Jeremy Pardo
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View article: Stress-responsive transcription factor families are key components of the core abiotic stress response in maize
Stress-responsive transcription factor families are key components of the core abiotic stress response in maize Open
Abiotic stresses, including drought, salt, heat, cold, flooding, and low nitrogen, are harmful to agriculture and increasing in frequency due to climate change. Plants can experience multiple stresses within a single season, which elicit s…
View article: Stress-responsive transcription factor families are key components of the core abiotic stress response in maize
Stress-responsive transcription factor families are key components of the core abiotic stress response in maize Open
Abiotic stresses, including drought, salt, heat, cold, flooding, and low nitrogen, have devastating impacts on agriculture and are increasing in frequency globally due to climate change. Plants can experience multiple abiotic stresses simu…
View article: Variability in drought gene expression datasets highlight the need for community standardization
Variability in drought gene expression datasets highlight the need for community standardization Open
Physiologically relevant drought stress is difficult to apply consistently, and the heterogeneity in experimental design, growth conditions, and sampling schemes make it challenging to compare water deficit studies in plants. Here, we re-a…
View article: Topological data analysis reveals a core gene expression backbone that defines form and function across flowering plants
Topological data analysis reveals a core gene expression backbone that defines form and function across flowering plants Open
Since they emerged approximately 125 million years ago, flowering plants have evolved to dominate the terrestrial landscape and survive in the most inhospitable environments on earth. At their core, these adaptations have been shaped by ch…
View article: Cross-species predictive modeling reveals conserved drought responses between maize and sorghum
Cross-species predictive modeling reveals conserved drought responses between maize and sorghum Open
Drought tolerance is a highly complex trait controlled by numerous interconnected pathways with substantial variation within and across plant species. This complexity makes it difficult to distill individual genetic loci underlying toleran…
View article: Core cellular and tissue‐specific mechanisms enable desiccation tolerance in <i>Craterostigma</i>
Core cellular and tissue‐specific mechanisms enable desiccation tolerance in <i>Craterostigma</i> Open
SUMMARY Resurrection plants can survive prolonged life without water (anhydrobiosis) in regions with seasonal drying. This desiccation tolerance requires the coordination of numerous cellular processes across space and time, and individual…
View article: Cross-species predictive modeling reveals conserved drought responses between maize and sorghum
Cross-species predictive modeling reveals conserved drought responses between maize and sorghum Open
Drought tolerance is a highly complex trait controlled by numerous interconnected pathways with substantial variation within and across plant species. This complexity makes it difficult to distill individual genetic loci underlying toleran…
View article: The topological shape of gene expression across the evolution of flowering plants
The topological shape of gene expression across the evolution of flowering plants Open
Since they emerged ~125 million years ago, flowering plants have evolved to dominate the terrestrial landscape and survive in the most inhospitable environments on earth. At their core, these adaptations have been shaped by changes in nume…
View article: The complex octoploid Craterostigma genome and tissue-specific mechanisms underlying desiccation tolerance
The complex octoploid Craterostigma genome and tissue-specific mechanisms underlying desiccation tolerance Open
Resurrection plants can survive prolonged anhydrobiosis, and desiccation tolerance has evolved recurrently across land plants as a common adaptation for survival in regions with seasonal drying. Craterostigma plantagineum was among the fir…
View article: A comparative genomics examination of desiccation tolerance and sensitivity in two sister grass species
A comparative genomics examination of desiccation tolerance and sensitivity in two sister grass species Open
Significance This is a significant sister group contrast comparative study of the underpinning genomics and evolution of desiccation tolerance (DT), a critical trait in the evolution of land plants. Our results revealed that the DT grass S…
View article: Evolutionary innovations driving abiotic stress tolerance in C4 grasses and cereals
Evolutionary innovations driving abiotic stress tolerance in C4 grasses and cereals Open
Grasslands dominate the terrestrial landscape, and grasses have evolved complex and elegant strategies to overcome abiotic stresses. The C4 grasses are particularly stress tolerant and thrive in tropical and dry temperate ecosystems. Growi…
