The Plant Genome special section: Grain quality and nutritional genomics for breeding next‐generation crops DOI Creative Commons
Manish K. Pandey, Reyazul Rouf Mir, Nese Sreenivasulu

и другие.

The Plant Genome, Год журнала: 2023, Номер 16(4)

Опубликована: Дек. 1, 2023

By 2050, the world's population is expected to reach 9.8 billion according United Nations predictions (https://www.un.org/en/desa/world-population-projected-reach-98-billion-2050-and-112-billion-2100). As a result, crop yields must roughly double in order feed an expanding global while still satisfying consumer demands for grain quality and nutrition. In addition enhancing nutritional value of food crops, making available affordable, nutrient-dense food, especially those who are economically disadvantaged, will be central pillar address security. The strategy improving traits breeding programs has been prioritized with recent advancements phenotyping seeds grains (metabolomics, mineral vitamins, assessing starch, proteins lipids, capturing preferred traits), sequencing technologies do high-throughput genotyping, functional genomics aided gene discovery, high-resolution trait mapping superior haplotype as well deploying genomic selection tools variety crops (Pandey et al., 2016; Varshney 2019). To improve dietary patterns, new generation foods ingredients improved intrinsic attributes needs generated through advanced methods. This help public health by increasing density optimizing complex carbohydrates, proteins, lipids. utilizing integrating both modern traditional techniques, it possible hasten production types yield, grain, quality. special issue highlights most significant findings, which cover developments genomics, including prediction related quality, enhancement nutritive cereals (rice, wheat, maize, oat) legume like groundnut. Overall, this includes collection studies deciphering genetic mechanisms micronutrients covering minerals such iron (Fe), zinc (Zn), vitamin enrichment (tocochromanols), pigmented bioactives, amino acids, fiber, fatty acid composition, safety, end user selected legumes. approach identifying regions controlling key nutrition successful contributed significantly marker discovery use (Cockram & Mackay, 2018). High concentrations essential lysine limiting high free asparagine prevent acrylamide during bread formation enhance wheat grain. article Oddy al. (2023) used understanding control composition UK soft major emphasis on lowering higher content. multivariate analysis showing these largely independent one another, largest effect acids being from environment. study also identified quantitative loci (QTLs) content, may prove useful applying appropriate strategies reduce programmes. Using same groundnut, Parmar co-localized main candidate genes content Zn reports identification six main-effect QTLs Fe five Interestingly, three that further facilitate fine diagnostic development pooled sequencing-based region biparental Gangurde (2022) QTL-Seq markers seed weight. successfully associated weight 182 SNPs genic intergenic regions. Although multiple important regions, Ulp proteases BIG SEED locus very because its detection other well. More importantly breed groundnut varieties bigger size, gene-specific Kompetitive allele-specific PCR were developed validated. It vital determine Meta-QTLs haplotypes target traits, numerous found several areas form influence Joshi addresses aspect paper biofortification rice performing meta-analysis 155 followed 57 MQTLs reduced confidence intervals. importantly, not only detected co-localization metal homeostasis but involvement network silico expression co-expression analyses. Furthermore, efficient biofortification. Another led Diers presented results architecture concentration protein, oil, meal protein using soybean nested association reported 107 marker-trait associations (MTAs) above-mentioned traits. few MTAs mapped within 5 cM intervals (94%) effects matched correlation between linked suggested would more effective large number small Derbyshire utilized pangenome based thousands lines identify alleles involved biosynthesis. instances missing wild soybean, FAD8 FAD2-2D oleic linoleic desaturation, respectively. frequency missense biosynthesis genes, could domestication. genome-wide (GWAS) alternate plant species rely variation various core collections, instead developing populations (Gangurde 2022; Sushmitha 2023). Panahabadi uses monosaccharides contents rice. Monosaccharides building blocks synthesis polymers or carbohydrates. 49 housed 17 located seven chromosomes whole all novel. Multiple promising potential validation breeding. next Mbanjo performs GWAS linking pigmentation seed. >280 SNPs, many than secondary metabolite accumulation pigmentation. Further, targeted 67 52 showed 24 Rc/bHLH17 OsIPT5 regulation wide range phenolic compounds color. information made exploited deployment rice-breeding program. Genomic emerged powerful prediction-based progenies crop-breeding even early generation, therefore, saving resources, time, precision added advantage. There plenty testing statistical models maize wheat. now, huge training size constitution, genotyping platforms, keeping mind genotype interaction environment soil, possibilities selection. case published emerging area Research Tibbs-Cortes provided exciting exotic-derived tocochromanols (vitamin E), human diet. expected, accuracies achieved when predicting each decreased performed diversity panel set. strength hypothesis optimal designing efficiently incorporate exotic germplasm into Tanaka worked sound data support prior QTL contributing causal conferring biological knowledge elevate E improves multi-trait model two panels inbred lines. Next, research Brzozowski was oat targeting methods 12 indicated variability accuracy family compared unrelated panel. families had half-sib set without it, suggesting approach. Meher tested eight Bayesian micro-nutrient Zn, Fe, β-carotenoid ridge regression reliable method revalidated reliability increases increase BLUE values response variables better Fradgeley summarized maintenance Bread Baking Quality trends over 50 years future application genomic-assisted no subsequent net loss gain due breeders’ selection, despite yield time. proposed reduction increased gluten combination changes industrial baking process enabled decades. Most diverse varied algorithm clarity best models, can realistic scenarios Gill implementing processing end-use hard winter (MTGP) outperformed single up twofold accuracy. suggests MTGP together flour sedimentation evaluated earlier generations predict generations. issue, review articles focusing nutrients plants Khan another allergens (2023). under changing environments role stressful biotechnological optimization nutrient acquisition, transport, distribution plants. provides bio-fortification optimize stress conditions emphasizes about concerns safety need protect negative food-born allergies. current updates predicts prospects allergen-depleted crops. discussed detail how advances molecular breeding, engineering, genome editing potentially health. Manish K. Pandey: Conceptualization; investigation; methodology; project administration; resources; supervision; writing—original draft; writing—review editing. Reyazul Rouf Mir: Nese Sreenivasulu:

