The genomic architecture of the sex‐determining region and sex‐related metabolic variation in <i>Ginkgo</i><i>biloba</i>

Liao, Qinggang; Du, Ran; Gou, Junbo; Guo, Lvjun; Shen, He; Liu, Hailin; Nguyen, Julie; Ming, Ray; Yin, Tongming; Huang, Sanwen; Yan, Jianbin

doi:10.1111/tpj.15009

Cited by 28 publications

(56 citation statements)

References 64 publications

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“…Combined analysis of transcriptome and proteome provided the basis for the molecular regulation of ovule development in gymnosperms [33], whereas metabolomics combined with potential target prediction, degradome validation, and transcriptome sequencing can expand our knowledge of metabolite profiling and potential functional roles in gymnosperm pollination drops [34]. Transcriptome and metabonomic analysis revealed the metabolic variation in sex differences in Ginkgo biloba L. [35]. Therefore, identification and analysis of L. kaempferi metabolites have become an important topic.…”

Section: Discussionmentioning

confidence: 99%

Metabolome and Transcriptome Association Analysis Reveals Regulation of Flavonoid Biosynthesis by Overexpression of LaMIR166a in Larix kaempferi (Lamb.) Carr

Fan

Zhang

et al. 2020

Forests

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Somatic embryogenesis is an ideal model process for studying early plant development. Embryonic cell lines of Larix kaempferi (Lamb.) Carr overexpressing LaMIR166a were obtained in our previous study. Here, a combination of de novo transcriptomics and extensively targeted metabolomics was used to study the transcriptional profiles and metabolic changes in wild-type and LaMIR166a-overexpressed embryonic cell lines. A total of 459 metabolites were found in the wild-type and transgenic cell lines. Compared to those in the wild-type cell lines, transcripts and metabolites were significantly altered in the LaMIR166a-overexpressed cell lines. Among differentially expressed genes (DEGs), phenylalanine and flavonoid synthesis genes were significantly enriched, and among differentially accumulated metabolites (DAMs), phenolic acids and flavonoids accumulated in particularly high amounts. Thus, the flavonoid biosynthetic pathway seems to be the most abundant pathway in response to LaMIR166a overexpression. Based on the Kyoto Encyclopedia of Genes and Genomes database, the association analysis of metabolome and transcriptome data showed that flavonoid biosynthesis and plant hormone signal transduction processes were significantly changed in miR166a-overexpression lines, suggesting that miR166 might be involved in these processes. The present study identified a number of potential metabolites associated with LaMIR166a overexpression, providing a significant foundation for a better understanding of the regulatory mechanisms underlying miR166.

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Section: Discussionmentioning

confidence: 99%

Metabolome and Transcriptome Association Analysis Reveals Regulation of Flavonoid Biosynthesis by Overexpression of LaMIR166a in Larix kaempferi (Lamb.) Carr

Fan

Zhang

et al. 2020

Forests

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“…The dioecious gymnosperm Ginkgo biloba (Ginkgoaceae) [ 184 ] is a monotypic species. Two recent genomes suggest Ginkgo has an XY system [ 77 , 78 ] that arose ~14 MYA [ 77 ]. The MSY is ~27 Mb, with 241 genes, including 4 MADs-box genes expressed in staminate (male) cones [ 78 ].…”

Section: Advances In Sex-determination Gene Identificationmentioning

confidence: 99%

“…Two recent genomes suggest Ginkgo has an XY system [ 77 , 78 ] that arose ~14 MYA [ 77 ]. The MSY is ~27 Mb, with 241 genes, including 4 MADs-box genes expressed in staminate (male) cones [ 78 ]. Given the clear role MADs-box genes play in flower development in angiosperms [ 185 ], these genes are interesting candidates for sex-determination in Ginkgo as well.…”

Section: Advances In Sex-determination Gene Identificationmentioning

confidence: 99%

The Diversity of Plant Sex Chromosomes Highlighted through Advances in Genome Sequencing