View article: The triose phosphate utilization limitation of photosynthetic rate: Out of global models but important for leaf models
The triose phosphate utilization limitation of photosynthetic rate: Out of global models but important for leaf models Open
The effect of including triose phosphate utilization (TPU) on parameterization of the Farquhar, von Caemmerer, Berry model of photosynthetic gas exchange measurements is explored. Better fits to data are found even though TPU rarely limits…
View article: The triose phosphate utilization limitation of photosynthetic rate: out of global models but important for leaf models
The triose phosphate utilization limitation of photosynthetic rate: out of global models but important for leaf models Open
OpinionPlant Cell & EnvironmentThe triose phosphate utilization limitation of photosynthetic rate: out of global models but important for leaf modelsLuke M. Gregory1,2, Alan M. McClain1,3,4, David M. Kramer1,3, Jeremy D. Pardo2,4, Kaila E.…
View article: Intertwined signatures of desiccation and drought tolerance in grasses
Intertwined signatures of desiccation and drought tolerance in grasses Open
Grasses are among the most resilient plants, and some can survive prolonged desiccation in semiarid regions with seasonal rainfall. However, the genetic elements that distinguish grasses that are sensitive versus tolerant to extreme drying…
View article: Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff
Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff Open
View article: Transcriptome-Based Prediction of Complex Traits in Maize
Transcriptome-Based Prediction of Complex Traits in Maize Open
The ability to predict traits from genome-wide sequence information (i.e., genomic prediction) has improved our understanding of the genetic basis of complex traits and transformed breeding practices. Transcriptome data may also be useful …
View article: Intertwined signatures of desiccation and drought tolerance in grasses
Intertwined signatures of desiccation and drought tolerance in grasses Open
Grasses are among the most resilient plants and some can survive prolonged desiccation in semi-arid regions with seasonal rainfall. This vegetative desiccation tolerance has arisen independently multiple times within the grass family, but …
View article: Transcriptome-based prediction of complex traits in maize
Transcriptome-based prediction of complex traits in maize Open
The ability to predict traits from genome-wide sequence information (Genomic Prediction, GP), has improved our understanding of the genetic basis of complex traits and transformed breeding practices. Transcriptome data may also be useful f…
View article: Exceptional subgenome stability and functional divergence in allotetraploid teff, the primary cereal crop in Ethiopia
Exceptional subgenome stability and functional divergence in allotetraploid teff, the primary cereal crop in Ethiopia Open
Teff ( Eragrostis tef ) is a cornerstone of food security in the Horn of Africa, where it is prized for stress resilience, grain nutrition, and market value. Despite its overall importance to small-scale farmers and communities in Africa, …
View article: Massive Tandem Proliferation of ELIPs Supports Convergent Evolution of Desiccation Tolerance across Land Plants
Massive Tandem Proliferation of ELIPs Supports Convergent Evolution of Desiccation Tolerance across Land Plants Open
Desiccation tolerance was a critical adaptation for the colonization of land by early nonvascular plants. Resurrection plants have maintained or rewired these ancestral protective mechanisms, and desiccation-tolerant species are dispersed …
View article: A chromosome‐scale assembly of the model desiccation tolerant grass <i>Oropetium thomaeum</i>
A chromosome‐scale assembly of the model desiccation tolerant grass <i>Oropetium thomaeum</i> Open
Oropetium thomaeum is an emerging model for desiccation tolerance and genome size evolution in grasses. A draft genome of Oropetium was recently sequenced, but the lack of a chromosome‐scale assembly has hindered comparative analyses and d…
View article: Desiccation Tolerance Evolved through Gene Duplication and Network Rewiring in <i>Lindernia</i>
Desiccation Tolerance Evolved through Gene Duplication and Network Rewiring in <i>Lindernia</i> Open
Although several resurrection plant genomes have been sequenced, the lack of suitable dehydration-sensitive outgroups has limited genomic insights into the origin of desiccation tolerance. Here, we utilized a comparative system of closely …
View article: A chromosome scale assembly of the model desiccation tolerant grass <i>Oropetium thomaeum</i>
A chromosome scale assembly of the model desiccation tolerant grass <i>Oropetium thomaeum</i> Open
Oropetium thomaeum is an emerging model for desiccation tolerance and genome size evolution in grasses. A high-quality draft genome of Oropetium was recently sequenced, but the lack of a chromosome scale assembly has hindered comparative a…
View article: Extreme haplotype variation in the desiccation-tolerant clubmoss Selaginella lepidophylla
Extreme haplotype variation in the desiccation-tolerant clubmoss Selaginella lepidophylla Open