Язык: Английский

Enhancement of rice traits for the maintenance of the phosphorus balance between rice plants and the soil DOI Creative Commons

Ian Paul Navea,

Shiyi Yang,

Priskila Tolangi

и другие.

Current Plant Biology, Год журнала: 2024, Номер 38, С. 100332 - 100332

Опубликована: Фев. 25, 2024

Phosphorus (P) is essential for maximizing crop yield, yet many areas dedicated to rice cultivation suffer from a scarcity of plant-accessible inorganic phosphate (Pi) due its fixation in the soil. Conversely, regions with ample P fertilization often resort excessive application compensate deficiencies, resulting adverse environmental impacts. While significant strides have been made understanding molecular mechanisms governing uptake capacity (PUP/PAE) and use efficiency (PUE) rice, their practical implementation breeding impeded by absence robust, high throughput phenomics techniques, leading inconsistencies gene/quantitative trait loci (QTL) effects. This review underscores necessity comprehensive Pi transporters, internal remobilization, root morphology modifications under deficiency, correlating these traits specific phenotypic markers. Developing precise, cost-effective, high-throughput phenotyping techniques imperative creating ideotypes enhanced PAE/PUE. Additionally, we explore potential meta-QTL analysis prioritizing genomic related PUE, utilizing "meta-genome" encompassing diverse reference genomes. We also delve into development phosphite (Phi)-tolerant aiming reduce dependence on fertilizers create herbicide-resistant through Phi-based fertilization. Finally, discuss utilization arbuscular mycorrhizal fungi (AMF) enhance rice.

Язык: Английский

Процитировано

5

Haplotype breeding: fast-track the crop improvements DOI
Vijay Kamal Meena,

R. Thribhuvan,

Vishal Dinkar

и другие.