Carey

Harkess

2021

Genes

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For centuries, scientists have been intrigued by the origin of dioecy in plants, characterizing sex-specific development, uncovering cytological differences between the sexes, and developing theoretical models. Through the invention and continued improvements in genomic technologies, we have truly begun to unlock the genetic basis of dioecy in many species. Here we broadly review the advances in research on dioecy and sex chromosomes. We start by first discussing the early works that built the foundation for current studies and the advances in genome sequencing that have facilitated more-recent findings. We next discuss the analyses of sex chromosomes and sex-determination genes uncovered by genome sequencing. We synthesize these results to find some patterns are emerging, such as the role of duplications, the involvement of hormones in sex-determination, and support for the two-locus model for the origin of dioecy. Though across systems, there are also many novel insights into how sex chromosomes evolve, including different sex-determining genes and routes to suppressed recombination. We propose the future of research in plant sex chromosomes should involve interdisciplinary approaches, combining cutting-edge technologies with the classics to unravel the patterns that can be found across the hundreds of independent origins.

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“…The dioecious gymnosperm, Ginkgo biloba (Ginkgoaceae) [148], is a monotypic species. Two recent genomes suggest Ginkgo has an XY system [149,150] that arose ~14 MYA [149]. The MSY is ~27 Mb, with 241 genes, including 4 MADs-box genes expressed in staminate (male) cones [150].…”

Section: Maidenhair Treementioning

confidence: 99%

“…Two recent genomes suggest Ginkgo has an XY system [149,150] that arose ~14 MYA [149]. The MSY is ~27 Mb, with 241 genes, including 4 MADs-box genes expressed in staminate (male) cones [150]. Given the clear role MADs-box genes play in flower development in angiosperms [151], these genes are interesting candidates for sexdetermination in Ginkgo as well.…”

Section: Maidenhair Treementioning

confidence: 99%

The diversity of plant sex chromosomes highlighted through advances in genome sequencing

Carey¹,

Yu²,

Harkess³

2021

Preprint

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For centuries scientists have been intrigued by the origin of dioecy in plants, characterizing sex-specific development, uncovering cytological differences between the sexes, and developing theoretical models. However, through the invention and continued improvements in genomic technologies, we have truly begun to unlock the genetic basis of dioecy in many species. Here we broadly review the advances in research on dioecy and sex chromosomes. We start by first discussing the early works that built the foundation for current studies and the advances in genome sequencing that have facilitated more-recent findings. We next discuss the analyses of sex chromosomes and sex-determination genes uncovered by genome sequencing. We synthesize these results to find some patterns are emerging, such as the role of duplications, the involvement of hormones in sex-determination, and support for the two-locus model for the origin of dioecy. Though across systems, there also many novel insights into how sex chromosomes evolve, including different sex-determining genes and routes to suppressed recombination. We propose the future of research in plant sex chromosomes should involve interdisciplinary approaches, combining cutting-edge technologies with the classics to unravel the patterns that can be found across the hundreds of independent origins.

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The genomic architecture of the sex‐determining region and sex‐related metabolic variation in Ginkgobiloba

Abstract: Ginkgo has unique reference value for studying sex differences and determination in plants. We identified its sex‐determining region and revealed the metabolic variation resulting from the sex differences. The study provides a novel foundation for understanding Ginkgo sexual dimorphism.

Cited by 28 publications

References 64 publications

Metabolome and Transcriptome Association Analysis Reveals Regulation of Flavonoid Biosynthesis by Overexpression of LaMIR166a in Larix kaempferi (Lamb.) Carr

Metabolome and Transcriptome Association Analysis Reveals Regulation of Flavonoid Biosynthesis by Overexpression of LaMIR166a in Larix kaempferi (Lamb.) Carr

The Diversity of Plant Sex Chromosomes Highlighted through Advances in Genome Sequencing

The diversity of plant sex chromosomes highlighted through advances in genome sequencing

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