John Doebley
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View article: Domestication reshaped the genetic basis of inbreeding depression in a maize landrace compared to its wild relative, teosinte
Domestication reshaped the genetic basis of inbreeding depression in a maize landrace compared to its wild relative, teosinte Open
Inbreeding depression is the reduction in fitness and vigor resulting from mating of close relatives observed in many plant and animal species. The extent to which the genetic load of mutations contributing to inbreeding depression is due …
View article: A conserved genetic architecture among populations of the maize progenitor, teosinte, was radically altered by domestication
A conserved genetic architecture among populations of the maize progenitor, teosinte, was radically altered by domestication Open
Significance We investigated the genetic architecture of maize domestication using a quantitative genetics approach. With multiple populations of teosinte and maize, we also compared the genetic architecture among populations within maize …
View article: Domestication Reshaped the Genetic Basis of Inbreeding Depression in a Maize Landrace Compared to its Wild Relative, Teosinte
Domestication Reshaped the Genetic Basis of Inbreeding Depression in a Maize Landrace Compared to its Wild Relative, Teosinte Open
Inbreeding depression is the reduction in fitness and vigor resulting from mating of close relatives observed in many plant and animal species. The extent to which the genetic load of mutations contributing to inbreeding depression is due …
View article: Evidence for Multiple Teosinte Hybrid Zones in Central Mexico
Evidence for Multiple Teosinte Hybrid Zones in Central Mexico Open
1 Summary Hybrid zones provide an excellent opportunity for studying population dynamics and whether hybrid genetic architectures are locally adaptive. The genus Zea contains many diverse wild taxa collectively called teosinte. Zea mays ss…
View article: A conserved genetic architecture among populations of the maize progenitor, teosinte, was radically altered by domestication
A conserved genetic architecture among populations of the maize progenitor, teosinte, was radically altered by domestication Open
The genotypes and phenotypes for teosinte and maize landrace populations are included.
View article: The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication Open
The genetics of domestication has been extensively studied ever since the rediscovery of Mendel's law of inheritance and much has been learned about the genetic control of trait differences between crops and their ancestors. Here, we ask h…
View article: TeoNAM: A Nested Association Mapping Population for Domestication and Agronomic Trait Analysis in Maize
TeoNAM: A Nested Association Mapping Population for Domestication and Agronomic Trait Analysis in Maize Open
Recombinant inbred lines (RILs) are an important resource for mapping genes controlling complex traits in many species. While RIL populations have been developed for maize, a maize RIL population with multiple teosinte inbred lines as pare…
View article: Hybrid Decay: A Transgenerational Epigenetic Decline in Vigor and Viability Triggered in Backcross Populations of Teosinte with Maize
Hybrid Decay: A Transgenerational Epigenetic Decline in Vigor and Viability Triggered in Backcross Populations of Teosinte with Maize Open
Xue et al. describe a phenomenon in maize and its nearest wild relative, teosinte, by which backcross progeny of a specific teosinte and maize exhibit a sickly whole-plant phenotype involving changes in morphology, vigor, and viability... …
View article: TeoNAM: a nested association mapping population for domestication and agronomic trait analysis in maize
TeoNAM: a nested association mapping population for domestication and agronomic trait analysis in maize Open
Recombinant inbred lines (RILs) are an important resource for mapping genes controlling complex traits in many species. While RIL populations have been developed for maize, a maize RIL population with multiple teosinte inbred lines as pare…
View article: The Genomics of Selfing in Maize (<i>Zea mays</i>ssp.<i>mays</i>): Catching Purging in the Act
The Genomics of Selfing in Maize (<i>Zea mays</i>ssp.<i>mays</i>): Catching Purging in the Act Open
In plants, self-fertilization is both an important reproductive strategy and a valuable genetic tool. In theory, selfing increases homozygosity at a rate of 0.50 per generation. Increased homozygosity can uncover recessive deleterious vari…
View article: Hybrid decay: a transgenerational epigenetic decline in vigor and viability triggered in backcross populations of teosinte with maize
Hybrid decay: a transgenerational epigenetic decline in vigor and viability triggered in backcross populations of teosinte with maize Open
In the course of generating populations of maize with teosinte chromosomal introgressions, an unusual sickly plant phenotype was noted in individuals from crosses with two teosinte accessions collected near Valle de Bravo, Mexico. The plan…
View article: The genetic architecture of teosinte catalyzed and constrained maize domestication
The genetic architecture of teosinte catalyzed and constrained maize domestication Open
The process of evolution under domestication has been studied using phylogenetics, population genetics–genomics, quantitative trait locus (QTL) mapping, gene expression assays, and archaeology. Here, we apply an evolutionary quantitative g…
View article: TeoNAM: A Nested Association Mapping Population for Domestication and Agronomic Trait Analysis in Maize
TeoNAM: A Nested Association Mapping Population for Domestication and Agronomic Trait Analysis in Maize Open
This is the raw phenotype of TeoNAM population.
View article: Genotype files for Palmar Chico teosinte and maize landrace populations.
