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Genomic selection of agronomic traits in hybrid rice using an NCII population

BackgroundHybrid breeding is an effective tool to improve yield in rice, while parental selection remains the key and difficult issue. Genomic selection (GS) provides opportunities to predict the performance of hybrids before phenotypes are measured. However, the application of GS is influenced by several genetic and statistical factors. Here, we used a rice North Carolina II (NC...

Combined bulked segregant sequencing and traditional linkage analysis for identification of candidate gene for purple leaf sheath in maize

reviewers for their comments which greatly helped to improve this manuscript. Author Contributions Data curation: Pengcheng Li, Cancan Du, Shuangyi Yin. Funding acquisition: Chenwu Xu, Zefeng Yang ... : Pengcheng Li, Cancan Du, Huimin Fang, Chenwu Xu, Zefeng Yang. Writing ± review & editing: Chenwu Xu, Zefeng Yang. 12 / 14 13 / 14 1. Chalker-Scott L ( 1999 ) Environmental Significance of Anthocyanins in

GNS4, a novel allele of DWARF11, regulates grain number and grain size in a high-yield rice variety

Background Rice plays an extremely important role in food safety because it feeds more than half of the world’s population. Rice grain yield depends on biomass and the harvest index. An important strategy to break through the rice grain yield ceiling is to increase the biological yield. Therefore, genes associated with organ size are important targets for rice breeding. Results...

Correction: Mapping Quantitative Trait Loci Associated with Toot Traits Using Sequencing-Based Genotyping Chromosome Segment Substitution Lines Derived from 9311 and Nipponbare in Rice (Oryza sativa L.)

sativa L.) Yong Zhou Guichun Dong Yajun Tao Chen Chen Bin Yang Yue Wu Zefeng Yang Guohua Liang Baohe Wang Yulong Wang OPEN ACCESS - GW BY GY RN 0.194* 0.003 0.137 0.138 0.194* 0.209* - 0.043 0.119

Mapping Quantitative Trait Loci Associated with Toot Traits Using Sequencing-Based Genotyping Chromosome Segment Substitution Lines Derived from 9311 and Nipponbare in Rice (Oryza sativa L.)

Identification of quantitative trait loci (QTLs) associated with rice root morphology provides useful information for avoiding drought stress and maintaining yield production under the irrigation condition. In this study, a set of chromosome segment substitution lines derived from 9311 as the recipient and Nipponbare as donor, were used to analysis root morphology. By combining...

Nucleotide Diversity of Maize ZmBT1 Gene and Association with Starch Physicochemical Properties

Cereal Brittle1 protein has been demonstrated to be involved in the ADP-Glc transport into endosperm plastids, and plays vital roles in the biosynthesis of starch. In this study, the genomic sequences of the ZmBT1 gene in 80 elite maize inbred lines were obtained, and the nucleotide polymorphisms and haplotype diversity were detected. A total of 30 variants, including 22 SNPs and...

Framework for dissection of complex cytonuclear epistasis by a two-dimensional genome scan

Epistasis between cytoplasmic and nuclear genes is the primary genetic component of complex quantitative traits. Genetic dissection of cytonuclear epistasis is fundamentally important to understand the genetic architecture of complex traits. In this study, a two-dimensional genome scan strategy was employed to evaluate the contribution of cytoplasm, quantitative trait loci (QTL...

Adaptive evolution and divergent expression of heat stress transcription factors in grasses

Background Heat stress transcription factors (Hsfs) regulate gene expression in response to heat and many other environmental stresses in plants. Understanding the adaptive evolution of Hsf genes in the grass family will provide potentially useful information for the genetic improvement of modern crops to handle increasing global temperatures. Results In this work, we performed a...

Evolution of land plant genes encoding L-Ala-D/L-Glu epimerases (AEEs) via horizontal gene transfer and positive selection

Background The L-Ala-D/L-Glu epimerases (AEEs), a subgroup of the enolase superfamily, catalyze the epimerization of L-Ala-D/L-Glu and other dipeptides in bacteria and contribute to the metabolism of the murein peptide of peptidoglycan. Although lacking in peptidoglycan, land plants possess AEE genes that show high similarity to those in bacteria. Results Similarity searches...

Nucleotide Polymorphisms and Haplotype Diversity of RTCS Gene in China Elite Maize Inbred Lines

The maize RTCS gene, encoding a LOB domain transcription factor, plays important roles in the initiation of embryonic seminal and postembryonic shoot-borne root. In this study, the genomic sequences of this gene in 73 China elite inbred lines, including 63 lines from 5 temperate heteroric groups and 10 tropic germplasms, were obtained, and the nucleotide polymorphisms and...

Evidence for acquisition of virulence effectors in pathogenic chytrids

Background The decline in amphibian populations across the world is frequently linked to the infection of the chytrid fungus Batrachochytrium dendrobatidis (Bd). This is particularly perplexing because Bd was only recently discovered in 1999 and no chytrid fungus had previously been identified as a vertebrate pathogen. Results In this study, we show that two large families of...

Algal Genes in the Closest Relatives of Animals

The spread of photosynthesis is one of the most important but controversial topics in eukaryotic evolution. Because of massive gene transfer from plastids to the nucleus and because of the possibility that plastids have been lost in evolution, algal genes in aplastidic organisms often are interpreted as footprints of photosynthetic ancestors. These putative plastid losses, in...

Mutation of the Light-Induced Yellow Leaf 1 Gene, Which Encodes a Geranylgeranyl Reductase, Affects Chlorophyll Biosynthesis and Light Sensitivity in Rice

Chlorophylls (Chls) are crucial for capturing light energy for photosynthesis. Although several genes responsible for Chl biosynthesis were characterized in rice (Oryza sativa), the genetic properties of the hydrogenating enzyme involved in the final step of Chl synthesis remain unknown. In this study, we characterized a rice light-induced yellow leaf 1-1 (lyl1-1) mutant that is...