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Superior inbred lines are central to maize breeding as sources of natural variation. Although many elite lines have been sequenced, less sequencing attention has been paid to newly developed lines. We constructed a genome assembly of the elite inbred line KA105, which has recently been developed by an artificial breeding population named Shaan A and has shown desirable characteristics for breeding. Its pedigree showed genetic divergence from B73 and other lines in its pedigree. Comparison with the B73 reference genome revealed extensive structural variation, 58 presence/absence variation (PAV) genes, and 1023 expanded gene families, some of which may be associated with disease resistance. A network-based integrative analysis of stress-induced transcriptomes identified 13 KA105-specific PAV genes, of which eight were induced by at least one kind of stress, participating in gene modules responding to stress such as drought and southern leaf blight disease. More than 200,000 gene pairs were differentially correlated between KA105 and B73 during kernel development. The KA105 reference genome and transcriptome atlas are a resource for further germplasm improvement and surveys of maize genomic variation and gene function. [ABSTRACT FROM AUTHOR]

Acid soils occupy approximately 50% of potentially arable lands. Improving crop productivity in acid soils, therefore, will be crucial for ensuring food security and agricultural sustainability. High soil acidity often coexists with phosphorus (P) deficiency and aluminum (Al) toxicity, a combination that severely impedes crop growth and yield across wide areas. As roots explore soil for the nutrients and water required for plant growth and development, they also sense and respond to below-ground stresses. Within the terrestrial context of widespread P deficiency and Al toxicity pressures, plants, particularly roots, have evolved a variety of mechanisms for adapting to these stresses. As legumes, soybean (Glycine max) plants may acquire nitrogen (N) through symbiotic nitrogen fixation (SNF), an adaptation that can be useful for mitigating excessive N fertilizer use, either directly as leguminous crop participants in rotation and intercropping systems, or secondarily as green manure cover crops. In this review, we investigate legumes, especially soybean, for recent advances in our understanding of root-based mechanisms linked with root architecture modification, exudation and symbiosis, together with associated genetic and molecular strategies in adaptation to individual and/or interacting P and Al conditions in acid soils. We propose that breeding legume cultivars with superior nutrient efficiency and/or Al tolerance traits through genetic selection might become a potentially powerful strategy for producing crop varieties capable of maintaining or improving yields in more stressful soil conditions subjected to increasingly challenging environmental conditions. [ABSTRACT FROM AUTHOR]