The subgenome Saccharum spontaneum contributes to sugar accumulation in sugarcane as revealed by full-length transcriptomic analysis

Zhao, Jihan; Li, Sicheng; Xu, Yuzhi; Ahmad, Nazir; Kuang, Bowen; Feng, Mengfan; Ni, Wei; Yang, Xiping

doi:10.1016/j.jare.2023.02.001

Cited by 3 publications

(6 citation statements)

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“…We used all mapped clean reads from a previous RNA sequencing analysis of sugar cane hybrids with contrasting sugar content to estimate their expression levels. 71 We found that all alleles of the gene in the high sugar content sugar cane hybrids were more highly expressed in the stems, and the alleles of Sspon.02G0014680-1A and Sspon.02G0014680-2B were more highly expressed in the ■ DISCUSSION Sugar cane is a major sugar and energy crop globally. However, the conventional breeding process is limited by the frequent use of a few ancestral accessions or intermediate hybrids, leading to a narrow genetic background in modern sugar cane varieties, which is associated with several problems, such as extremely limited yield and sugar content improvement, poor ratoonability, and disease susceptibility.…”

Section: ■ Materials and Methodsmentioning

confidence: 62%

“…The gene structure analysis showed that these alleles were conserved (Figure A). We used all mapped clean reads from a previous RNA sequencing analysis of sugarcane hybrids with contrasting sugar content to estimate their expression levels . We found that all alleles of the gene in the high sugar content sugarcane hybrids were more highly expressed in the stems, and the alleles of Sspon.02G0014680-1A and Sspon.02G0014680-2B were more highly expressed in the leaf (Figure B,C).…”

Section: Resultsmentioning

confidence: 98%

“…70 Transcriptome sequencing data of sugarcane hybrids with contrasting sugar contents, developed in our laboratory, were used to estimate candidate gene expression levels. 71 GT04-120 and male parent (GXASF 1 08-2-37), demonstrated the best overall performance. AS15-48 exhibited an average yield and BR of 123.15 t ha −1 and 24.30%, respectively, over the 3 years period, surpassing the performance of its female parent, GT04-120, which had a yield of 98 t ha −1 and a BR value of 21.37%.…”

Section: ■ Materials and Methodsmentioning

confidence: 99%

“…Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathway analysis was performed to predict the biological function of the candidate genes, and all the markers located in the genes and the annotation information on the gene were obtained . Transcriptome sequencing data of sugar cane hybrids with contrasting sugar contents, developed in our laboratory, were used to estimate candidate gene expression levels …”

Section: Materials and Methodsmentioning

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: ■ Materials and Methodsmentioning

confidence: 62%

Section: Resultsmentioning

confidence: 98%

Section: ■ Materials and Methodsmentioning

confidence: 99%

Section: Materials and Methodsmentioning

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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“…Transcriptome sequencing is an important means to systematically analyze the correlation between the physiological and biochemical mechanisms and biomolecular functions of fruit trees in response to stress as well as in regulating fruit quality [15][16][17][18]. Zhike Zhang [15] identified and analyzed the genes related to glucose metabolism of 'red crystal' in Pitaya fruit based on transcriptome data.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome Analyses Reveal the Mechanism of Changes in the Sugar Constituents of Jujube Fruits under Saline–Alkali Stress

Wang,

Feng,

Yan

et al. 2023

Agronomy

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Saline–alkali stress is an important environmental factor affecting the growth and development of plants. Plants affected by saline–alkali stress can mitigate the damage by regulating the content of osmoregulatory substances such as soluble sugars. Elucidating the regulatory mechanism of the changes in sugar fractions in jujube fruits under saline–alkali stress is crucial for the development of the jujube fruit industry in saline areas. In this study, we investigated the effects of saline–alkali stress on the development and sugar contents of jujube fruits by subjecting jujube trees to low- and high-saline–alkali stress treatments. The result showed that low saline–alkali stress increased the content of each sugar component and total sugar, whereas high saline–alkali stress suppressed their contents. In the early developmental stage, the fruit mainly accumulated fructose and glucose, whereas in the late stage, it accumulated mainly sucrose. We screened various genes, namely trehalose 6-phosphate phosphatase gene (LOC107418410), α-amylase gene (LOC107428855), α-glucosidase gene (LOC107418468), sucrose synthase gene (LOC107416188), and β-amylase gene (LOC107430415, LOC107406235), all of which were highly correlated with sucrose content in saline–alkali stress, indicating that the starch and sucrose metabolic pathways of jujube fruit are the key pathways regulating sugar accumulation in response to saline–alkali stress. To summarize, this study provides a system-level perspective on the dynamic transcriptional regulation of jujube fruits under saline–alkali stress. Additionally, the study preliminarily screened key differentially expressed genes that affect sugar accumulation in response to saline–alkali stress, providing a theoretical basis for the scientific regulation of jujube fruit quality.

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Current perspectives on the regulatory mechanisms of sucrose accumulation in sugarcane

Mehdi,

Galani,

Wickramasinghe

et al. 2024

Heliyon

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The subgenome Saccharum spontaneum contributes to sugar accumulation in sugarcane as revealed by full-length transcriptomic analysis

Cited by 3 publications

References 56 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

Transcriptome Analyses Reveal the Mechanism of Changes in the Sugar Constituents of Jujube Fruits under Saline–Alkali Stress

Current perspectives on the regulatory mechanisms of sucrose accumulation in sugarcane

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