Summary Harnessing plant microbiota can assist in sustainably increasing primary productivity to meet growing global demands for food and biofuel. However, development of rational microbiome‐based approaches for improving crop yield and productivity is currently hindered by a lack of understanding of the major biotic and abiotic factors shaping the crop microbiome under relevant field conditions. We examined bacterial and fungal communities associated with both aerial (leaves, stalks) and belowground (roots, soil) compartments of four commercial sugarcane varieties (Saccharum spp.) grown in several growing regions in Australia. We identified drivers of the sugarcane microbiome under field conditions and evaluated whether the plants shared a core microbiome. Sugarcane‐associated microbial assemblages were primarily determined by plant compartment, followed by growing region, crop age, variety and Yellow Canopy Syndrome (YCS). We detected a core set of microbiota and identified members of the core microbiome that were influenced by YCS incidence. Our study revealed key hub microorganisms in the core microbiome networks of sugarcane leaves, stalks, roots and rhizosphere soil despite location and time‐associated shifts in the community assemblages. Elucidating their functional roles and identification of the keystone core microbiota that sustain plant health could provide a technological breakthrough for a sustainable increase in crop productivity.

Over the first three years of eCO2, we found a significant enhancement of light-saturated leaf 81 net photosynthesis rate in the tree canopies (F1,4 = 18.20, P = 0.013; Table 1, Fig. 1). Prior to 82 eCO2 enhancement, there had been no significant pre-treatment difference (Fig. 1) (plus bark) production were the largest components of ANPP (Fig. 2), averaging 48% and 98 28% of the total, respectively. For these components, the estimated eCO2 effect size 99 encompassed zero (95% CI between -30% and +7% for foliage and between -21% and +24% 100 6 for twigs). Similarly, the estimated eCO2 effect size of wood production was not statistically 101 distinguishable from zero (Figure 2 and table S1). There was no significant eCO2 effect on 102 stemwood biomass increment across the three years of this study, nor a year × eCO2 103 interaction (Table S1; P =0.420). (Table S1) or by diameter classes (Fig. 3, Fig. S3

Atmospheric carbon dioxide enrichment (eCO 2) can enhance plant carbon uptake and growth 1,2,3,4,5 , thereby providing an important negative feedback to climate change by slowing the rate of increase of the atmospheric CO 2 concentration 6. While evidence gathered from young aggrading forests has generally indicated a strong CO 2 fertilization effect on biomass growth 3,4,5 , it is unclear whether mature forests respond to eCO 2 in a similar way. In mature trees and forest stands 7,8,9,10 , photosynthetic uptake has been found to increase under eCO 2 without any apparent accompanying growth response, leaving an open question about the fate of additional carbon fixed under eCO 2 4,5,7,8,9,10,11. Here, using data from the first ecosystemscale Free-Air CO 2 Enrichment (FACE) experiment in a mature forest, we constructed a comprehensive ecosystem carbon budget to track the fate of carbon as the forest responds to four years of eCO 2 exposure. We show that, although the eCO 2 treatment of ambient +150 ppm (+38%) induced a 12% (+247 g C m-2 yr-1) increase in carbon uptake through gross primary production, this additional carbon uptake did not lead to increased carbon sequestration at the ecosystem level. Instead, the majority of the extra carbon was emitted back into the atmosphere via several respiratory fluxes, with increased soil respiration alone accounting for ~50% of the total uptake surplus. Our results call into question the predominant thinking that the capacity of forests to act as carbon sinks will be generally enhanced under eCO 2 , and challenge the efficacy of climate mitigation strategies that rely on ubiquitous CO 2 fertilization as a driver of increased carbon sinks in global forests. Main text Globally, forests act as a large carbon sink, absorbing a significant portion of the anthropogenic CO 2 emissions 1,12 , an ecosystem service that has tremendous social and

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