PoplarV1, Main, Exploration, bibRecord, 001B43

Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties.

Identifieur interne : 001B43 ( Main/Exploration ); précédent : 001B42; suivant : 001B44

Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties.

Auteurs : Van L T. Hoang [Australie] ; David J. Innes [Australie] ; P Nicholas Shaw [Australie] ; Gregory R. Monteith [Australie] ; Michael J. Gidley [Australie] ; Ralf G. Dietzgen [Australie]

Source :

BMC genomics [ 1471-2164 ] ; 2015.

RBID : pubmed:26220670

Descripteurs français

English descriptors

KwdEn :
- Acyltransferases (classification), Acyltransferases (genetics), Anacardiaceae (genetics), Anacardiaceae (metabolism), Cytochrome P-450 Enzyme System (classification), Cytochrome P-450 Enzyme System (genetics), Expressed Sequence Tags (MeSH), Flavonoids (biosynthesis), Fruit (genetics), Fruit (metabolism), Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Genetic Variation (MeSH), Mangifera (genetics), Mangifera (metabolism), Phenylalanine Ammonia-Lyase (classification), Phenylalanine Ammonia-Lyase (genetics), Phylogeny (MeSH), Polymorphism, Single Nucleotide (MeSH), Real-Time Polymerase Chain Reaction (MeSH), Trans-Cinnamate 4-Monooxygenase (classification), Trans-Cinnamate 4-Monooxygenase (genetics), Transcriptome (MeSH).
MESH :
- chemical , biosynthesis : Flavonoids.
- chemical , classification : Acyltransferases, Cytochrome P-450 Enzyme System, Phenylalanine Ammonia-Lyase, Trans-Cinnamate 4-Monooxygenase.
- chemical , genetics : Acyltransferases, Cytochrome P-450 Enzyme System, Phenylalanine Ammonia-Lyase, Trans-Cinnamate 4-Monooxygenase.
- genetics : Anacardiaceae, Fruit, Mangifera.
- metabolism : Anacardiaceae, Fruit, Mangifera.
- Expressed Sequence Tags, Gene Expression Regulation, Plant, Genes, Plant, Genetic Variation, Phylogeny, Polymorphism, Single Nucleotide, Real-Time Polymerase Chain Reaction, Transcriptome.

Abstract

BACKGROUND

Mango fruits contain a broad spectrum of phenolic compounds which impart potential health benefits; their biosynthesis is catalysed by enzymes in the phenylpropanoid-flavonoid (PF) pathway. The aim of this study was to reveal the variability in genes involved in the PF pathway in three different mango varieties Mangifera indica L., a member of the family Anacardiaceae: Kensington Pride (KP), Irwin (IW) and Nam Doc Mai (NDM) and to determine associations with gene expression and mango flavonoid profiles.

RESULTS

A close evolutionary relationship between mango genes and those from the woody species poplar of the Salicaceae family (Populus trichocarpa) and grape of the Vitaceae family (Vitis vinifera), was revealed through phylogenetic analysis of PF pathway genes. We discovered 145 SNPs in total within coding sequences with an average frequency of one SNP every 316 bp. Variety IW had the highest SNP frequency (one SNP every 258 bp) while KP and NDM had similar frequencies (one SNP every 369 bp and 360 bp, respectively). The position in the PF pathway appeared to influence the extent of genetic diversity of the encoded enzymes. The entry point enzymes phenylalanine lyase (PAL), cinnamate 4-mono-oxygenase (C4H) and chalcone synthase (CHS) had low levels of SNP diversity in their coding sequences, whereas anthocyanidin reductase (ANR) showed the highest SNP frequency followed by flavonoid 3'-hydroxylase (F3'H). Quantitative PCR revealed characteristic patterns of gene expression that differed between mango peel and flesh, and between varieties.

