As sessile organisms, plants have evolved mechanisms that allow them to adapt and survive periods of drought stress. One of the inevitable consequences of drought stress is enhanced ROS production in the different cellular compartments, namely in the chloroplasts, the peroxisomes and the mitochondria. This enhanced ROS production is however kept under tight control by a versatile and cooperative antioxidant system that modulates intracellular ROS concentration and sets the redox-status of the cell. Furthermore, ROS enhancement under stress functions as an alarm signal that triggers acclimatory/defense responses by specific signal transduction pathways that involve H(2)O(2) as secondary messenger. ROS signaling is linked to ABA, Ca(2+) fluxes and sugar sensing and is likely to be involved both upstream and downstream of the ABA-dependent signaling pathways under drought stress. Nevertheless, if drought stress is prolonged over to a certain extent, ROS production will overwhelm the scavenging action of the anti-oxidant system resulting in extensive cellular damage and death.

SummaryPhosphorus (P) is an essential element to all living cells, yet fluctuations in P concentrations are recurrent in the marine environment. Diatoms are amongst the most successful phytoplankton groups, adapting to and surviving periods of suboptimal conditions and resuming growth as soon as nutrient concentrations permit. A knowledge of the molecular underpinnings of diatom ecological success is, however, still very incomplete.By strand-specific RNA sequencing, we analyzed the global transcriptome changes of the diatom Phaeodactylum tricornutum in response to P fluctuations over a course of 8 d, defining five distinct physiological states.This study reports previously unidentified genes highly responsive to P stress in P. tricornutum. Our data also uncover the complexity of the P. tricornutum P-responsive sensory and signaling system that combines bacterial two-component systems with more complex pathways reminiscent of metazoans. Finally, we identify a multitude of novel long intergenic nonprotein coding RNAs (lincRNAs) specifically responsive to P depletion, suggesting putative regulatory roles in the regulation of P homeostasis.Our work provides additional molecular insights into the resilience of diatoms and their ecological success, and opens up novel routes to address and explore the function and regulatory roles of P. tricornutum lincRNAs in the context of nutrient stress.

Medicago truncatula is a model legume forage crop native to the arid and semi-arid environments of the Mediterranean. Given its drought-adapted nature, it is an ideal candidate to study the molecular and biochemical mechanisms conferring drought resistance in plants. Medicago plants were subjected to a progressive drought stress over 14 d of water withholding followed by rewatering under controlled environmental conditions. Based on physiological measurements of plant water status and changes in morphology, plants experienced mild, moderate and severe water stress before rehydration. Transcriptome analysis of roots and shoots from control, mildly, moderately and severely stressed, and rewatered plants, identified many thousands of genes that were altered in expression in response to drought. Many genes with expression tightly coupled to the plant water potential (i.e. drought intensity) were identified suggesting an involvement in Medicago drought adaptation responses. Metabolite profiling of drought-stressed plants revealed the presence of 135 polar and 165 non-polar compounds in roots and shoots. Combining Medicago metabolomic data with transcriptomic data yielded insight into the regulation of metabolic pathways operating under drought stress. Among the metabolites detected in drought-stressed Medicago plants, myo-inositol and proline had striking regulatory profiles indicating involvement in Medicago drought tolerance.Global transcriptional and metabolic responses to drought and rewatering were investigated in Medicago truncatula, a naturally drought-adapted model legume species. Integration of metabolomic and transcriptomic data yielded insights into the regulation of metabolic pathways underlying drought-stress adaptation. Many genes and metabolites with expression tightly coupled to drought intensity were identified, suggesting active involvement in Medicago drought resistance. These could prove useful targets for future translational approaches to improve closely related crop plants such as common bean, soybean and pea.

