Identification of potential MTAs and candidate genes for juice quality- and yield-related traits in Saccharum clones: a genome-wide association and comparative genomic study

Senthilkumar, Shanmugavel; Vinod, K. K.; Parthiban, S.; Thirugnanasambandam, Prathima P.; Pathy, T. Lakshmi; Banerjee, Nandita; Padmanabhan, T. S.; Govindaraj, P.

doi:10.1007/s00438-022-01870-w

Cited by 3 publications

(4 citation statements)

References 97 publications

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“…Auxin, represented as indole-3 acetic acid (IAA), is well-known as a plant growth hormone . In this work, spon.02G0028240-1A , encoding auxilin-related protein, was associated with BR, additionally, an auxin response factor was also identified to be associated with sugar cane juice quality, further highlighting their significance in regulating yield and sugar-related traits.…”

Section: Discussionmentioning

confidence: 70%

“…The identification of genes controlling yield-related traits is a crucial step in improving sugar cane yield through genomic modification. By GWAS and comparative genomic study on 110 diverse sugar cane genotypes, several genes associated with sugar cane juice quality- and yield-related traits were identified, including starch branching enzyme, starch synthase 4, sugar transporters and glyceraldehyde-3-phosphate dehydrogenase, ethylene insensitive 3-like 1, auxin response factor . In this work, 514 candidate genes were identified, and 35 of them were in stable QTL intervals and were further annotated.…”

Section: Discussionmentioning

confidence: 94%

“…By GWAS and comparative genomic study on 110 diverse sugar cane genotypes, several genes associated with sugar cane juice quality-and yield-related traits were identified, including starch branching enzyme, starch synthase 4, sugar transporters and glyceraldehyde-3-phosphate dehydrogenase, ethylene insensitive 3-like 1, auxin response factor. 39 In this work, 514 candidate genes were identified, and 35 of them were in stable QTL intervals and were further annotated. Ten genes related to BR were annotated in the pentose phosphate pathway, galactose metabolism, fructose and mannose metabolism, RNA degradation, glycolysis/gluconeogenesis, biosynthesis of amino acids, and carbon metabolism.…”

Section: ■ Materials and Methodsmentioning

confidence: 99%

“…Yang et al identified 106 DNA markers and 107 genes associated with 10 fiber components. Other studies have also reported GWAS investigations on the identification of genetic loci for disease resistance, − leaf angle, and economic traits − in sugar cane. However, most of the current GWAS analyses in sugar cane have primarily been conducted on the species S.…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Association Study Unravels Quantitative Trait Loci and Genes Associated with Yield-Related Traits in Sugarcane

Zhang,

Huang,

Zhang

et al. 2023

J. Agric. Food Chem.

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Sugarcane, a major sugar and energy crop worldwide faces an increasing demand for higher yields. Identifying yieldrelated markers and candidate genes is valuable for breeding high-yield varieties using molecular techniques. In this work, seven yield-related traits were evaluated in a diversity panel of 159 genotypes, derived from Tripidium arundinaceum, Saccharum spontaneum, and modern sugarcane genotypes. All traits exhibited significant genetic variance with high heritability and high correlations. Genetic diversity analysis reveals a genomic decay of 23 kb and an average single nucleotide polymorphism (SNP) number of 25,429 per genotype. These 159 genotypes were divided into 4 subgroups. Genome-wide association analysis identified 47 SNPs associated with brix, spanning 36 quantitative trait loci (QTLs), and 138 SNPs for other traits across 104 QTLs, covering all 32 chromosomes. Interestingly, 12 stable QTLs associated with yield-related traits were identified, which contained 35 candidate genes. This work provides markers and candidate genes for marker-assisted breeding to improve sugarcane yields.

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Section: Discussionmentioning

confidence: 70%

Section: Discussionmentioning

confidence: 94%

Section: ■ Materials and Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Genome-Wide Association Study Unravels Quantitative Trait Loci and Genes Associated with Yield-Related Traits in Sugarcane

Zhang,

Huang,

Zhang

et al. 2023

J. Agric. Food Chem.

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Combination of GWAS and FST-based approaches identified loci associated with economic traits in sugarcane

Wang,

Yeo,

Lee

et al. 2023

Mol Genet Genomics

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An overview of genome-wide association mapping studies in Poaceae species (model crops: wheat and rice)

et al. 2022

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There is a signi cant interest while utilizing association mapping technique to determine the genes which are accountable for numerical dissimilarity of the more complex characteristics with agronomic and evolutionary signi cance. Recently improvements have been made in genomic technology, which motivates for the exploitation of natural diversity, and establishment of more vigorous and strong statistical analysis methods creates association mapping technique more demanding and reasonable to plant research programs. Genome-wide association mapping technique recognizes quantitative trait loci (QTLs) by studying the marker-trait associations which could be credited to the power of linkage disequilibrium between different molecular markers and functional polymorphisms through a pool of diversi ed germplasm. In this review, we will describe an overview of genetic mapping and the current status of association mapping studies in cereal crops i.e., wheat and rice.

show abstract

Identification of potential MTAs and candidate genes for juice quality- and yield-related traits in Saccharum clones: a genome-wide association and comparative genomic study

Cited by 3 publications

References 97 publications

Genome-Wide Association Study Unravels Quantitative Trait Loci and Genes Associated with Yield-Related Traits in Sugarcane

Genome-Wide Association Study Unravels Quantitative Trait Loci and Genes Associated with Yield-Related Traits in Sugarcane

Combination of GWAS and FST-based approaches identified loci associated with economic traits in sugarcane

An overview of genome-wide association mapping studies in Poaceae species (model crops: wheat and rice)

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