CONCLUSIONS

The combination of mango expressed sequence tags and availability of well-established reference PF biosynthetic genes from other plant species allowed the identification of coding sequences of genes that may lead to the formation of important flavonoid compounds in mango fruits and facilitated characterisation of single nucleotide polymorphisms between varieties. We discovered an association between the extent of sequence variation and position in the pathway for up-stream genes. The high expression of PAL, C4H and CHS genes in mango peel compared to flesh is associated with high amounts of total phenolic contents in peels, which suggest that these genes have an influence on total flavonoid levels in mango fruit peel and flesh. In addition, the particularly high expression levels of ANR in KP and NDM peels compared to IW peel and the significant accumulation of its product epicatechin gallate (ECG) in those extracts reflects the rate-limiting role of ANR on ECG biosynthesis in mango.

DOI: 10.1186/s12864-015-1784-x
PubMed: 26220670
PubMed Central: PMC4518526

Affiliations:

Australie

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<term>Anacardiaceae (metabolism)</term>
<term>Cytochrome P-450 Enzyme System (classification)</term>
<term>Cytochrome P-450 Enzyme System (genetics)</term>
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<term>Fruit (metabolism)</term>
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<term>Genes, Plant (MeSH)</term>
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<term>Mangifera (metabolism)</term>
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<term>Phenylalanine Ammonia-Lyase (genetics)</term>
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<term>Trans-Cinnamate 4-Monooxygenase (genetics)</term>
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<term>Cytochrome P-450 enzyme system (classification)</term>
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<term>Flavonoïdes (biosynthèse)</term>
<term>Fruit (génétique)</term>
<term>Fruit (métabolisme)</term>
<term>Gènes de plante (MeSH)</term>
<term>Mangifera (génétique)</term>
<term>Mangifera (métabolisme)</term>
<term>Phenylalanine ammonia-lyase (classification)</term>
<term>Phenylalanine ammonia-lyase (génétique)</term>
<term>Phylogenèse (MeSH)</term>
<term>Polymorphisme de nucléotide simple (MeSH)</term>
<term>Réaction de polymérisation en chaine en temps réel (MeSH)</term>
<term>Régulation de l'expression des gènes végétaux (MeSH)</term>
<term>Trans-cinnamate 4-monooxygenase (classification)</term>
<term>Trans-cinnamate 4-monooxygenase (génétique)</term>
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<term>Variation génétique (MeSH)</term>
<term>Étiquettes de séquences exprimées (MeSH)</term>
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<term>Phenylalanine Ammonia-Lyase</term>
<term>Trans-Cinnamate 4-Monooxygenase</term>
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<term>Cytochrome P-450 Enzyme System</term>
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<term>Trans-Cinnamate 4-Monooxygenase</term>
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<term>Cytochrome P-450 enzyme system</term>
<term>Phenylalanine ammonia-lyase</term>
<term>Trans-cinnamate 4-monooxygenase</term>
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<term>Fruit</term>
<term>Mangifera</term>
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<term>Gene Expression Regulation, Plant</term>
<term>Genes, Plant</term>
<term>Genetic Variation</term>
<term>Phylogeny</term>
<term>Polymorphism, Single Nucleotide</term>
<term>Real-Time Polymerase Chain Reaction</term>
<term>Transcriptome</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Gènes de plante</term>
<term>Phylogenèse</term>
<term>Polymorphisme de nucléotide simple</term>
<term>Réaction de polymérisation en chaine en temps réel</term>
<term>Régulation de l'expression des gènes végétaux</term>
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<front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b>
</p>
<p>Mango fruits contain a broad spectrum of phenolic compounds which impart potential health benefits; their biosynthesis is catalysed by enzymes in the phenylpropanoid-flavonoid (PF) pathway. The aim of this study was to reveal the variability in genes involved in the PF pathway in three different mango varieties Mangifera indica L., a member of the family Anacardiaceae: Kensington Pride (KP), Irwin (IW) and Nam Doc Mai (NDM) and to determine associations with gene expression and mango flavonoid profiles.</p>
</div>
<div type="abstract" xml:lang="en"><p><b>RESULTS</b>
</p>