Four cultivars of related species, common bean and cowpea, which exhibit different degrees of drought resistance, were submitted to water stress by withholding irrigation. Drought induced an increase in endoproteolytic activity, being higher in susceptible cultivars (bean) than in tolerant ones (cowpea). An aspartic protease activity was found to be strongly induced especially in bean. From a cowpea leaf cDNA library, a full length aspartic protease precursor cDNA was obtained. Transcript accumulation in response to water stress indicated that the expression of the gene was constitutive in cowpea and transcriptionally up-regulated in bean. The results showed that drought-tolerant and drought-susceptible bean plants differ regarding aspartic protease precursor gene expression.

a b s t r a c tAdding biochar to soils and maintaining high earthworm biomasses are potential ways to increase the fertility of tropical soils and the sustainability of crop production in the spirit of agroecology and ecological engineering. However, a thorough functional assessment of biochar effect on plant growth and resource allocations is so far missing. Moreover, earthworms and biochar increase mineral nutrient availability through an increase in mineralization and nutrient retention respectively and are likely to interact through various other mechanisms. They could thus increase plant growth synergistically. This hypothesis was tested for rice in a greenhouse experiment. Besides, the relative effects of biochar and earthworms were compared in three different soil treatments (a nutrient rich soil, a nutrient poor soil, a nutrient poor soil supplemented with fertilization). Biochar and earthworm effects on rice growth and resource allocation highly depended on soil type and were generally additive (no synergy). In the rich soil, there were both clear positive biochar and earthworm effects, while there were generally only positive earthworm effects in the poor soil, and neither earthworm nor biochar effect in the poor soil with fertilization. The analysis of earthworm and biochar effects on different plant traits and soil mineral nitrogen content, confirmed that they act through an increase in nutrient availability. However it also suggested that another mechanism, such as the release in the soil of molecules recognized as phytohormones by plants, is also involved in earthworm action. This mechanism could for example help explaining how earthworms increase rice resource allocation to roots and influence the allocation to grains.

These results demonstrate a noticeable activation in both cultivars of the antioxidant metabolism under a progressive water stress, which involves both GR genes in the case of the susceptible cultivar. Under a fast desiccation, the susceptible cultivar responded later than the resistant one, suggesting a weaker capacity of response versus the resistant one. Exogenous ABA probably acts on GR gene expression via a mediated signal transduction pathway.

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Often ignored and regarded as mere transcriptional noise, long noncoding RNAs (lncRNAs) are starting to be considered key regulators of gene expression across the Eukarya domain of life. In the model diatom Phaeodactylum tricornutum, we have previously reported the occurrence of 1,510 intergenic lncRNAs (lincRNAs), many of which displaying specific patterns of expression under phosphate fluctuation (Pi). Using strand-specific RNA-sequencing data we now expand the repertoire of P. tricornutum lncRNAs by identifying 2,628 novel natural antisense transcripts (NATs) that cover 21.5% of the annotated genomic loci. We found that NAT expression is tightly regulated by phosphate depletion and other naturally occurring environmental stresses. Furthermore, we identified 121 phosphate stress responsive NAT-mRNA pairs, the great majority of which showing a positive correlation (concordant pairs) and a small fraction with negative correlation (discordant pairs). Taken together our results show that NATs are highly abundant transcripts in P. tricornutum and that their expression is under tight regulation by nutrient and environmental stresses. Furthermore, our results suggest that in P. tricornutum Pi stress response NAT pairs predominantly regulate positively the expression of their cognate sense genes, the latter being involved in several biological processes underlying the control of cellular homeostasis under stress. Diatoms are unicellular microalgae belonging to the stramenopile supergroup that emerged from an ancient secondary endosymbiosis over 200 My ago 1,2. They have since risen to prominence in the global ocean and are now amongst the major ocean primary producers 3-5. Very good competitors when nutrients are abundant 6 , diatoms are also extremely resilient to nutrient fluctuations in their environment, being able to quickly resume growth as soon as the environment is again favorable 7-9. Understanding of the molecular underpinnings regulating this resilience is nonetheless still very incomplete. Long noncoding RNA (lncRNA) transcripts originate from unannotated regions of genomes and were longtime regarded as transcriptional noise. However, with the huge amount of data generated by next generation high throughput RNA sequencing, and subsequent functional characterization of several lncRNAs, they are now gaining momentum as key regulators of gene expression across the Eukarya domain of life. LncRNAs form a heterogeneous class of transcripts that are generally capped and polyadenylated, like mRNA transcripts, but have as common features a sequence longer than 200 nucleotides with no viable open reading frame (ORF) 10,11. Based on their relationship with protein coding genes, lncRNAs can be called intergenic (lincRNAs) when they are located between protein coding genes, intronic (incRNAs) when they are expressed from introns, or natural antisense transcripts (NATs, also referred to as cis-NATs) when they are expressed from the opposite strand of sense genes of the same genomic locus 10. The latter group seems to be ...