Genotype files for Palmar Chico teosinte and maize landrace populations. Open
This fileset contains two genotype files used in the following manuscript:Yang CJ, et al. (2019) The evolutionary genetics of maize domestication: heritabilities, constraint and selection. Proc Natl Acad Sci USA. The genotype files are cod…
View article: The genetic architecture of teosinte catalyzed and constrained maize domestication
The genetic architecture of teosinte catalyzed and constrained maize domestication Open
This fileset contains two genotype files used in the following manuscript:Yang CJ, et al. (2019) The genetic architecture of teosinte catalyzed and constrained maize domestication. Proc Natl Acad Sci USA. The genotype files are coded in Ha…
View article: Hybrid Decay: A Transgenerational Epigenetic Decline in Vigor and Viability Triggered in Backcross Populations of Teosinte with Maize
Hybrid Decay: A Transgenerational Epigenetic Decline in Vigor and Viability Triggered in Backcross Populations of Teosinte with Maize Open
The genotype files are coded in Hapmap format, and can be read by TASSEL (https://www.maizegenetics.net/tassel) or any programs that recognize tab-delimited files (e.g. R). The "Hybrid_Decay_GBS_merge.hmp.txt" file contains 18 individuals …
View article: Construction of the third-generation <i>Zea mays</i> haplotype map
Construction of the third-generation <i>Zea mays</i> haplotype map Open
Background Characterization of genetic variations in maize has been challenging, mainly due to deterioration of collinearity between individual genomes in the species. An international consortium of maize research groups combined resources…
View article: <i>ZmCCT9</i> enhances maize adaptation to higher latitudes
<i>ZmCCT9</i> enhances maize adaptation to higher latitudes Open
Significance Flowering time is a critical determinant of crop adaptation to local environments. As a result of natural and artificial selection, maize has evolved a reduced photoperiod sensitivity to adapt to regions over 90° of latitude i…
View article: Defining the Role of the MADS-Box Gene, Zea Agamous-like1, a Target of Selection During Maize Domestication
Defining the Role of the MADS-Box Gene, Zea Agamous-like1, a Target of Selection During Maize Domestication Open
Genomic scans for genes that show the signature of past selection have been widely applied to a number of species and have identified a large number of selection candidate genes. In cultivated maize (Zea mays ssp. mays) selection scans hav…
View article: Selection During Maize Domestication Targeted a Gene Network Controlling Plant and Inflorescence Architecture
Selection During Maize Domestication Targeted a Gene Network Controlling Plant and Inflorescence Architecture Open
Selection during evolution, whether natural or artificial, is evidenced through the phenotype. For complex phenotypes like plant and inflorescence..... Selection during evolution, whether natural or artificial, acts through the phenotype. …
View article: A Gene for Genetic Background in <i>Zea mays</i> : Fine-Mapping <i>enhancer of teosinte branched1.2</i> to a YABBY Class Transcription Factor
A Gene for Genetic Background in <i>Zea mays</i> : Fine-Mapping <i>enhancer of teosinte branched1.2</i> to a YABBY Class Transcription Factor Open
The effects of an allelic substitution at a gene often depend critically on genetic background, i.e., the genotypes at other genes in the genome. During the domestication of maize from its wild ancestor (teosinte), an allelic substitution …
View article: Mapping Prolificacy QTL in Maize and Teosinte
Mapping Prolificacy QTL in Maize and Teosinte Open
Teosinte, the ancestor of maize, possesses multiple ears at each node along its main stalk, whereas maize has only a single ear at each node. With its greater ear number, teosinte is referred to as being more prolific. The grassy tillers 1…
View article: A gene for genetic background in<i>Zea mays</i>: fine-mapping<i>enhancer of teosinte branched1.2</i>(<i>etb1.2</i>) to a YABBY class transcription factor
A gene for genetic background in<i>Zea mays</i>: fine-mapping<i>enhancer of teosinte branched1.2</i>(<i>etb1.2</i>) to a YABBY class transcription factor Open
The effects of an allelic substitution at a gene often depend critically on genetic background, the genotype at other genes in the genome. During the domestication of maize from its wild ancestor (teosinte), an allelic substitution at teos…
View article: Fine Mapping of a QTL Associated with Kernel Row Number on Chromosome 1 of Maize
Fine Mapping of a QTL Associated with Kernel Row Number on Chromosome 1 of Maize Open
The genetic factors underlying changes in ear morphology, and particularly the inheritance of kernel row number (KRN), have been broadly investigated in diverse mapping populations in maize (Zea mays L.). In this study, we mapped a region …
View article: Construction of the third generation <i>Zea mays</i> haplotype map
Construction of the third generation <i>Zea mays</i> haplotype map Open
Background Characterization of genetic variations in maize has been challenging, mainly due to deterioration of collinearity between individual genomes in the species. An international consortium of maize research groups combined resources…
View article: Evidence That the Origin of Naked Kernels During Maize Domestication Was Caused by a Single Amino Acid Substitution in<i>tga1</i>
Evidence That the Origin of Naked Kernels During Maize Domestication Was Caused by a Single Amino Acid Substitution in<i>tga1</i> Open
teosinte glume architecture1 (tga1), a member of the SBP-box gene family of transcriptional regulators, has been identified as the gene conferring naked kernels in maize vs. encased kernels in its wild progenitor, teosinte. However, the id…