Development of Intron Polymorphism Markers and Their Association With Fatty Acid Component Variation in Oil Palm

Li, Jing; Yang, Yaodong; Sun, Xuan; Li, Rui; Xia, Wei; Shi, Peng; Zhou, Lixia; Wang, Yong; Wu, Yi; Lei, Xintao; Xiao, Yong

doi:10.3389/fpls.2022.885418

Cited by 4 publications

(3 citation statements)

References 40 publications

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“…Intron-based genomic variation can be used for molecular marker development. In the past decade, several studies on plant species have highlighted the utility of Intron Length Polymorphism (ILP) markers as valuable tools in molecular genetics, similar to other markers like SSRs and SNPs [48,49]. However, ILP markers offer distinct advantages, being locus-specific, codominant, and facilitating the accurate detection of heterozygosity.…”

Section: Discussionmentioning

confidence: 99%

The Musa Marker Database: A Comprehensive Genomic Resource for the Improvement of the Musaceae Family

Biswas,

et al. 2024

Agronomy

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Molecular markers, including Simple Sequence Repeat (SSR), Single Nucleotide Polymorphism (SNP), and Intron Length Polymorphism (ILP), are widely utilized in crop improvement and population genetics studies. However, these marker resources remain insufficient for Musa species. In this study, we developed genome-wide SSR, SNP, and ILP markers from Musa and its sister species, creating a comprehensive molecular marker repository for the improvement of Musa species. This database contains 2,115,474 SSR, 63,588 SNP, and 91,547 ILP markers developed from thirteen Musa species and two of its relative species. We found that 77% of the SSR loci are suitable for marker development; 38% of SNP markers originated from the genic region, and transition mutations (C↔T; A↔G) were more frequent than transversion. The database is freely accessible and follows a ‘three-tier architecture,’ organizing marker information in MySQL tables. It has a user-friendly interface, written in JavaScript, PHP, and HTML code. Users can employ flexible search parameters, including marker location in the chromosome, transferability, polymorphism, and functional annotation, among others. These distinctive features distinguish the Musa Marker Database (MMdb) from existing marker databases by offering a novel approach that is tailored to the precise needs of the Musa research community. Despite being an in silico method, searching for markers based on various attributes holds promise for Musa research. These markers serve various purposes, including germplasm characterization, gene discovery, population structure analysis, and QTL mapping.

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Section: Discussionmentioning

confidence: 99%

The Musa Marker Database: A Comprehensive Genomic Resource for the Improvement of the Musaceae Family

Biswas,

et al. 2024

Agronomy

View full text Add to dashboard Cite

show abstract

“…Intron-based genomic variation can be used for molecular marker development. In the past decade, several studies on plant species have highlighted the utility of Intron Length Polymorphism (ILP) markers as valuable tools in molecular genetics, similar to other markers like SSRs and SNPs [48,49]. However, ILP markers offer distinct advantages, being locusspecific, co-dominant, and facilitating the accurate detection of heterozygosity.…”

Section: Discussionmentioning

confidence: 99%

The Musa Marker Database: a Comprehensive Genomic Resource for the Improvement of the Musaceae Family

Biswas,

et al. 2024

Preprint

View full text Add to dashboard Cite

Molecular markers, including Simple Sequence Repeat (SSR), Single Nucleotide Polymorphism (SNP), and Intron Length Polymorphism (ILP), are widely utilized in crop improvement and population genetics studies. However, these marker resources remain insufficient for Musa species. In this study, we developed genome-wide SSR, SNP, and ILP markers from Musa and its sister species, creating a comprehensive molecular marker repository for the improvement of Musa species. This database contains 2115474 SSR, 63588 SNP, and 91547 ILP markers developed from thirteen Musa species and two of its relative species. We found that 77% of the SSR loci are suitable for marker development; 38% of SNP markers originated from the genic region, and transition mutations (C↔T; A↔G) were more frequent than transversion. The database is freely accessible and follows a ‘three-tier architecture,’ organizing marker information in MySQL tables. It has a user-friendly interface, written in JavaScript, PHP, and HTML code. Users can employ flexible search parameters, including marker location in the chromosome, transferability, polymorphism, and functional annotation, among others. These distinctive features distinguish the Musa Marker Database (MMdb) from existing marker databases by offering a novel approach that is tailored to the precise needs of the Musa research community. Despite being an in silico method, searching for markers based on various attributes holds promise for Musa research. These markers serve various purposes, including germplasm characterization, gene discovery, population structure analysis, and QTL mapping.

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“…It is well known that vegetable oil is a basic pillar of the daily diet. For health reasons, most people concentrate on healthy oil (Wang et al, 2021;Li et al, 2022). Vegetable oil is indispensable in daily life, and its nutritional value is different because of its lipid type and content (Mikolajczak et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

Study on the lipid and flavor compounds of Hibiscus manihot L. oil induced by different pressing method

Yan

Yang

Chen

et al. 2023

Front. Sustain. Food Syst.

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Hibiscus manihot L. seed oil is an emerging high-value edible vegetable oil that also has a variety of important health functions, and concerns about its pressing method have great significance for commercial and consumer health. This study compared triacylglycerols (TAGs), diacylglycerol (DAG), free fatty acids (FFAs), and volatile flavor compounds for discriminating cold-pressed oil from hot-pressed oil. The profiles of TAGs, DAGs, FFAs, and flavor compounds were established by a lipidomic approach and electronic-nose (E-nose). Our results demonstrated that a slight decrease in TAG content and a significant increase in FFA and DAG contents were observed after roasting. The E-nose results showed that sulfides, terpenes, methane, compounds containing oxygen and nitrogen, alcohol and aromatic compounds greatly influenced the oil flavor. The PCA result of the E-nose data indicated that flavor compounds showed great promise for distinguishing the two samples. The quality indices and the oxidative stability of oil samples were detected to identify their nutritional value and edible quality. This study revealed that roasting greatly influenced the lipid and flavor substances of the Hibiscus manihot L. seed oil. Our findings could provide useful information on the impact of the pressing method for Hibiscus manihot L. seed oil.

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Development of Intron Polymorphism Markers and Their Association With Fatty Acid Component Variation in Oil Palm

Cited by 4 publications

References 40 publications

The Musa Marker Database: A Comprehensive Genomic Resource for the Improvement of the Musaceae Family

The Musa Marker Database: A Comprehensive Genomic Resource for the Improvement of the Musaceae Family

The Musa Marker Database: a Comprehensive Genomic Resource for the Improvement of the Musaceae Family

Study on the lipid and flavor compounds of Hibiscus manihot L. oil induced by different pressing method

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