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Article
Open AccessPlastid phylogenomics uncovers multiple species in Medicago truncatula (Fabaceae) germplasm accessions
Medicago truncatula is a model legume that has been extensively investigated in diverse subdisciplines of plant science. Medicago littoralis can interbreed with M. truncatula and M. italica; these three closely r...
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Article
Genotype-specific patterns of physiological and antioxidative responses in barley under salinity stress
Using reliable salt tolerance markers is a key component in barley breeding programs. In this study, physiological and antioxidative markers of two Tunisian barley salinity tolerance contrasting genotypes Boul...
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Article
Open AccessThe evolutionary fate of rpl32 and rps16 losses in the Euphorbia schimperi (Euphorbiaceae) plastome
Gene transfers from mitochondria and plastids to the nucleus are an important process in the evolution of the eukaryotic cell. Plastid (pt) gene losses have been documented in multiple angiosperm lineages and ...
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Protocol
Plastid Genomes of Flowering Plants: Essential Principles
The plastid genome (plastome ) has proved a valuable source of data for evaluating evolutionary relationships among . Through basic and applied approaches, technology offers the potential to understand and...
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Article
Open AccessNucleotide substitution rates of diatom plastid encoded protein genes are positively correlated with genome architecture
Diatoms are the largest group of heterokont algae with more than 100,000 species. As one of the single-celled photosynthetic organisms that inhabit marine, aquatic and terrestrial ecosystems, diatoms contribut...
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Article
Open AccessFluctuations in Fabaceae mitochondrial genome size and content are both ancient and recent
Organelle genome studies of Fabaceae, an economically and ecologically important plant family, have been biased towards the plastid genome (plastome). Thus far, less than 15 mitochondrial genome (mitogenome) s...
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Article
Open AccessTranscriptomic and metabolic responses of Calotropis procera to salt and drought stress
Calotropis procera is a wild plant species in the family Apocynaceae that is able to grow in harsh, arid and heat stressed conditions. Understanding how this highly adapted plant persi...
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Article
Plastome-Wide Nucleotide Substitution Rates Reveal Accelerated Rates in Papilionoideae and Correlations with Genome Features Across Legume Subfamilies
This study represents the most comprehensive plastome-wide comparison of nucleotide substitution rates across the three subfamilies of Fabaceae: Caesalpinioideae, Mimosoideae, and Papilionoideae. Caesalpinioid...
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Article
Open AccessAnalysis of transcriptional response to heat stress in Rhazya stricta
Climate change is predicted to be a serious threat to agriculture due to the need for crops to be able to tolerate increased heat stress. Desert plants have already adapted to high levels of heat stress so the...
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Article
Open AccessThe nuclear genome of Rhazya stricta and the evolution of alkaloid diversity in a medically relevant clade of Apocynaceae
Alkaloid accumulation in plants is activated in response to stress, is limited in distribution and specific alkaloid repertoires are variable across taxa. Rauvolfioideae (Apocynaceae, Gentianales) represents a...
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Article
Open AccessDivergence of RNA polymerase α subunits in angiosperm plastid genomes is mediated by genomic rearrangement
Genes for the plastid-encoded RNA polymerase (PEP) persist in the plastid genomes of all photosynthetic angiosperms. However, three unrelated lineages (Annonaceae, Passifloraceae and Geraniaceae) have been ide...
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Article
Open AccessMimosoid legume plastome evolution: IR expansion, tandem repeat expansions and accelerated rate of evolution in clpP
The Leguminosae has emerged as a model for studying angiosperm plastome evolution because of its striking diversity of structural rearrangements and sequence variation. However, most of what is known about leg...
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Article
Open AccessNDH expression marks major transitions in plant evolution and reveals coordinate intracellular gene loss
Key innovations have facilitated novel niche utilization, such as the movement of the algal predecessors of land plants into terrestrial habitats where drastic fluctuations in light intensity, ultraviolet radi...
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Article
Open AccessComplete plastome sequence of Thalictrum coreanum (Ranunculaceae) and transfer of the rpl32 gene to the nucleus in the ancestor of the subfamily Thalictroideae
Plastids originated from cyanobacteria and the majority of the ancestral genes were lost or functionally transferred to the nucleus after endosymbiosis. Comparative genomic investigations have shown that gene ...
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Article
Open AccessComplete sequences of organelle genomes from the medicinal plant Rhazya stricta(Apocynaceae) and contrasting patterns of mitochondrial genome evolution across asterids
Rhazya stricta is native to arid regions in South Asia and the Middle East and is used extensively in folk medicine to treat a wide range of diseases. In addition to generating genomic resources for this medicina...
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Protocol
The Plastid Genomes of Flowering Plants
The plastid genome (plastome) has proved a valuable source of data for evaluating evolutionary relationships among angiosperms. Through basic and applied approaches, plastid transformation technology offers th...
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Article
Open AccessComparative analyses of two Geraniaceae transcriptomes using next-generation sequencing
Organelle genomes of Geraniaceae exhibit several unusual evolutionary phenomena compared to other angiosperm families including accelerated nucleotide substitution rates, widespread gene loss, reduced RNA edit...
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Chapter
Plastid Genomes of Seed Plants
The field of comparative plastid genomics has burgeoned during the past decade, largely due to the availability of rapid, less expensive genome sequencing technologies. Currently there are 200 plastid genomes ...
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Article
Recent loss of plastid-encoded ndh genes within Erodium (Geraniaceae)
Plastid genomes in the flowering plant family Geraniaceae are known to be highly rearranged based on complete sequences representing the four major genera Erodium, Geranium, Monsonia, and Pelargonium. In this pap...
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Chapter
Status of the Pursuit of the Diatom Phylogeny: Are Traditional Views and New Molecular Paradigms Really That Different?
Diatoms are often referred to one of six structural groups. The two major groups are centrics and pennates, and each is further subdivided. Centrics are either radial centrics or (bi-)multipolar (or simply pol...
