Elucidating gene expression adaptation of phylogenetically divergent coral holobionts under heat stress

As coral reefs struggle to survive under climate change, it is crucial to know whether they have the capacity to withstand changing conditions, particularly increasing seawater temperatures. Thermal tolerance requires the integrative response of the different components of the coral holobiont (coral host, algal photosymbiont, and associated microbiome). Here, using a controlled thermal stress experiment across three divergent Caribbean coral species, we attempt to dissect holobiont member metatranscriptome responses from coral taxa with different sensitivities to heat stress and use phylogenetic ANOVA to study the evolution of gene expression adaptation. We show that coral response to heat stress is a complex trait derived from multiple interactions among holobiont members. We identify host and photosymbiont genes that exhibit lineage-specific expression level adaptation and uncover potential roles for bacterial associates in supplementing the metabolic needs of the coral-photosymbiont duo during heat stress. Our results stress the importance of integrative and comparative approaches across a wide range of species to better understand coral survival under the predicted rise in sea surface temperatures.

Genome sequence and evolution of Betula platyphylla

Betula L. (birch) is a pioneer hardwood tree species with ecological, economic, and evolutionary importance in the Northern Hemisphere. We sequenced the Betula platyphylla genome and assembled the sequences into 14 chromosomes. The Betula genome lacks evidence of recent whole-genome duplication and has the same paleoploidy level as Vitis vinifera and Prunus mume. Phylogenetic analysis of lignin pathway genes coupled with tissue-specific expression patterns provided clues for understanding the formation of higher ratios of syringyl to guaiacyl lignin observed in Betula species. Our transcriptome analysis of leaf tissues under a time-series cold stress experiment revealed the presence of the MEKK1–MKK2–MPK4 cascade and six additional mitogen-activated protein kinases that can be linked to a gene regulatory network involving many transcription factors and cold tolerance genes. Our genomic and transcriptome analyses provide insight into the structures, features, and evolution of the B. platyphylla genome. The chromosome-level genome and gene resources of B. platyphylla obtained in this study will facilitate the identification of important and essential genes governing important traits of trees and genetic improvement of B. platyphylla.

The Effect of Low Temperature on Physiological, Biochemical and Flowering Functions of Olive Tree in Relation to Genotype

Olive tree growth and reproduction are severely affected by temperature extremes, compromising fruit yield. In that aspect, the olive varieties “Koroneiki” and “Mastoidis” were employed in a mild cold stress experiment, imitating night frost incidents to assess their biochemical, physiological and reproductive functions in relation to genotype. The physiological performance of the stressed plants was not significantly altered, suggesting that both cultivars were well adapted to mild cold night stress. The biochemical response of the plants, regarding antioxidant enzymes, H2O2 and TBARS accumulation, confirmed that both cultivars could cope with the stress applied. The mRNA levels of the PPO gene, which participates in hydroxytyrosol biosynthesis and plant defense, were elevated after 24-h stress at 0 °C, in both cultivars with “Mastoidis” plants exhibiting higher levels for a longer period. Three more genes involved in hydroxytyrosol biosynthesis upregulated their expression levels as a response to cold stress. The numerous plant phenology aspects measured reinforced the conclusion that both cultivars responded to the stress applied. The results of the present study may contribute to better understanding olive tree adaptive responses to low temperature events, an abiotic stress condition that is often present in an open plantation, thus assisting farmers on breeding and cultivar selection.

Stress metabolite pattern in the eulittoral red alga Pyropia plicata (Bangiales) in New Zealand – mycosporine-like amino acids and heterosides

© 2018 Intertidal rocky shore ecosystems are affected by steep environmental gradients such as fluctuating solar irradiation and salinity along the marine-terrestrial interface. The eulittoral red alga Pyropia plicata (Bangiales) is endemic and abundant to coastal regions of New Zealand and almost unstudied in terms of ecophysiological performance under radiation and salinity stress. Therefore, the acclimation potential of this species against enhanced ultraviolet radiation (UVR) and osmotic stress was evaluated in a combination of field and laboratory experiments with an emphasis on stress metabolite concentrations (UV-sunscreens, organic osmolytes). Samples of P. plicata were collected at the same site in the intertidal zone of Wellington, New Zealand over three seasons (April–November 2016) and used in independent UV and salt stress experiments under controlled conditions. The mycosporine-like amino acids (MAA) shinorine and porphyra-334 were the quantitatively dominant UV-sunscreen compounds, and the total concentrations varied over the year between 5 and 14 mg g−1 dry weight (DW), but neither UVR nor PAR had a significant impact on the total or individual MAA concentrations. A UV radiation stress experiment was conducted, but the total MAA concentrations of 6–8 mg g−1 DW did not change, neither did the contents of shinorine (~ 3 mg g−1 DW) nor that of porphyra-334 (4–5 mg g−1 DW). This suggests, that P. plicata has sufficiently high UV-sunscreen amounts and hence does not respond to changes in UV radiation. Pyropia plicata contained three heterosides (floridoside, D- and L-isofloridoside), which act as organic osmolytes. Seasonally the total concentrations of these compounds varied between 203 and 1226 mmol kg−1 DW, with L-isofloridoside quantitatively dominating all samples. A salt stress experiment showed an increase in the total heteroside concentrations in P. plicata with increasing salinities. However, floridoside was the most up-regulated heteroside under hypersaline conditions indicating its key role in osmotic acclimation. Our data indicate that P. plicata always contains various stress metabolites in consistently high concentrations which mitigate against environmental changes typical of the intertidal zone of New Zealand.

