QTL analysis for the identification of candidate genes controlling phenolic compound accumulation in broccoli (Brassica oleracea L. var. italica)

Gardner, Alicia M.; Brown, Allan; Juvik, John A.

doi:10.1007/s11032-016-0497-4

Cited by 11 publications

(7 citation statements)

References 30 publications

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“…These stable lines will be the foundation for future work in identifying the causative mutation and gene for the white pupae phenotype. As in previous studies which identified candidate genes that govern traits of interest ( Kloosterman et al 2010 ; Ahsan et al 2013 ; Gardner et al 2016 ), whole-genome resequencing and RNA-seq analysis of individuals from this common genetic background segregating for white and wild-type brown pupae will facilitate the characterization of additional candidate genes and mutations involved in the phenotype.…”

Section: Resultsmentioning

confidence: 99%

A Chromosome-Scale Assembly of theBactrocera cucurbitaeGenome Provides Insight to the Genetic Basis ofwhite pupae

Sim

Geib

2017

G3 Genes|Genomes|Genetics

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Genetic sexing strains (GSS) used in sterile insect technique (SIT) programs are textbook examples of how classical Mendelian genetics can be directly implemented in the management of agricultural insect pests. Although the foundation of traditionally developed GSS are single locus, autosomal recessive traits, their genetic basis are largely unknown. With the advent of modern genomic techniques, the genetic basis of sexing traits in GSS can now be further investigated. This study is the first of its kind to integrate traditional genetic techniques with emerging genomics to characterize a GSS using the tephritid fruit fly pest Bactrocera cucurbitae as a model. These techniques include whole-genome sequencing, the development of a mapping population and linkage map, and quantitative trait analysis. The experiment designed to map the genetic sexing trait in B. cucurbitae, white pupae (wp), also enabled the generation of a chromosome-scale genome assembly by integrating the linkage map with the assembly. Quantitative trait loci analysis revealed SNP loci near position 42 MB on chromosome 3 to be tightly linked to wp. Gene annotation and synteny analysis show a near perfect relationship between chromosomes in B. cucurbitae and Muller elements A–E in Drosophila melanogaster. This chromosome-scale genome assembly is complete, has high contiguity, was generated using a minimal input DNA, and will be used to further characterize the genetic mechanisms underlying wp. Knowledge of the genetic basis of genetic sexing traits can be used to improve SIT in this species and expand it to other economically important Diptera.

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Section: Resultsmentioning

confidence: 99%

A Chromosome-Scale Assembly of theBactrocera cucurbitaeGenome Provides Insight to the Genetic Basis ofwhite pupae

Sim

Geib

2017

G3 Genes|Genomes|Genetics

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“…Specific QTLs may be identified for desirable microgreens related traits (shelf life and nutrients content: Fe, Zn) in particular crop on the basis of contrasting parents and corresponding data of Genomics. The Quantitative Trait Loci have been identified for phytoactive compounds, iron, zinc and shelf-life related microgreen traits incabbage ( Wu et al, 2008 ), broccoli ( Gardner et al, 2016 ), wheat ( Krishnappa et al, 2022 ), lettuce ( Hayashi et al, 2012 ), melon ( Dai et al, 2022 )and chickpea ( Mahto et al, 2022 ).…”

Section: Strategies To Overcome Limitations Of Microgreen Productionmentioning

confidence: 99%

Prospects of microgreens as budding living functional food: Breeding and biofortification through OMICS and other approaches for nutritional security

Gupta

Sharma

Singh³

et al. 2023

Front. Genet.

