Application of machine learning and genomics for orphan crop improvement

Nature Communications, Год журнала: 2025, Номер 16(1)

Опубликована: Янв. 24, 2025

Orphan crops are important sources of nutrition in developing regions and many tolerant to biotic abiotic stressors; however, modern crop improvement technologies have not been widely applied orphan due the lack resources available. There representatives across major types conservation genes between these related species can be used improvement. Machine learning (ML) has emerged as a promising tool for Transferring knowledge from using machine improve accuracy efficiency crops. Here, authors review transferring breeding.

Язык: Английский

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Adapting crops for climate change: regaining lost abiotic stress tolerance in crops

Frontiers in Science, Год журнала: 2024, Номер 2

Опубликована: Дек. 5, 2024

It is often stated that agricultural outputs need to increase substantially meet the demands for more food posed by a growing population. However, when accounting climate change, we argue current projected increases are unrealistic and realistic goal would be maintain yields per area of production. This will require breeding crops with increased tolerance abiotic stresses such as drought, salinity, waterlogging, high temperatures. can accomplished in one two ways: introducing stress genes into present high-yielding or increasing already tolerant orphan and/or wild plants. We first strategy easing restrictions on use gene editing technologies making substantial improvements cell-based phenotyping identify available pool crop its relatives. The success second depend number domestication selected order obtain comparable present-day cultivars. still too early conclude which strategies, rewilding (bringing lost from ancestors back domesticated crops) de novo (domesticating resilient plants underutilized directly), most effective future sustainable agriculture. given importance issue, some rapid action needs taken.

Язык: Английский

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From ‘Farm to Fork’: Exploring the Potential of Nutrient-Rich and Stress-Resilient Emergent Crops for Sustainable and Healthy Food in the Mediterranean Region in the Face of Climate Change Challenges

Plants, Год журнала: 2024, Номер 13(14), С. 1914 - 1914

Опубликована: Июль 11, 2024

In the dynamic landscape of agriculture and food science, incorporating emergent crops appears as a pioneering solution for diversifying agriculture, unlocking possibilities sustainable cultivation nutritional bolstering security, creating economic prospects amid evolving environmental market conditions with positive impacts on human health. This review explores potential utilizing in Mediterranean environments under current climate scenarios, emphasizing manifold benefits agricultural system diversification assessing impact factors their quality consumer Through deep exploration resilience, value, health neglected underutilized species (NUS) such quinoa, amaranth, chia, moringa, buckwheat, millet, teff, hemp, or desert truffles, capacity to thrive changing is highlighted, offering novel opportunities functional development. By analysing how promoting can enhance adaptability conditions, fostering sustainability we discuss recent findings that underscore main limitations these from agricultural, perspectives, all crucial responsible adoption. Thus, by using holistic approach, this revision analyses integration NUS into agrifood systems resilience addressing environmental, nutritional, biomedical, economic, cultural dimensions, thereby mitigating risks associated monoculture practices local economies livelihoods new scenarios.

Язык: Английский

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Haplotype-resolved chromosome-level genome sequence of Elsholtzia splendens (Nakai ex F.Maek.)

Scientific Data, Год журнала: 2025, Номер 12(1)

Опубликована: Май 20, 2025

Elsholtzia splendens, a perennial herb native to East Asia, is valued for its ornamental and medicinal uses, particularly in treating inflammatory febrile conditions. Recent studies have highlighted antibacterial, anti-inflammatory, antidepressant, antithrombotic, lipid-lowering properties of compounds. Additionally, E. splendens shows potential phytoremediation owing ability hyperaccumulate copper (Cu), lead (Pb), zinc (Zn), cadmium (Cd). However, role remediation conflicts with use because the risk heavy metal accumulation. Genome sequencing will be key boosting beneficial compound production reducing risks. In this study, we generated high-resolution, haplotype-resolved, chromosome-scale genome sequence using PacBio Revio long-read, Illumina short-read, Hi-C technologies. The haplotype assemblies, spanned 275.4 265.0 Mbp scaffold N50 33.9 33.8 1 2, respectively. This assembly provides valuable insights into biosynthesis supports genetic conservation efforts, facilitating future biotechnological applications ecological uses.

Язык: Английский

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Transcriptional Modulation during Photomorphogenesis in Rice Seedlings

Genes, Год журнала: 2024, Номер 15(8), С. 1072 - 1072

Опубликована: Авг. 14, 2024

Light is one of the most important factors regulating plant gene expression patterns, metabolism, physiology, growth, and development. To explore how light may induce or alter transcript splicing, we conducted RNA-Seq-based transcriptome analyses by comparing samples harvested as etiolated seedlings grown under continuous dark conditions vs. light-treated green seedlings. The study aims to reveal differentially regulated protein-coding genes novel long noncoding RNAs (lncRNAs), their light-induced alternative association with biological pathways. We identified 14,766 expressed genes, which 4369 showed splicing. observed that mapped plastid-localized methyl-erythritol-phosphate (MEP) pathway were light-upregulated compared cytosolic mevalonate (MVA) genes. Many these also undergo These pathways provide crucial metabolite precursors for biosynthesis secondary metabolic compounds needed chloroplast biogenesis, establishment a successful photosynthetic apparatus, photomorphogenesis. In chromosome-wide survey transcriptome, intron retention predominant splicing event. addition, 1709 lncRNA transcripts in our data. This provides insights on light-regulated rice.

Язык: Английский

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Chia (Salvia hispanica L.), a functional ‘superfood’: new insights into its botanical, genetic and nutraceutical characteristics

Annals of Botany, Год журнала: 2024, Номер 134(5), С. 725 - 746

Опубликована: Июль 31, 2024

Abstract Background Chia (Salvia hispanica L.) seeds have become increasingly popular among health-conscious consumers owing to their high content of ω-3 fatty acids, which provide various health benefits. Comprehensive chemical analyses the acids and proteins in chia been conducted, revealing functional properties. Recent studies confirmed seed oil hinted at additional characteristics. Scope This review article aims an overview botanical, morphological biochemical features plants, mucilage. Additionally, we discuss recent developments genetic molecular research on chia, including latest transcriptomic that examine genes responsible for acid biosynthesis. In years, has shifted its focus from studying physicochemical characteristics composition understanding metabolic pathways mechanisms contribute nutritional led a growing interest pharmaceutical, nutraceutical agricultural applications chia. this context, questions remain unanswered, identify areas require further exploration. Conclusions Nutraceutical compounds associated with significant benefits, polyunsaturated phenolic antioxidant activity, measured quantities seeds. However, comprehensive investigations through both vitro experiments vivo animal controlled human trials are expected greater clarity medicinal, antimicrobial antifungal effects The recently published genome gene-editing technologies, such as CRISPR, facilitate deciphering biosynthesis crop. necessitates development stable transformation protocols creation publicly available lipid database, mutant collection large-scale datasets

Язык: Английский

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A chromosome level reference genome of Diviner’s sage (Salvia divinorum) provides insight into salvinorin A biosynthesis

BMC Plant Biology, Год журнала: 2024, Номер 24(1)

Опубликована: Окт. 1, 2024

Язык: Английский

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