Phenotypic plasticity of two M. oleifera ecotypes from different climatic zones under water stress and re-watering

Spatial and temporal characterization of the rich fraction of plastid DNA present in the nuclear genome of Moringa oleifera reveals unanticipated complexity in NUPTs´ formation

BACKGROUND

Beyond the massive amounts of DNA and genes transferred from the protoorganelle genome to the nucleus during the endosymbiotic event that gave rise to the plastids, stretches of plastid DNA of varying size are still being copied and relocated to the nuclear genome in a process that is ongoing and does not result in the concomitant shrinking of the plastid genome. As a result, plant nuclear genomes feature small, but variable, fraction of their genomes of plastid origin, the so-called nuclear plastid DNA sequences (NUPTs). However, the mechanisms underlying the origin and fixation of NUPTs are not yet fully elucidated and research on the topic has been mostly focused on a limited number of species and of plastid DNA.

RESULTS

Here, we leveraged a chromosome-scale version of the genome of the orphan crop Moringa oleifera, which features the largest fraction of plastid DNA in any plant nuclear genome known so far, to gain insights into the mechanisms of origin of NUPTs. For this purpose, we examined the chromosomal distribution and arrangement of NUPTs, we explicitly modeled and tested the correlation between their age and size distribution, we characterized their sites of origin at the chloroplast genome and their sites of insertion at the nuclear one, as well as we investigated their arrangement in clusters. We found a bimodal distribution of NUPT relative ages, which implies NUPTs in moringa were formed through two separate events. Furthermore, NUPTs from every event showed markedly distinctive features, suggesting they originated through distinct mechanisms.

CONCLUSIONS

Our results reveal an unanticipated complexity of the mechanisms at the origin of NUPTs and of the evolutionary forces behind their fixation and highlight moringa species as an exceptional model to assess the impact of plastid DNA in the evolution of the architecture and function of plant nuclear genomes.

Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication

The African Orphan Crops Consortium (AOCC) selected the highly nutritious, fast growing and drought tolerant tree crop moringa (Moringa oleifera Lam.) as one of the first of 101 plant species to have its genome sequenced and a first draft assembly was published in 2019. Given the extensive uses and culture of moringa, often referred to as the multipurpose tree, we generated a significantly improved new version of the genome based on long-read sequencing into 14 pseudochromosomes equivalent to n = 14 haploid chromosomes. We leveraged this nearly complete version of the moringa genome to investigate main drivers of gene family and genome evolution that may be at the origin of relevant biological innovations including agronomical favorable traits. Our results reveal that moringa has not undergone any additional whole-genome duplication (WGD) or polyploidy event beyond the gamma WGD shared by all core eudicots. Moringa duplicates retained following that ancient gamma events are also enriched for functions commonly considered as dosage balance sensitive. Furthermore, tandem duplications seem to have played a prominent role in the evolution of specific secondary metabolism pathways including those involved in the biosynthesis of bioactive glucosinolate, flavonoid, and alkaloid compounds as well as of defense response pathways and might, at least partially, explain the outstanding phenotypic plasticity attributed to this species. This study provides a genetic roadmap to guide future breeding programs in moringa, especially those aimed at improving secondary metabolism related traits.

Experimental assessment of ozone risk on ecotypes of the tropical tree Moringa oleifera

Ozone (O₃) is an oxidative air pollutant that affects plant growth. Moringa oleifera is a tree species distributed in the tropical and subtropical regions. This species presents high morphological plasticity, which increases its ability to tolerate stressful conditions, but with no O₃ risk assessment calculated so far. The present study assessed the O₃ risk to different M. oleifera ecotypes using exposure-based index (AOT40) or flux-based index (PODy - where y is a threshold of O₃ uptake). PODy considers the O₃ uptake through the stomata and the consequence of environmental climate conditions on stomatal conductance (g_sto); thus, it is efficient in assessing O₃ risk. Five M. oleifera ecotypes were subjected to ambient (Amb.); middle (Mid. X1.5), and High (x2.0) O₃ concentrations for 77 days in a free-air controlled exposure facility (FACE). Leaf biomass (LB) was evaluated, and the biomass loss was projected assuming a clean atmosphere (10 ppb as 24 h O₃ average). The g_sto parameterization was calculated using the Jarvis-type multiplicative algorithm considering several climate factors, i.e., light intensity, air temperature, air vapor pressure deficit, and AOT40. Ozone exposure harmed the LB of all ecotypes. The high g_sto (~559 mmol H₂O m^-2 s^-1) can be considered the reason for the species' O₃ sensitivity. M. oleifera is adapted to hot climate conditions, and g_sto was restricted with air temperature (T_min) below ~ 9 °C. As expected, the PODy index performed better than the AOT40 for estimating the O₃ effect on biomass losses. We recommend a y threshold of 4 nmol m^-2 s^-1 to incorporate O₃ effects on M. oleifera LB. To not exceed a 4% reduction of LB for any M. oleifera genotype, we recommend the critical levels of 1.1 mmol m^-2 POD₄.