Demonstration of local adaptation in maize landraces by reciprocal transplantation

Janzen, Garrett M.; Aguilar-Rangel, M. Rocío; Cíntora‐Martínez, Carolina; Blöcher-Juárez, Karla; González‐Segovia, Eric; Studer, Anthony J.; Runcie, Daniel E.; Flint-García, Sherry; Rellán‐Álvarez, Rubén; Sawers, Ruairidh J. H.; Hufford, Matthew B.

doi:10.1111/eva.13372

Cited by 21 publications

(37 citation statements)

References 99 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…To distinguish between these two possibilities, we compared the variance of each phenotype across the population with the genetic variance of neutral markers using a Q ST - F ST comparison (45). We calculated Q ST – F ST using diversity array technology sequencing (DartSeq) genotypes (46) from the same plants phenotyped for glycerolipid levels and calculated the Q ST – F ST values for each glycerolipid species for highland/lowland populations from each continent. Mean Q ST was greater than mean F ST in both Mesoamerican and South American comparisons.…”

Section: Resultsmentioning

confidence: 99%

“…The diversity panels and mapping populations used in this manuscript for population genetics measures of selection, QTL mapping and G x E analysis have been described previously by (19), (15), (44), (41) and (50). Lipidomics analysis were performed with high resolution mass spectrometry UPLC-MS. Mutant alleles of HPC1 were obtained using CRISPR-CAS9 editing.…”

Section: Methodsmentioning

confidence: 99%

“…Single metabolites were then selected from each cluster, resulting in 20 minimally correlated traits figure:Sup:lipid c lusters.Quantitativetraitdifferentiation ( Q ST ) was contrasted to the distribution of F ST for neutral genetic markers (10). Genotypes were obtained previously from the same plants used for glycerolipid analysis (11). A Bayesian regression model (R package brms, (12)) was used to partition phenotypic variance between population pairs (Mesoamerican highland/Mesoamerican lowland, South American highland/South American lowland): …”

Section: Methodsmentioning

confidence: 99%

See 2 more Smart Citations

An adaptive teosintemexicanaintrogression modulates phosphatidylcholine levels and is associated with maize flowering time

Rodríguez-Zapata

Barnes

Blöcher-Juárez³

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

After domestication from lowland teosinte parviglumis (Zea mays ssp. parviglumis) in the warm Mexican southwest, maize (Zea mays ssp. mays) colonized the highlands of Mexico and South America. In the highlands, maize was exposed to lower temperatures that imposed strong selection on flowering time. Phospholipids are important metabolites in plant responses to low-temperature, low phosphorus availability and have also been suggested to influence flowering time. Here, we combined linkage mapping analysis with genome scans to identify High PhosphatidylCholine 1 (HPC1), a gene which encodes a phospholipase A1 enzyme, as a major driver of phospholipid variation in highland maize. Common garden experiments demonstrated strong genotype-by-environment interactions associated with variation at HPC1, with the highland HPC1 allele leading to higher fitness in highlands, possibly by hastening flowering. The HPC1 variant we identified in highland maize results in impaired function of the encoded protein due to a polymorphism in a highly conserved sequence. A meta-analysis indicated a strong association between the identity of the amino acid at this position and optimal growth in prokaryotes. Mutagenesis of HPC1 via genome editing validated its role in regulating phospholipid metabolism. Finally, we show that the highland HPC1 allele entered cultivated maize by introgression from the wild highland teosinte Zea mays ssp. mexicana and has been maintained in maize breeding lines from Northern US, Canada and Europe. Thus, HPC1 introgressed from teosinte mexicana underlies a large metabolic QTL that modulates phosphatidylcholine levels and has an adaptive effect at least in part via induction of early flowering time.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

An adaptive teosintemexicanaintrogression modulates phosphatidylcholine levels and is associated with maize flowering time

