Comprehensive Analysis of Expressed Sequence Tags from the Pulp of the Red Mutant ‘Cara Cara’ Navel Orange (Citrus sinensis Osbeck)
Identifieur interne : 001C24 ( Main/Exploration ); précédent : 001C23; suivant : 001C25Comprehensive Analysis of Expressed Sequence Tags from the Pulp of the Red Mutant ‘Cara Cara’ Navel Orange (Citrus sinensis Osbeck)
Auteurs : Jun-Li Ye [République populaire de Chine] ; An-Dan Zhu [République populaire de Chine] ; Neng-Guo Tao [République populaire de Chine] ; Qiang Xu [République populaire de Chine] ; Juan Xu [République populaire de Chine] ; Xiu-Xin Deng [République populaire de Chine]Source :
- Journal of Integrative Plant Biology [ 1672-9072 ] ; 2010-10.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Plant Proteins.
- genetics : Citrus sinensis, Fruit.
- metabolism : Citrus sinensis, Expressed Sequence Tags, Fruit.
- Polymorphism, Single Nucleotide.
Abstract
Expressed sequence tag (EST) analysis of the pulp of the red‐fleshed mutant ‘Cara Cara’ navel orange provided a starting point for gene discovery and transcriptome survey during citrus fruit maturation. Interpretation of the EST datasets revealed that the mutant pulp transcriptome held a high section of stress responses related genes, such as the type III metallothionein‐like gene (6.0%), heat shock protein (2.8%), Cu/Zn superoxide dismutase (0.8%), late embryogenesis abundant protein 5 (0.8%), etc. 133 transcripts were detected to be differentially expressed between the red mutant and its orange‐color wild genotype ‘Washington’ via digital expression analysis. Among them, genes involved in metabolism, defense/stress and signal transduction were statistical overrepresented. Fifteen transcription factors, composed of NAM, ATAF, and CUC transcription factor (NAC); myeloblastosis (MYB); myelocytomatosis (MYC); basic helix‐loop‐helix (bHLH); basic leucine zipper (bZIP) domain members, were also included. The data reflected the distinct expression profile and the unique regulatory module associated with these two genotypes. Eight differently expressed genes analyzed in digital were validated by quantitative real‐time polymerase chain reaction. For structural polymorphism, both simple sequence repeats and single nucleotide polymorphisms (SNP) loci were surveyed; dinucleotide presentation revealed a bias toward AG/GA/TC/CT repeats (52.5%), against GC/CG repeats (0%). SNPs analysis found that transitions (73%) outnumbered transversions (27%). Seventeen potential cultivar‐specific and 387 heterozygous SNP loci were detected from ‘Cara Cara’ and ‘Washington’ EST pool.
Url:
DOI: 10.1111/j.1744-7909.2010.00952.x
Affiliations:
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(metabolism)</term><term>Expressed Sequence Tags (metabolism)</term><term>Fruit (genetics)</term><term>Fruit (metabolism)</term><term>Plant Proteins (genetics)</term><term>Polymorphism, Single Nucleotide</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Plant Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Citrus sinensis</term><term>Fruit</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Citrus sinensis</term><term>Expressed Sequence Tags</term><term>Fruit</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Polymorphism, Single Nucleotide</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract">Expressed sequence tag (EST) analysis of the pulp of the red‐fleshed mutant ‘Cara Cara’ navel orange provided a starting point for gene discovery and transcriptome survey during citrus fruit maturation. Interpretation of the EST datasets revealed that the mutant pulp transcriptome held a high section of stress responses related genes, such as the type III metallothionein‐like gene (6.0%), heat shock protein (2.8%), Cu/Zn superoxide dismutase (0.8%), late embryogenesis abundant protein 5 (0.8%), etc. 133 transcripts were detected to be differentially expressed between the red mutant and its orange‐color wild genotype ‘Washington’ via digital expression analysis. Among them, genes involved in metabolism, defense/stress and signal transduction were statistical overrepresented. Fifteen transcription factors, composed of NAM, ATAF, and CUC transcription factor (NAC); myeloblastosis (MYB); myelocytomatosis (MYC); basic helix‐loop‐helix (bHLH); basic leucine zipper (bZIP) domain members, were also included. The data reflected the distinct expression profile and the unique regulatory module associated with these two genotypes. Eight differently expressed genes analyzed in digital were validated by quantitative real‐time polymerase chain reaction. For structural polymorphism, both simple sequence repeats and single nucleotide polymorphisms (SNP) loci were surveyed; dinucleotide presentation revealed a bias toward AG/GA/TC/CT repeats (52.5%), against GC/CG repeats (0%). SNPs analysis found that transitions (73%) outnumbered transversions (27%). Seventeen potential cultivar‐specific and 387 heterozygous SNP loci were detected from ‘Cara Cara’ and ‘Washington’ EST pool.</div></front></TEI><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Ye, Jun I" sort="Ye, Jun I" uniqKey="Ye J" first="Jun-Li" last="Ye">Jun-Li Ye</name></noRegion><name sortKey="Deng, Xiu In" sort="Deng, Xiu In" uniqKey="Deng X" first="Xiu-Xin" last="Deng">Xiu-Xin Deng</name><name sortKey="Tao, Neng Uo" sort="Tao, Neng Uo" uniqKey="Tao N" first="Neng-Guo" last="Tao">Neng-Guo Tao</name><name sortKey="Xu, Juan" sort="Xu, Juan" uniqKey="Xu J" first="Juan" last="Xu">Juan Xu</name><name sortKey="Xu, Qiang" sort="Xu, Qiang" uniqKey="Xu Q" first="Qiang" last="Xu">Qiang Xu</name><name sortKey="Zhu, An An" sort="Zhu, An An" uniqKey="Zhu A" first="An-Dan" last="Zhu">An-Dan Zhu</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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