The genetic architecture of shoot and root trait divergence between upland and lowland ecotypes of a perennial grass

Khasanova, Albina; Lovell, John T.; Bonnette, Jason; Jenkins, Jerry; Yoshinaga, Yuko; Schmutz, Jeremy; Juenger, Thomas E.

doi:10.1101/301531

Cited by 2 publications

(3 citation statements)

References 67 publications

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“…In this study, we explored several facets of ecotype differentiating traits from a seed biology perspective. Our study reinforces a pattern that have been observed in multiple species, wherein genetic studies find that ecotype differentiating traits colocalize to common genomic regions (Latta and Gardner 2009;Lovell et al 2013;Lowry et al 2015;Khasanova et al 2019;Hall et al 2006;Lowry and Willis 2010b). In our study, only a handful of identified QTL had unique positions that did not colocalize with another QTL.…”

Section: Discussionsupporting

confidence: 91%

“…The final map consists of 722 markers in 9 chromosomes. A detailed description of the development of RIL population and the genetic map construction are discussed in Khasanova et al (2019).…”

Section: Plant Materials For Genetic Mappingmentioning

confidence: 99%

“…Interestingly, all five traits that Lowry et al (2015) mapped had additive effects in the same direction where thefilipes allele increased the trait values. Khasanova et al (2019) also mapped five traits to the same region. In that study, all traits also had additive effects in the same direction with thefilipes allele increasing trait values.…”

Section: The Genetics Of Ecotypic Divergencementioning

confidence: 99%

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Natural quantitative genetic variation in seed size, dormancy, and seedling vigor in upland and lowland ecotypes of a C4 perennial grass

Razzaque

Juenger

2020

Preprint

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Understanding the environmental drivers and the genetic architecture of traits involved in local adaptation is of fundamental interest as it may give insight to ecological speciation. Unfortunately, local adaptation studies rarely consider early life stages. As a result, we know surprisingly little about the genetic architecture and evolution of seed-based life history traits especially considering adaptation to xeric and mesic habitats. Here, we evaluate the genetic architecture of seed trait divergence in a recombinant inbred population derived from xeric and mesic ecotypes of Panicum hallii. We found the majority of seed related QTL had overlapping intervals, suggesting tight linkage and possibly pleiotropy are important in seed trait evolution. Our results suggest that the evolution of these traits is non-independent and may involve tradeoffs that affect the direction of divergence. Seed size and germination rate shared two colocalized QTL, each with antagonistic additive effects. This supports the hypothesis of a functional genetic trade-off between these two traits, resulting in either large seed/high dormancy or small seed/low dormancy trait combinations. We identified several candidate genes that may explain this trade-off. Overall, our study provides insights into the factors facilitating and potentially constraining ecotypic differentiation in plants through seed-based life history traits.

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Section: Discussionsupporting

confidence: 91%

Section: Plant Materials For Genetic Mappingmentioning

confidence: 99%

Section: The Genetics Of Ecotypic Divergencementioning

confidence: 99%

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Natural quantitative genetic variation in seed size, dormancy, and seedling vigor in upland and lowland ecotypes of a C4 perennial grass

Razzaque

Juenger

2020

Preprint

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The genomic landscape of molecular responses to natural drought stress in Panicum hallii

et al. 2018

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Environmental stress is a major driver of ecological community dynamics and agricultural productivity. This is especially true for soil water availability, because drought is the greatest abiotic inhibitor of worldwide crop yields. Here, we test the genetic basis of drought responses in the genetic model for C4 perennial grasses, Panicum hallii, through population genomics, field-scale gene-expression (eQTL) analysis, and comparison of two complete genomes. While gene expression networks are dominated by local cis-regulatory elements, we observe three genomic hotspots of unlinked trans-regulatory loci. These regulatory hubs are four times more drought responsive than the genome-wide average. Additionally, cis- and trans-regulatory networks are more likely to have opposing effects than expected under neutral evolution, supporting a strong influence of compensatory evolution and stabilizing selection. These results implicate trans-regulatory evolution as a driver of drought responses and demonstrate the potential for crop improvement in drought-prone regions through modification of gene regulatory networks.

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The genetic architecture of shoot and root trait divergence between upland and lowland ecotypes of a perennial grass

Cited by 2 publications

References 67 publications

Natural quantitative genetic variation in seed size, dormancy, and seedling vigor in upland and lowland ecotypes of a C4 perennial grass

Natural quantitative genetic variation in seed size, dormancy, and seedling vigor in upland and lowland ecotypes of a C4 perennial grass

The genomic landscape of molecular responses to natural drought stress in Panicum hallii

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