of Earth appears to be highly buffered on hemispheric and global scales as highlighted by both the hemispheric symmetry and a remarkably small interannual variability of reflected solar flux (~0.2% of the annual mean flux). We show how clouds provide the necessary degrees of freedom to modulate the Earth’s albedo setting the hemispheric symmetry. We also show that current climate models lack this same degree of hemispheric symmetry and regulation by clouds. The relevance of this hemispheric symmetry to the heat transport across the equator is discussed

Genomic Selection for Processing and End-Use Quality Traits in the CIMMYT Spring Bread Wheat Breeding Program

Citation: Battenfield, S. D., Guzman, C., Gaynor, R. C., Singh, R. P., Pena, R. J., Dreisigacker, S., . . . Poland, J. A. (2016). Genomic Selection for Processing and End-Use Quality Traits in the CIMMYT Spring Bread Wheat Breeding Program. Plant Genome, 9(2), 12. doi:10.3835/plantgenome2016.01.0005Wheat (Triticum aestivum L.) cultivars must possess suitable end-use quality for release and consumer acceptability. However, breeding for quality traits is often considered a secondary target relative to yield largely because of amount of seed needed and expense. Without testing and selection, many undesirable materials are advanced, expending additional resources. Here, we develop and validate whole-genome prediction models for end-use quality phenotypes in the CIMMYT bread wheat breeding program. Model accuracy was tested using forward prediction on breeding lines (n = 5520) tested in unbalanced yield trials from 2009 to 2015 at Ciudad Obregon, Sonora, Mexico. Quality parameters included test weight, 1000-kernel weight, hardness, grain and flour protein, flour yield, sodium dodecyl sulfate sedimentation, Mixograph and Alveograph performance, and loaf volume. In general, prediction accuracy substantially increased over time as more data was available to train the model. Reflecting practical implementation of genomic selection (GS) in the breeding program, forward prediction accuracies (r) for quality parameters were assessed in 2015 and ranged from 0.32 (grain hardness) to 0.62 (mixing time). Increased selection intensity was possible with GS since more entries can be genotyped than phenotyped and expected genetic gain was 1.4 to 2.7 times higher across all traits than phenotypic selection. Given the limitations in measuring many lines for quality, we conclude that GS is a powerful tool to facilitate early generation selection for end-use quality in wheat, leaving larger populations for selection on yield during advanced testing and leading to better gain for both quality and yield in bread wheat breeding programs

Evaluation and Association Mapping of Resistance to Tan Spot and Stagonospora Nodorum Blotch in Adapted Winter Wheat Germplasm

Tan spot and Stagonospora nodorum blotch (SNB), often occurring together, are two economically significant diseases of wheat in the Northern Great Plains of the United States. They are caused by the fungi Pyrenophora tritici-repentis and Parastagonospora nodorum, respectively, both of which produce multiple necrotrophic effectors (NE) to cause disease. In this work, 120 hard red winter wheat (HRWW) cultivars or elite lines, mostly from the United States, were evaluated in the greenhouse for their reactions to the two diseases as well as NE produced by the two pathogens. One P. nodorum isolate (Sn4) and four Pyrenophora tritici-repentis isolates (Pti2, 331-9, DW5, and AR CrossB10) were used separately in the disease evaluations. NE sensitivity evaluation included ToxA, Ptr ToxB, SnTox1, and SnTox3. The numbers of lines that were rated highly resistant to individual isolates ranged from 11 (9%) to 30 (25%) but only six lines (5%) were highly resistant to all isolates, indicating limited sources of resistance to both diseases in the U.S. adapted HRWW germplasm. Sensitivity to ToxA was identified in 83 (69%) of the lines and significantly correlated with disease caused by Sn4 and Pti2, whereas sensitivity to other NE was present at much lower frequency and had no significant association with disease. As expected, association mapping located ToxA and SnTox3 sensitivity to chromosome arm 5BL and 5BS, respectively. A total of 24 potential quantitative trait loci was identified with −log (P value) \u3e 3.0 on 12 chromosomes, some of which are novel. This work provides valuable information and tools for HRWW production and breeding in the Northern Great Plains