Progress in understanding drought tolerance: from alleles to cropping systems

Varshney, Rajeev K.; Tuberosa, Roberto; Tardieu, Francois F.

doi:10.1093/jxb/ery187

Cited by 37 publications

(23 citation statements)

References 37 publications

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“…Trypan blue staining further showed that the drought treatment roots experienced not only obvious cell deformation but also more cell membrane injury than that of the well-watered controls (Figure 1c). Overall, these observations are consistent with those of previous studies in plant species under drought stresses and undergoing water deprivation [18]. These results indicate substantial physiological responses of the oil palm seedlings under drought stress [19], and provided useful starting materials to study the genes, pathways and networks involved in drought responses of the important crop species using RNA-seq [20] and bioinformatics analysis.…”

Section: Morphological and Physiological Responses To Droughtsupporting

confidence: 90%

Genes, pathways and networks responding to drought stress in oil palm roots

Wang

Lee

et al. 2020

Preprint

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Background: Palm oil is an important feedstock for biofuel. Palm oil yield is seriously affected by drought stress. However, not much is known about the molecular responses of oil palm to drought stress.Results: We studied the root transcriptomic responses of oil palm seedlings under normal culture and 14-day drought stress using RNA-seq and bioinformatics analysis. We identified 1293 differentially expressed genes (DEGs), involved in several molecular processes, such as cell wall biogenesis and functions, phenylpropanoid biosynthesis and metabolisms, ion transport and homeostasis and cellular ketone metabolic process, as well as small molecule biosynthetic process. We observed that DEGs were significantly enriched into the two categories: hormone regulation and metabolism, as well as ABC transporters. In addition, we identified three protein-protein interaction networks involved in the response to drought stress, including ion transport, reactive nitrogen species metabolic process and nitrate assimilation. Finally, 96 differentially expressed transcription factors were detected to be associated with drought stress response, which were classified into 28 families.Conclusions : The transcriptomic responses of oil palm seedlings to drought stress were systematically analysed, revealing important genes, pathways, networks and transcription factors involved in drought stress responses. These results provide new insights into the mechanisms of drought stress responses in economic crops. The genes and pathways identified in this study provide valuable genomic resources to improve drought tolerance of oil palm by both genetic modification and selective breeding.

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Section: Morphological and Physiological Responses To Droughtsupporting

confidence: 90%

Genes, pathways and networks responding to drought stress in oil palm roots

Wang

Lee

et al. 2020

Preprint

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“…60 Drought tolerance is a complex trait. 61 Much progress has been made on understanding the molecular/genetic components. 62 Probabilistic methods have been proposed for assessing the best combination of alleles depending on the drought scenarios, 63 as well as combinations of agronomic practices and genetics.…”

Section: Improving Agronomic Traitsmentioning

confidence: 99%

Approaches for More Efficient Biological Conversion of Lignocellulosic Feedstocks to Biofuels and Bioproducts

Baral

Sundström

Das

et al. 2019

ACS Sustainable Chem. Eng.

101

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The future bioeconomy promises drop-in or performance-advantaged biofuels and bioproducts derived from lignocellulosic biomass, substantial greenhouse gas (GHG) emissions reductions in sectors with few or no alternatives, and increased domestic energy production in countries with sufficient biomass resources. Despite the slower than anticipated pace of commercializing next-generation biofuels, the research community continues to make dramatic improvements at every stage of production, from feedstock cultivation through conversion to final products. However, the interdisciplinary nature of bioenergy research, and the need for crosscoordination among biologists, chemists, agronomists, and engineers, make coordinating and optimizing these strategies challenging. This Perspective surveys recent advancements in bioenergy crop engineering, lignocellulosic biomass deconstruction and fractionation, catabolism of biomass-derived sugars and aromatics, and biological conversion to fuels and products. We organize major research approaches into broad categories and comment on which strategies offer synergies or trade-offs in the context of four approaches to improving the economics and carbon-efficiency of advanced biofuels and bioproducts: 1) maximize sugar conversion to a single product, 2) utilize diverse carbon sources for producing a single product, 3) convert lignin to high-value products, and 4) fractionate the hydrolysate to derive maximum value from each component.

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“…Such trans-microProteins could be utilised in biotechnological research such as crop bioengineering. It has also opened up new opportunities to explore the function of new genes and pathways involved in adaptation to changing environments (Varshney, Tuberosa, and Tardieu 2018).…”

Section: Discussionmentioning

confidence: 99%

Global Analysis of Cereal microProteins Suggests Diverse Roles in Crop Development and Environmental Adaptation

Bhati

Kruusvee

Straub

et al. 2020

G3 Genes|Genomes|Genetics

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MicroProteins are class of small single-domain proteins that post-translationally regulate larger multidomain proteins from which they evolved or to which they relate. They disrupt the normal function of their targets by forming microProtein-target heterodimers through compatible protein-protein interaction (PPI) domains. Recent studies confirm the significance of microProteins in the fine-tuning of plant developmental processes such as shoot apical meristem maintenance and flowering time regulation. While there are a number of well-characterised microProteins in Arabidopsis thaliana, studies from more complex plant genomes are still missing. Our lab has previously developed miPFinder, a software for identifying microProteins from annotated genomes. Here we present an improved version, where we have updated the algorithm to increase its accuracy and speed, and used it to analyse five cereal crop genomes - wheat, rice, barley, maize and sorghum. We found 20,064 potential microProteins from a total of 258,029 proteins in these five organisms, of which approximately 2000 are high-confidence, i.e. likely to function as actual microProteins. Gene ontology analysis of these 2000 microProtein candidates revealed their roles in stress, light and growth responses, hormone signalling and transcriptional regulation. Using a recently developed rice gene co-expression database, we analysed 347 potential rice microProteins that are also conserved in other cereal crops and found over 50 of these rice microProteins co-regulated with their identified interaction partners. Overall, our study reveals a rich source of biotechnologically interesting small proteins that regulate fundamental plant processes such a growth and stress response that could be utilised in crop bioengineering.

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Progress in understanding drought tolerance: from alleles to cropping systems

Cited by 37 publications

References 37 publications

Genes, pathways and networks responding to drought stress in oil palm roots

Genes, pathways and networks responding to drought stress in oil palm roots

Approaches for More Efficient Biological Conversion of Lignocellulosic Feedstocks to Biofuels and Bioproducts

Global Analysis of Cereal microProteins Suggests Diverse Roles in Crop Development and Environmental Adaptation

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