<p>A close evolutionary relationship between mango genes and those from the woody species poplar of the Salicaceae family (Populus trichocarpa) and grape of the Vitaceae family (Vitis vinifera), was revealed through phylogenetic analysis of PF pathway genes. We discovered 145 SNPs in total within coding sequences with an average frequency of one SNP every 316 bp. Variety IW had the highest SNP frequency (one SNP every 258 bp) while KP and NDM had similar frequencies (one SNP every 369 bp and 360 bp, respectively). The position in the PF pathway appeared to influence the extent of genetic diversity of the encoded enzymes. The entry point enzymes phenylalanine lyase (PAL), cinnamate 4-mono-oxygenase (C4H) and chalcone synthase (CHS) had low levels of SNP diversity in their coding sequences, whereas anthocyanidin reductase (ANR) showed the highest SNP frequency followed by flavonoid 3'-hydroxylase (F3'H). Quantitative PCR revealed characteristic patterns of gene expression that differed between mango peel and flesh, and between varieties.</p>
</div>
<div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b>
</p>
<p>The combination of mango expressed sequence tags and availability of well-established reference PF biosynthetic genes from other plant species allowed the identification of coding sequences of genes that may lead to the formation of important flavonoid compounds in mango fruits and facilitated characterisation of single nucleotide polymorphisms between varieties. We discovered an association between the extent of sequence variation and position in the pathway for up-stream genes. The high expression of PAL, C4H and CHS genes in mango peel compared to flesh is associated with high amounts of total phenolic contents in peels, which suggest that these genes have an influence on total flavonoid levels in mango fruit peel and flesh. In addition, the particularly high expression levels of ANR in KP and NDM peels compared to IW peel and the significant accumulation of its product epicatechin gallate (ECG) in those extracts reflects the rate-limiting role of ANR on ECG biosynthesis in mango.</p>
</div>
</front>
</TEI>
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<DateCompleted><Year>2016</Year>
<Month>02</Month>
<Day>25</Day>
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<DateRevised><Year>2019</Year>
<Month>12</Month>
<Day>10</Day>
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<PubDate><Year>2015</Year>
<Month>Jul</Month>
<Day>30</Day>
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<Title>BMC genomics</Title>
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</Journal>
<ArticleTitle>Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties.</ArticleTitle>
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<ELocationID EIdType="doi" ValidYN="Y">10.1186/s12864-015-1784-x</ELocationID>
<Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Mango fruits contain a broad spectrum of phenolic compounds which impart potential health benefits; their biosynthesis is catalysed by enzymes in the phenylpropanoid-flavonoid (PF) pathway. The aim of this study was to reveal the variability in genes involved in the PF pathway in three different mango varieties Mangifera indica L., a member of the family Anacardiaceae: Kensington Pride (KP), Irwin (IW) and Nam Doc Mai (NDM) and to determine associations with gene expression and mango flavonoid profiles.</AbstractText>
<AbstractText Label="RESULTS" NlmCategory="RESULTS">A close evolutionary relationship between mango genes and those from the woody species poplar of the Salicaceae family (Populus trichocarpa) and grape of the Vitaceae family (Vitis vinifera), was revealed through phylogenetic analysis of PF pathway genes. We discovered 145 SNPs in total within coding sequences with an average frequency of one SNP every 316 bp. Variety IW had the highest SNP frequency (one SNP every 258 bp) while KP and NDM had similar frequencies (one SNP every 369 bp and 360 bp, respectively). The position in the PF pathway appeared to influence the extent of genetic diversity of the encoded enzymes. The entry point enzymes phenylalanine lyase (PAL), cinnamate 4-mono-oxygenase (C4H) and chalcone synthase (CHS) had low levels of SNP diversity in their coding sequences, whereas anthocyanidin reductase (ANR) showed the highest SNP frequency followed by flavonoid 3'-hydroxylase (F3'H). Quantitative PCR revealed characteristic patterns of gene expression that differed between mango peel and flesh, and between varieties.</AbstractText>
<AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">The combination of mango expressed sequence tags and availability of well-established reference PF biosynthetic genes from other plant species allowed the identification of coding sequences of genes that may lead to the formation of important flavonoid compounds in mango fruits and facilitated characterisation of single nucleotide polymorphisms between varieties. We discovered an association between the extent of sequence variation and position in the pathway for up-stream genes. The high expression of PAL, C4H and CHS genes in mango peel compared to flesh is associated with high amounts of total phenolic contents in peels, which suggest that these genes have an influence on total flavonoid levels in mango fruit peel and flesh. In addition, the particularly high expression levels of ANR in KP and NDM peels compared to IW peel and the significant accumulation of its product epicatechin gallate (ECG) in those extracts reflects the rate-limiting role of ANR on ECG biosynthesis in mango.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hoang</LastName>