Stress metabolite pattern in the eulittoral red alga Pyropia plicata (Bangiales) in New Zealand – mycosporine-like amino acids and heterosides

© 2018 Intertidal rocky shore ecosystems are affected by steep environmental gradients such as fluctuating solar irradiation and salinity along the marine-terrestrial interface. The eulittoral red alga Pyropia plicata (Bangiales) is endemic and abundant to coastal regions of New Zealand and almost unstudied in terms of ecophysiological performance under radiation and salinity stress. Therefore, the acclimation potential of this species against enhanced ultraviolet radiation (UVR) and osmotic stress was evaluated in a combination of field and laboratory experiments with an emphasis on stress metabolite concentrations (UV-sunscreens, organic osmolytes). Samples of P. plicata were collected at the same site in the intertidal zone of Wellington, New Zealand over three seasons (April–November 2016) and used in independent UV and salt stress experiments under controlled conditions. The mycosporine-like amino acids (MAA) shinorine and porphyra-334 were the quantitatively dominant UV-sunscreen compounds, and the total concentrations varied over the year between 5 and 14 mg g−1 dry weight (DW), but neither UVR nor PAR had a significant impact on the total or individual MAA concentrations. A UV radiation stress experiment was conducted, but the total MAA concentrations of 6–8 mg g−1 DW did not change, neither did the contents of shinorine (~ 3 mg g−1 DW) nor that of porphyra-334 (4–5 mg g−1 DW). This suggests, that P. plicata has sufficiently high UV-sunscreen amounts and hence does not respond to changes in UV radiation. Pyropia plicata contained three heterosides (floridoside, D- and L-isofloridoside), which act as organic osmolytes. Seasonally the total concentrations of these compounds varied between 203 and 1226 mmol kg−1 DW, with L-isofloridoside quantitatively dominating all samples. A salt stress experiment showed an increase in the total heteroside concentrations in P. plicata with increasing salinities. However, floridoside was the most up-regulated heteroside under hypersaline conditions indicating its key role in osmotic acclimation. Our data indicate that P. plicata always contains various stress metabolites in consistently high concentrations which mitigate against environmental changes typical of the intertidal zone of New Zealand.

Autophagy is responsible for the accumulation of proteogenic dipeptides in response to heat stress in Arabidopsis thaliana

Proteogenic dipeptides are intermediates of proteolysis as well as an emerging class of small-molecule regulators with diverse and often dipeptide-specific functions. Herein, prompted by differential accumulation of dipeptides in a high-density Arabidopsis thaliana time-course stress experiment, we decided to pursue an identity of the proteolytic pathway responsible for the buildup of dipeptides under heat conditions. By querying dipeptide accumulation versus available transcript data, autophagy emerged as a top hit. To examine whether autophagy indeed contributes to the accumulation of dipeptides measured in response to heat stress, we characterized the loss-of-function mutants of crucial autophagy proteins to test whether interfering with autophagy would affect dipeptide accumulation in response to the heat treatment. This was indeed the case. This work implicates the involvement of autophagy in the accumulation of proteogenic dipeptides in response to heat stress in Arabidopsis.

Residual EG Oxide in FinFET Analyses and Its Impact to Yield, Product Performance, and Transistor Reliability

This paper describes an electrical and physical failure analysis methodology leading to a unique defect called residual EG oxide (shortened to REGO); which manifested in 14nm SOI high performance FinFET technology. Theoretically a REGO defect can be present anywhere and on any multiple Fin transistor, or any type of device (low Vt, Regular Vt or High Vt). Because of the quantum nature of the FinFET and REGO occurrence being primarily limited to single Fins, this defect does not impact large transistors with multiple FINs; moreover, REGO was found to only impact 3 Fin or less transistors. Since REGO can be present on any multi-FIN transistor the potential does exist for the defect to escape test screening. Subsequently a reliability BTI (Bias Temperature Instability) stress experiment by nanoprobing at contact level was designed to assess REGO’s potential reliability impact. The BTI stress results indicate that the REGO defect would not result in any additional reliability or performance degradation beyond model expectations.