Adaptive evolution in the photosensory domain of phytochrome A in early angiosperms.

@article{Mathews2003AdaptiveEI,
  title={Adaptive evolution in the photosensory domain of phytochrome A in early angiosperms.},
  author={Sarah Mathews and John Gordon Burleigh and Michael J. Donoghue},
  journal={Molecular biology and evolution},
  year={2003},
  volume={20 7},
  pages={
          1087-97
        }
}
Flowering plant diversity now far exceeds the combined diversity of all other plant groups. Recently identified extant remnants of the earliest-diverging lines suggest that the first angiosperms may have lived in shady, disturbed, and moist understory habitats, and that the aquatic habit also arose early. This would have required the capacity to begin life in dimly lit environments. If so, evolution in light-sensing mechanisms may have been crucial to their success. The photoreceptor… 
View on PubMed
academic.oup.com
52 Citations
Highly Influential Citations
1
Background Citations
28
Methods Citations
3
Results Citations
2

Figures and Tables from this paper

52 Citations

Citation Type

Citation Type

Phylogenetic relationships of B-related phytochromes in the Brassicaceae: Redundancy and the persistence of phytochrome D.
Phytochrome evolution in green and nongreen plants.
  • S. Mathews
  • Biology, Environmental Science
    The Journal of heredity
  • 2005
TLDR
In parasitic plants, patterns of development that in autotrophs are under the control of light signals are highly modified, suggesting that phytochromes and other photoreceptors function differently in nonphotosynthetic plants.
Evolutionary Studies Illuminate the Structural-Functional Model of Plant Phytochromes[W]
A synthesis of insights from functional and evolutionary studies reveals how the phytochrome photoreceptor system has evolved to impart both stability and flexibility. Phytochromes in seed plants…
Molecular Evolution of Phytochromes in Cardamine nipponica (Brassicaceae) Suggests the Involvement of PHYE in Local Adaptation
TLDR
This work investigates sequence variations in four phytochrome genes of Cardamine nipponica, an endemic Japanese alpine plant, and finds that the involvement of PHYE in local adaptation indicates that local adaptation is involved in the evolution of PHYA in C. nIPPonica.
Tests of the Link between Functional Innovation and Positive Selection at Phytochrome A: The Phylogenetic Distribution of Far-Red High-Irradiance Responses in Seedling Development
TLDR
It is shown that dark-grown seedlings in most seed plants adopt an etiolated morphology and that being green in the dark is a derived condition in some conifers and gnetophytes, and that FR-HIR-induced seedling de-etiolation, mediated by phytochrome, is widely distributed in seed plants.
Adaptive Evolution in the GAF Domain of Phytochromes in Gymnosperms
TLDR
The results indicate that positive selection at a few sites has played a major role in the evolution of the gymnosperm GAF domain, and strong positive selective pressure tends to occur in the recent PHYP lineages of cogeneric species, but is absent in old lineages consisting of distantly related species.
Molecular evolution of the phytochrome gene family in sorghum: changing rates of synonymous and replacement evolution.
TLDR
A population genetic analysis of the PHY gene family in Sorghum bicolor Moench shows that the level of nucleotide variation in all gene family members is about half the average for this species, consistent with purifying selection acting on these loci, but the rate of amino acid substitution is accelerated at PHYC compared to the other two loci.
The ecophysiology of early angiosperms.
TLDR
How early angiosperms established a roothold in pre-existing Mesozoic plant communities, and how these events canalized subsequent bursts of angiosperm diversification during the Aptian-Albian are discussed.
Form, function and environments of the early angiosperms: merging extant phylogeny and ecophysiology with fossils.
TLDR
This work synthesizes the current understanding of early angiosperm ecology, focusing on patterns of functional ecology, by merging recent molecular phylogenetic studies and functional studies on extant 'basal angiosperms' with the picture of earlyAngiosperm evolution drawn by the fossil record.
Phytochrome‐mediated development in land plants: red light sensing evolves to meet the challenges of changing light environments
  • S. Mathews
  • Environmental Science, Biology
    Molecular ecology
  • 2006
TLDR
There is evidence that subfunctionalization proceeded by the partitioning among paralogues of photosensory specificity, physiological response modes, and light‐regulated gene expression and protein stability, and that parallel events of duplication and functional divergence may have coincided with the evolution of canopy shade and the increasing complexity of the light environment.
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 140 REFERENCES
Non‐angiosperm phytochromes and the evolution of vascular plants
TLDR
Phytochrome sequences suggest that mono- and dicotyledons became separated 150-200 million years earlier than indicated by the fossil record and that Ginkgo and Cycas have been separated unexpectedly late from the lineage giving rise to the Pinidae.
Phytochrome gene diversity
TLDR
These two areas of study, one directed at understanding in detail the phytochromes present in a single species and the other directed at a much broader understanding of PHY gene relatedness and distribution, are producing an increasingly clear picture of the diversity and evolution of plant red-light photoreceptors.
The Ancestral Ecology of Angiosperms: Emerging Perspectives from Extant Basal Lineages
TLDR
It is hypothesize that the earliest angiosperms were woody and grew in dimly lit, disturbed forest understory habitats and/or shady stream‐side settings, and the significance of the hypothesis that angiosperm evolved in shady, disturbed habitats for the origin of their distinctive features is discussed.
Ginkgo biloba retains functions of both type I and type II flowering plant phytochrome.
TLDR
It is concluded that Ginkgo contains a functional complement to both flowering plant type I and type II phytochromes, as well as independent blue light-sensing system(s), and the implications of these findings are discussed with respect to the evolution of higher plant photoreceptors.
The function of phytochrome A
TLDR
Phytochrome A affects growth and development throughout the whole life cycle of angiosperms, and is manifested during seed germination and seedling de-etiolation under dense canopies or extremely low light fluences, and during early neighbour detection, but other processes await experimental evaluation.
Multigene analyses identify the three earliest lineages of extant flowering plants
Ecological aspects of the Cretaceous flowering plant radiation
TLDR
Morphology of leaves, seeds, and wood is consistent with the status of most Cretaceous angiosperms as herbs to small trees with early successional strategy, and analyses of sedimentary environments indicate that angios perms not only originated in unstable habitats but remained centered there through most of theCretaceous.
The earliest angiosperms: evidence from mitochondrial, plastid and nuclear genomes
TLDR
This study demonstrates that Amboreella, Nymphaeales and Illiciales-Trimeniaceae-Austrobaileya represent the first stage of angiosperm evolution, with Amborella being sister to all other angiosperms, and shows that Gnetales are related to the conifers and are not sister to the angios perms, thus refuting the Anthophyte Hypothesis.
The phytochrome gene family in tomato and the rapid differential evolution of this family in angiosperms.
TLDR
Molecular phylogenetic analyses presented here, which utilize for the first time full-length PHY sequences from two completely characterized angiosperm gene families, indicate that tomato PHYF is probably an ortholog of Arabidopsis PHYC, and confirm that theAngiosperm PHY family is undergoing relatively rapid differential evolution.
The root of angiosperm phylogeny inferred from duplicate phytochrome genes.
TLDR
An analysis of duplicate phytochrome genes (PHYA and PHYC) is used to root the angiosperms, thereby avoiding the inclusion of highly diverged outgroup sequences, and unambiguously place the root near Amborella and resolve water lilies as early branches.
...
1
2
3
4
5
...