Planta, Год журнала: 2025, Номер 261(3)

Опубликована: Фев. 1, 2025

Язык: Английский

Процитировано

0

Meta-analysis of QTLs for drought, heat, and salinity tolerance identifies high-confidence MQTLs and candidate genes in chickpea (Cicer arietinum L.) DOI
Shubham Sharma, Jatin Sharma, Shayla Bindra

и другие.

Journal of Biosciences, Год журнала: 2025, Номер 50(2)

Опубликована: Март 22, 2025

Язык: Английский

Процитировано

0

Unveiling molecular mechanisms of Iron and Zinc dynamics in Rice DOI
Anjali Verma, Jebi Sudan, Robinson C. Jose

и другие.

Plant Science, Год журнала: 2025, Номер 357, С. 112543 - 112543

Опубликована: Май 5, 2025

Язык: Английский

Процитировано

0

Meta-QTL analysis reveals the important genomics regions for biotic stresses, nutritional quality and yield related traits in pearl millet DOI Creative Commons

Shreshth Gupta,

Sagar Krushnaji Rangari,

Aakash Sahu

и другие.

CABI Agriculture and Bioscience, Год журнала: 2024, Номер 5(1)

Опубликована: Апрель 8, 2024

Abstract Pearl millet ( Cenchrus americanus ) is the sixth most significant cereal crop cultivated on 30 million ha and a staple diet for 90 poor people across globe. Besides abiotic stresses several biotic have been limiting production of pearl in semi-arid arid regions. Although, Quantitative Trait Loci (QTLs) associated with key diseases like blast, rust downy mildew resistance nutritional content has reported, use these QTLs limited breeding programs. To identify highly stable consensus genomic regions, we conducted Meta-QTL analysis using 191 reported 12 independent studies over last two decades. As result, report 34 Meta-QTLs regions genetic map comprising 692 markers spanning 2070.7 cM. The confidence interval was reduced by 3.63 folds (0.18–7.49 cM), contrast to projected 1.11–60.63 Further, total 1198 genes were identified Among Meta-QTL1.1 found be region importance as it harbours enhanced stress tolerance, plant growth development well related seed development. Meta-QTL2.4 highest number role disease which contains basic leucine zipper domain, zinc family, rich repeat Meta-QTL3.1 ABC transporter activity coupled ATPase Fe Zn uptake leaves root tissues. These can used genomics-assisted enhancing yield traits.

Язык: Английский

Процитировано

3

Deciphering the genetic basis of agronomic, yield, and nutritional traits in rice (Oryza sativa L.) using a saturated GBS-based SNP linkage map DOI Creative Commons

Mark Ian C. Calayugan,

Tapas Kumer Hore,

Alvin D. Palanog

и другие.

Scientific Reports, Год журнала: 2024, Номер 14(1)

Опубликована: Авг. 4, 2024

Developing high-yielding rice varieties that possess favorable agronomic characteristics and enhanced grain Zn content is crucial in ensuring food security addressing nutritional needs. This research employed ICIM, IM, multi-parent population QTL mapping methods to identify important genetic regions associated with traits such as DF, PH, NT, NP, PL, YLD, TGW, GL, GW, Zn, Fe. Two populations of recombinant inbred lines consisting 373 were phenotyped for agronomic, yield micronutrient three seasons at IRRI, genotyped by sequencing. Most the demonstrated moderate high broad-sense heritability. There was a positive relationship between Fe contents. The principal components correlation results revealed significant negative association YLD Zn/Fe. ICIM identified 81 QTLs, while IM detected 36 QTLs across populations. analysis 27 six them consistently seasons. We shortlisted eight candidate genes 19 traits, 26 QTLs. Notable included CL4 d35 dh1 OsIRX10, HDT702, sd1 OsD27 whereas WFP OsIPI1 OsRSR1 OsMTP1 TGW. OsNAS1, OsRZFP34, OsHMP5, OsMTP7, OsC3H33, OsHMA1 promising RILs acceptable potential from each population. major effect our study are useful efficient biofortification rice.