Rodríguez-Zapata

Barnes

Blöcher-Juárez³

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

“…Previous studies have demonstrated substantial differences in phenotype (Anderson and Cutler 1942;Eagles and Lothrop 1994;Janzen et al 2022) and gene expression (Kost et al 2017;Rocío Aguilar-Rangel et al 2017;Crow et al 2020) between highland and lowland maize. However, the genetic architecture of regulatory variants that control these phenotypic and expression traits is still unclear and cannot be directly determined either with analyses of sequence variation or differential gene expression analysis.…”

Section: Complex Process Of Maize High-elevation Adaptationmentioning

confidence: 99%

Allele-specific expression reveals multiple paths to highland adaptation in maize

Crow

Nojoomi

et al. 2022

Preprint

Self Cite

View full text Add to dashboard Cite

Maize is a staple food of smallholder farmers living in highland regions up to 4,000 meters above sea level worldwide. Mexican and South American highlands are two major highland maize growing regions, and population genetic data suggests the maize's adaptation to these regions occurred largely independently, providing a case study for parallel evolution. To better understand the mechanistic basis of highland adaptation, we crossed maize landraces from 108 highland and lowland sites of Mexico and South America with the inbred line B73 to produce F1 hybrids and grew them in both highland and lowland sites in Mexico. We identified thousands of genes with divergent expression between highland and lowland populations. Hundreds of these genes show patterns of convergent evolution between Mexico and South America. To dissect the genetic architecture of the divergent gene expression, we developed a novel allele-specific expression analysis pipeline to detect genes with divergent functional cis-regulatory variation between highland and lowland populations. We identified hundreds of genes with divergent cis-regulation between highland and lowland landrace alleles, with 20 in common between regions, further suggesting convergence in the genes underlying highland adaptation. Further analyses suggest multiple mechanisms contribute to this convergence. Our findings reveal a complex genetic architecture of cis-regulatory alleles underlying adaptation to highlands in maize. Although the vast majority of evolutionary changes associated with highland adaptation were region-specific, our findings highlight an important role for convergence at the gene expression and gene regulation levels as well.

show abstract

“…Considerable cytological diversity is found within the genus, and transposable element variation [39][40][41] and large inversions [42][43][44][45][46][47] have been documented as well. Moreover, common garden studies have demonstrated that phenotypic differentiation in both teosinte and maize landraces is the result of local adaptation 48,49 . Low density genotyping or pooled sequencing approaches in parviglumis and mexicana have identified a number of candidate loci related to soil, climate, and disease resistance, highlighting the importance of inversions 46,50,51 .…”

mentioning

confidence: 99%

Portrait of a genus: genome sequencing reveals evidence of adaptive variation inZea

Chen

Yan

2022

Preprint

Self Cite

View full text Add to dashboard Cite

Maize is a globally valuable commodity and one of the most extensively studied genetic model organisms. However, we know surprisingly little about the extent and potential utility of the genetic variation found in the wild relatives of maize. Here, we characterize a high-density genomic variation map from 744 genomes encompassing maize and all wild taxa of the genus Zea, identifying over 70 million single nucleotide polymorphisms (SNPs) and nearly 9 million Insertion/Deletion (InDel) polymorphisms. The variation map reveals evidence of selection within taxa displaying novel adaptations to traits such as waterlogging, perenniality and regrowth. We focus in detail on adaptive alleles in highland teosinte and temperate maize and highlight the key role of flowering time related pathways in highland and high latitude adaptation. To show how this data can identify useful genetic variants, we generated and characterized novel mutant alleles for two flowering time candidate genes. This work provides the most extensive sampling to date of the genetic diversity of the genus Zea, resolving questions on evolution and identifying adaptive variants for direct use in modern breeding.

show abstract

Demonstration of local adaptation in maize landraces by reciprocal transplantation

Cited by 21 publications

References 99 publications

An adaptive teosintemexicanaintrogression modulates phosphatidylcholine levels and is associated with maize flowering time

An adaptive teosintemexicanaintrogression modulates phosphatidylcholine levels and is associated with maize flowering time

Allele-specific expression reveals multiple paths to highland adaptation in maize

Portrait of a genus: genome sequencing reveals evidence of adaptive variation inZea

Contact Info

Product

Resources

About