So far in this course we have dealt entirely with the evolution of characters that are controlled by simple Mendelian inheritance at a single locus. There are notes on the course website about gametic disequilibrium and how allele frequencies change at two loci simultaneously, but we didn’t discuss them. In every example we’ve considered we’ve imagined that we could understand something about evolution by examining the evolution of a single gene. That’s the domain of classical population genetics. For the next few weeks we’re going to be exploring a field that’s actually older than classical population genetics, although the approach we’ll be taking to it involves the use of population genetic machinery. If you know a little about the history of evolutionary biology, you may know that after the rediscovery of Mendel’s work in 1900 there was a heated debate between the “biometricians” (e.g., Galton and Pearson) and the “Mendelians” (e.g., de Vries, Correns, Bateson, and Morgan). Biometricians asserted that the really important variation in evolution didn’t follow Mendelian rules. Height, weight, skin color, and similar traits seemed to

Human biochemical genetics

Soil salinity is an environmental and agricultural problem in many parts of the world. One of the keys to breeding barley for adaptation to salinity lies in a better understanding of the genetic control of stomatal regulation. We have employed a range of physiological (stomata assay, gas exchange, phylogenetic analysis, QTL analysis), and molecular techniques (RT-PCR and qPCR) to investigate stomatal behavior and genotypic variation in barley cultivars and a genetic population in four experimental trials. A set of relatively efficient and reliable methods were developed for the characterization of stomatal behavior of a large number of varieties and genetic lines. Furthermore, we found a large genetic variation of gas exchange and stomatal traits in barley in response to salinity stress. Salt-tolerant cultivar CM72 showed significantly larger stomatal aperture under 200 mM NaCl treatment than that of salt-sensitive cultivar Gairdner. Stomatal traits such as aperture width/length were found to significantly correlate with grain yield under salt treatment. Phenotypic characterization and QTL analysis of a segregating double haploid population of the CM72/Gairdner resulted in the identification of significant stomatal traits-related QTLs for salt tolerance. Moreover, expression analysis of the slow anion channel genes HvSLAH1 and HvSLAC1 demonstrated that their up-regulation is linked to higher barley grain yield in the field.

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Linking stomatal traits and expression of slow anion channel genes HvSLAH1 and HvSLAC1 with grain yield for increasing salinity tolerance in barley

Common bean (Phaseolus vulgaris L.) is the most important grain legume for human consumption and has a role in sustainable agriculture owing to its ability to fix atmospheric nitrogen. We assembled 473 Mb of the 587-Mb genome and genetically anchored 98% of this sequence in 11 chromosome-scale pseudomolecules. We compared the genome for the common bean against the soybean genome to find changes in soybean resulting from polyploidy. Using resequencing of 60 wild individuals and 100 landraces from the genetically differentiated Mesoamerican and Andean gene pools, we confirmed 2 independent domestications from genetic pools that diverged before human colonization. Less than 10% of the 74 Mb of sequence putatively involved in domestication was shared by the two domestication events. We identified a set of genes linked with increased leaf and seed size and combined these results with quantitative trait locus data from Mesoamerican cultivars. Genes affected by domestication may be useful for genomics-enabled crop improvement.

/pdf/a-reference-genome-for-common-bean-and-genome-wide-analysis-g1x7c0gfie.pdf

A reference genome for common bean and genome-wide analysis of dual domestications

Geneticists and breeders are positioned to breed plants with root traits that improve productivity under drought. However, a better understanding of root functional traits and how traits are related to whole plant strategies to increase crop productivity under different drought conditions is needed. Root traits associated with maintaining plant productivity under drought include small fine root diameters, long specific root length, and considerable root length density, especially at depths in soil with available water. In environments with late season water deficits, small xylem diameters in targeted seminal roots save soil water deep in the soil profile for use during crop maturation and result in improved yields. Capacity for deep root growth and large xylem diameters in deep roots may also improve root acquisition of water when ample water at depth is available. Xylem pit anatomy that makes xylem less "leaky" and prone to cavitation warrants further exploration holding promise that such traits may improve plant productivity in water-limited environments without negatively impacting yield under adequate water conditions. Rapid resumption of root growth following soil rewetting may improve plant productivity under episodic drought. Genetic control of many of these traits through breeding appears feasible. Several recent reviews have covered methods for screening root traits but an appreciation for the complexity of root systems (e.g., functional differences between fine and coarse roots) needs to be paired with these methods to successfully identify relevant traits for crop improvement. Screening of root traits at early stages in plant development can proxy traits at mature stages but verification is needed on a case by case basis that traits are linked to increased crop productivity under drought. Examples in lesquerella (Physaria) and rice (Oryza) show approaches to phenotyping of root traits and current understanding of root trait genetics for breeding.

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Root traits contributing to plant productivity under drought.