Язык: Английский

Процитировано

3

QTL-Meta-analysis and Candidate Gene(s) for Anaerobic Germination Potential in Rice DOI
Sanchika Snehi, Pawan Kumar Singh, R. Beena

и другие.

Journal of Plant Growth Regulation, Год журнала: 2025, Номер unknown

Опубликована: Янв. 3, 2025

Язык: Английский

Процитировано

0

Dissecting the genetic architecture of polygenic nutritional traits in maize through meta-QTL analysis DOI Creative Commons

Bhupender Kumar,

Shrikant Yankanchi,

Rakhi Singh

и другие.

Food Chemistry Molecular Sciences, Год журнала: 2025, Номер 10, С. 100256 - 100256

Опубликована: Апрель 24, 2025

Maize, as a staple crop, contributes significantly to global nutritional security. However, improving its quality, including grain zinc (GZn), iron (GFe), kernel oil (KO), protein quality (PQ), and content (PC), is difficult due the complex polygenic nature of these traits. In traditional quantitative trait loci (QTLs) mapping, different populations tested across variable environments have resulted in heterogeneous findings, highlighting challenge QTL instability. Therefore, we whether Meta-QTL (MQTL) analysis enables identification stable QTLs with broader allelic coverage higher mapping resolution for effective marker-assisted selection (MAS) A comprehensive literature search revealed 29 studies encompassing 308 targeted total 34 MQTLs were identified, an average CI 4.59 cM. These located on all ten maize chromosomes, phenotypic variance explained (PVE %) ranging from 7.3 % (MQTL1_2) 49.0 (MQTL3_2). Furthermore, six MAS-friendly five hotspot MQTLs. Besides, 591 CGs identified underlying MQTLs, which 14 known roles filling, metal homeostasis, fatty acid biosynthesis maize. silico confirmed tissue-specific expression CGs. MQTL effectively refined genomic regions (4.86 folds) linked findings will be useful developing nutritionally enriched varieties through MAS genetic engineering.

Язык: Английский

Процитировано

0

Breeding Approaches and Modern Tools to Fight Zinc Deficiency in Plants DOI
Vívian Ebeling Viana, Viviane Kopp da Luz, Camila Pegoraro

и другие.

Опубликована: Янв. 1, 2025

Язык: Английский

Процитировано

0

A meta-QTL analysis highlights genomic hotspots associated with phosphorus use efficiency in rice (Oryza sativa L.) DOI Creative Commons

Ian Paul Navea,

Phyu Phyu Maung,

Shiyi Yang

и другие.

Frontiers in Plant Science, Год журнала: 2023, Номер 14

Опубликована: Авг. 18, 2023

Phosphorus use efficiency (PUE) is a complex trait, governed by many minor quantitative trait loci (QTLs) with small effects. Advances in molecular marker technology have led to the identification of QTLs underlying PUE. However, their practical breeding programs remains challenging due unstable effects different genetic backgrounds and environments, interaction soil status, linkage drag. Here, we compiled PUE QTL information from 16 independent studies. A total 192 were subjected meta-QTL (MQTL) analysis projected into high-density SNP consensus map. 60 MQTLs, significantly reduced number initial confidence intervals (CI), identified across rice genome. Candidate gene (CG) mining was carried out for 38 MQTLs supported multiple at least two Genes related amino organic acid transport auxin response found be abundant linked CGs cross validated using root transcriptome database (RiceXPro) haplotype analysis. This eight ( OsARF8, OsSPX-MFS3, OsRING141, OsMIOX, HsfC2b, OsFER2, OsWRKY64 , OsYUCCA11 ) modulating Potential donors superior CG haplotypes through The distribution varied among subspecies being mostly indica but largely scarce japonica . Our study offers an insight on networks that modulate rice. CGs, our are useful combination beneficial alleles

Язык: Английский

Процитировано

5