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Nutrient deficiency has resulted in impaired growth and development of the population globally. Microgreens are considered immature greens (required light for photosynthesis and growing medium) and developed from the seeds of vegetables, legumes, herbs, and cereals. These are considered “living superfood/functional food” due to the presence of chlorophyll, beta carotene, lutein, and minerals like magnesium (Mg), Potassium (K), Phosphorus (P), and Calcium (Ca). Microgreens are rich at the nutritional level and contain several phytoactive compounds (carotenoids, phenols, glucosinolates, polysterols) that are helpful for human health on Earth and in space due to their anti-microbial, anti-inflammatory, antioxidant, and anti-carcinogenic properties. Microgreens can be used as plant-based nutritive vegetarian foods that will be fruitful as a nourishing constituent in the food industryfor garnish purposes, complement flavor, texture, and color to salads, soups, flat-breads, pizzas, and sandwiches (substitute to lettuce in tacos, sandwich, burger). Good handling practices may enhance microgreens’stability, storage, and shelf-life under appropriate conditions, including light, temperature, nutrients, humidity, and substrate. Moreover, the substrate may be a nutritive liquid solution (hydroponic system) or solid medium (coco peat, coconut fiber, coir dust and husks, sand, vermicompost, sugarcane filter cake, etc.) based on a variety of microgreens. However integrated multiomics approaches alongwith nutriomics and foodomics may be explored and utilized to identify and breed most potential microgreen genotypes, biofortify including increasing the nutritional content (macro-elements:K, Ca and Mg; oligo-elements: Fe and Zn and antioxidant activity) and microgreens related other traits viz., fast growth, good nutritional values, high germination percentage, and appropriate shelf-life through the implementation of integrated approaches includes genomics, transcriptomics, sequencing-based approaches, molecular breeding, machine learning, nanoparticles, and seed priming strategiesetc.

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“…Brassica is a genus with many beneficial characteristics for our health, such as reducing risk for age related chronical illness, degenerative diseases and it reduces risk of several types of cancer. Brassica contain many vitamins which are essential for our health, such as vitamin A, C, E, K and B-6, carotenoids (such as c-and b-carotene and zeaxanthin), anthocyanins, folate, soluble sugars and phenolic compounds which are known to be the major antioxidants of Brassica crops [1].…”

Section: Brassicaceae Familymentioning

confidence: 99%

An in silico approach for structural and functional analysis of Heavy Metal Associated (HMA) proteins in Brassica oleracea

Šutković

Kekić²,

Ljubijankić³

2016

PEN

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Heavy metal ATPases (HMAs) are the most important proteins involved in heavy metal accumulation process. Brassica oleracea has 5 HMA (1-5) homologues whose 3D structure has been predicted and validated in this study by different bioinformatics tools. Phylogenetic and multiple sequence alignment analyses showed high relationship between HMA2 and HMA4, while two same domains were identified in all five HMA proteins: E1-E2 ATPase and haloacid dehydrogenase (HAD) domain. Four HMA (2-5) proteins were identified to be localized in the plasma membrane, while HMA1 localization is predicted to be in plastid. Interactome analysis revealed high interaction of all HMA (1-5) proteins with many metal ion binding proteins and chaperones. Among these, interesting and strong interaction is observed between all HMA (1-5) proteins and ATX1, while HMA1, HMA2 and HMA4 have been found to strongly interact with FP3 (farnesylated protein 3) and FP6 (farnesylated protein 6) proteins. Docking site predictions and electrostatic potentials between HMA2/HMA4 and the interactome proteins were explained and discussed in this study.

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QTL analysis for the identification of candidate genes controlling phenolic compound accumulation in broccoli (Brassica oleracea L. var. italica)

Cited by 11 publications

References 30 publications

A Chromosome-Scale Assembly of theBactrocera cucurbitaeGenome Provides Insight to the Genetic Basis ofwhite pupae

A Chromosome-Scale Assembly of theBactrocera cucurbitaeGenome Provides Insight to the Genetic Basis ofwhite pupae

Prospects of microgreens as budding living functional food: Breeding and biofortification through OMICS and other approaches for nutritional security

An in silico approach for structural and functional analysis of Heavy Metal Associated (HMA) proteins in Brassica oleracea

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