Recent advances in crop research have the potential to accelerate genetic gains in wheat, especially if co-ordinated with a breeding perspective. For example, improving photosynthesis by exploiting natural variation in Rubisco’s catalytic rate or adopting C4 metabolism could raise the baseline for yield potential by 50% or more. However, spike fertility must also be improved to permit full utilization of photosynthetic capacity throughout the crop life cycle and this has several components. While larger radiation use efficiency will increase the total assimilates available for spike growth, thereby increasing the potential for grain number, an optimized phenological pattern will permit the maximum partitioning of the available assimilates to the spikes. Evidence for underutilized photosynthetic capacity during grain filling in elite material suggests unnecessary floret abortion. Therefore, a better understanding of its physiological and genetic basis, including possible signalling in response to photoperiod or growth-limiting resources, may permit floret abortion to be minimized for a more optimal source:sink balance. However, trade-offs in terms of the partitioning of assimilates to competing sinks during spike growth, to improve root anchorage and stem strength, may be necessary to prevent yield losses as a result of lodging. Breeding technologies that can be used to complement conventional approaches include wide crossing with members of the Triticeae tribe to broaden the wheat genepool, and physiological and molecular breeding strategically to combine complementary traits and to identify elite progeny more efficiently.

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Raising yield potential in wheat

https://escholarship.org/content/qt3799r27v/qt3799r27v.pdf?t=qalg3h

Domestication and crop physiology: roots of green-revolution wheat.

Grain filling in wheat crops grown in semiarid regions may depend more on stored water-soluble carbohydrates (WSC) than on current photosynthesis. We evaluated the hypothesis that intemode WSC content, specific content (WSC content/internode length), and concentration (WSC content/internode weight) of genotypes affect accumulation and mobilization of stem WSC. Genotypic variation for internode WSC-related traits was measured on the main stem at 10-d intervals in 11 diverse wheats grown under well-watered and droughted field conditions across 2 yr. Relationships among internode WSC-related traits were determined. Date of harvest was the most important factor affecting internode WSC-related traits followed by genotype, irrigation, and year. Genotype × date of harvest was the most important interaction. Drought reduced WSC content, specific content, and concentration in different internodes, except WSC concentration in peduncles. Mobilized WSC from peduncle, penultimate, and lower internodes ranged from 70 to 244 mg, from 95 to 227 mg, and from 175 to 450 mg, respectively. The lower internodes provided 51% of the stem mobilized WSC. Mobilized WSC was higher in well-watered than in droughted conditions for penultimate (164 vs. 135 mg) and lower internodes (274 vs. 244 mg). Drought improved mobilization efficiency in the peduncle, penultimate, and lower internodes by 33, 17, and 11%, respectively. Postanthesis maximum WSC content was highly correlated (r = 0.89 to 0.99) with the amount of WSC mobilized in different internodes, and could be used as a selection criterion to stabilize grain yield under stressful environments.

Genotypic Variation for Stem Reserves and Mobilization in Wheat: II. Postanthesis Changes in Internode Water-Soluble Carbohydrates

Genotypic variation in linear rate of grain growth and contribution of stem reserves to grain yield in wheat

Wheat crops grown in dryland areas may depend more on stem reserves for grain filling than on current photosynthesis. We evaluated the hypothesis that internode length, weight, and specific weight of genotypes affect accumulation and mobilization of stem reserves. This knowledge might complement selection in stressful environments. Genotypic variation for internode characteristics and their effects on dry matter accumulation and mobilization were measured at 10-d intervals in 11 diverse wheat cultivars grown under well-watered and droughted field conditions across 2 yr. Relationships among internode characteristics and accumulation and mobilization of stem reserves were determined. The main effect of year, irrigation, genotype, and harvest date and genotype x harvest date interaction were significant. Internode length, weight, and specific weight were reduced under drought. Mobilized dry matter from peduncle, penultimate, and the lower internodes ranged from 43 to 171, 81 to 272, and from 198 to 474 mg, respectively. Mobilized dry matter was less in well-watered than in droughted conditions for peduncle (93 vs. 110 mg) but not for penultimate (173 vs. 143 mg) and the lower internodes (331 vs. 304 mg). Drought increased mobilization efficiency, expressed as percentage of maximum dry mater mobilized, in the peduncle, penultimate, and the lower internodes by 65, 11, and 5%, respectively. Stem maximum specific weight was correlated (r = 0.64) with stem mobilized dry matter. Balanced partitioning of stem length into upper and lower internodes and internode maximum specific weight are important in genotypic accumulation and mobilization of stem reserves in wheat.

B. Ehdaie

Papers

Domestication and crop physiology: roots of green-revolution wheat.

Genotypic Variation for Stem Reserves and Mobilization in Wheat: II. Postanthesis Changes in Internode Water-Soluble Carbohydrates

Genotypic variation in linear rate of grain growth and contribution of stem reserves to grain yield in wheat

Genotypic variation for stem reserves and mobilization in wheat. I. Postanthesis changes in internode dry matter

Sowing date and nitrogen rate effects on dry matter and nitrogen partitioning in bread and durum wheat