<ForeName>Van L T</ForeName>
<Initials>VL</Initials>
<AffiliationInfo><Affiliation>School of Pharmacy, The University of Queensland, Brisbane, Queensland, Australia. v.hoang2@uq.edu.au.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Centre for Nutrition and Food Sciences, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, Queensland, Australia. v.hoang2@uq.edu.au.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Innes</LastName>
<ForeName>David J</ForeName>
<Initials>DJ</Initials>
<AffiliationInfo><Affiliation>Department of Agriculture and Fisheries, Agri-Science Queensland, Brisbane, Queensland, Australia. David.Innes@daff.qld.gov.au.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Shaw</LastName>
<ForeName>P Nicholas</ForeName>
<Initials>PN</Initials>
<AffiliationInfo><Affiliation>School of Pharmacy, The University of Queensland, Brisbane, Queensland, Australia. n.shaw@uq.edu.au.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Centre for Nutrition and Food Sciences, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, Queensland, Australia. n.shaw@uq.edu.au.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Monteith</LastName>
<ForeName>Gregory R</ForeName>
<Initials>GR</Initials>
<AffiliationInfo><Affiliation>School of Pharmacy, The University of Queensland, Brisbane, Queensland, Australia. greg@pharmacy.uq.edu.au.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Gidley</LastName>
<ForeName>Michael J</ForeName>
<Initials>MJ</Initials>
<AffiliationInfo><Affiliation>Centre for Nutrition and Food Sciences, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, Queensland, Australia. m.gidley@uq.edu.au.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Dietzgen</LastName>
<ForeName>Ralf G</ForeName>
<Initials>RG</Initials>
<AffiliationInfo><Affiliation>School of Pharmacy, The University of Queensland, Brisbane, Queensland, Australia. r.dietzgen@uq.edu.au.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Centre for Nutrition and Food Sciences, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, Queensland, Australia. r.dietzgen@uq.edu.au.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2015</Year>
<Month>07</Month>
<Day>30</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>England</Country>
<MedlineTA>BMC Genomics</MedlineTA>
<NlmUniqueID>100965258</NlmUniqueID>
<ISSNLinking>1471-2164</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D005419">Flavonoids</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>9035-51-2</RegistryNumber>
<NameOfSubstance UI="D003577">Cytochrome P-450 Enzyme System</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 1.14.14.82</RegistryNumber>
<NameOfSubstance UI="C038888">flavonoid 3'-hydroxylase</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 1.14.14.91</RegistryNumber>
<NameOfSubstance UI="D050564">Trans-Cinnamate 4-Monooxygenase</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 2.3.-</RegistryNumber>
<NameOfSubstance UI="D000217">Acyltransferases</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 2.3.1.74</RegistryNumber>
<NameOfSubstance UI="C020141">flavanone synthetase</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 4.3.1.24</RegistryNumber>
<NameOfSubstance UI="D010650">Phenylalanine Ammonia-Lyase</NameOfSubstance>
</Chemical>
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<MeshHeadingList><MeshHeading><DescriptorName UI="D000217" MajorTopicYN="N">Acyltransferases</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
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<MeshHeading><DescriptorName UI="D005638" MajorTopicYN="N">Fruit</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018506" MajorTopicYN="Y">Gene Expression Regulation, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017343" MajorTopicYN="Y">Genes, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014644" MajorTopicYN="Y">Genetic Variation</DescriptorName>
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<MeshHeading><DescriptorName UI="D031022" MajorTopicYN="N">Mangifera</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
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Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties.

Sequence diversity and differential expression of major phenylpropanoid-flavonoid biosynthetic genes among three mango varieties.

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