A genome-wide comparison of genes responsive to autopolyploidy inIsatis indigotica usingArabidopsis thaliana Affymetrix genechips

Lü, Beibei; Pan, Xinzhu; Zhang, Lei; Huang, Beibei; Sun, Lianna; Li, Bin; Yi, Bo; Zheng, Shuiqing; Yu, Xiao-Jing; Ding, Ruxian; Chen, Wansheng

doi:10.1007/bf02914058

Cited by 41 publications

(34 citation statements)

References 24 publications

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“…Similiar phenomena have been reported in autopolyploids of Arabidopsis (Wang et al, 2006), maize (Riddle et al, 2010), I. indigotica (Lu et al, 2006), P. notatum (Martelotto et al, 2005), E. curvula (Cervigni et al, 2008) and potato (S. phureja) (Stupar et al, 2007). Previous researches have confirmed that polyploidization effects were caused by genome doubling itself rather than by colchicines treatment (Lukens et al, 2006;Ozkan et al, 2001).…”

Section: Effect Of Genome Doubling On Gene Expressionmentioning

confidence: 53%

“…For it is a high content in secondary metabolites, tetraploid Isatis indigotica Fort. (Lu et al, 2006), Datura stramonium (Berkov, 2001) and Atropa belladonna (De Jesus-Gonzalez and Weathers, 2003) have been successfully used in medical plant production. It is interesting that tetraploid Zingiber officinale (Sanwal et al, 2010;Shang et al, 2003) and tetraploid Chinese cabbages (Brassica rapa L.) (Liu et al, 2002) possess higher high temperature tolerance than their corresponding diploids.…”

Section: Introductionmentioning

confidence: 99%

“…Recent studies also demonstrated that tetraploid D. zingiberensis possess a higher antioxidant defense system and increased heat tolerance than those of the diploid progenitors (Zhang et al, 2005. Polyploidy often leads genome wide changes in genetic structure, epigenetic patterns and gene expression, which have been observed in Arabidopsis (Beaulieu et al, 2009;Madlung et al, 2002), Brassica (Gaeta et al, 2007;Xu et al, 2009), I. indigotica (Lu et al, 2006), Paspalum notatum (Martelotto et al, 2005), Eragrostis curvula (Cervigni et al, 2008), potato (Solanum phureja) (Stupar et al, 2007) and other polyploids (Doyle et al, 2008;Parisod et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

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Different patterns of transcriptomic response to high temperature between diploid and tetraploid Dioscorea zingiberensis C. H.

Xu¹,

Yang²,

Tian³

et al. 2011

Afr. J. Biotechnol.

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Polyploidy is an important evolutionary force in plants and may have significant impact on plant breeding. In this study, expression changes between diploid and tetraploid Dioscorea zingiberensis C. H. under control and high temperature conditions were investigated by sequence-related amplified polymorphism (SRAP)-cDNA display approach. Up to 2.7% of the expression changes induced by genome doubling were detected in the tetraploid D. zingiberensis relative to its diploid progenitor. Under high temperature stress, a "random transcriptome response" pattern employed with 6.3% of the expression changes were detected in diploid plants, while, an "activation transcriptome response" pattern developed with 6.9% expression changes were detected in tetraploid plants. This result indicated that there might be ploidy dependent pattern of transcriptomic response to high temperature environment, which might contribute to the evolutionary success of polyploids.

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Section: Effect Of Genome Doubling On Gene Expressionmentioning

confidence: 53%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Different patterns of transcriptomic response to high temperature between diploid and tetraploid Dioscorea zingiberensis C. H.

Xu¹,

Yang²,

Tian³

et al. 2011

Afr. J. Biotechnol.

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“…and changes in gene expression between tetraploid and diploid I. indigotica has also been observed by applying microarray analysis (Lu et al 2006).…”

Section: Introductionmentioning

confidence: 94%

Tetraploids Isatis indigotica are more responsive and adaptable to stresses than the diploid progenitor based on changes in expression patterns of a cold inducible Ii CPK1

et al. 2008

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In plants, Ca2+ -dependent protein kinases (CDPKs) are characterized as important sensors of Ca 2+ flux in response to varieties of biotic and abiotic stress. A comprehensive survey of global gene expression performed by using an Arabidopsis thaliana whole genome Affymetrix gene chip revealed that CDPK tends to be significantly higher in tetraploid Isatis indigotica than in diploid ones. To investigate different CDPK expression in response to polyploidy, a full-length cDNA clone (IiCPK1) encoding CDPK was isolated from the traditional Chinese medicinal herb I. indigotica cDNA library. IiCPK1 contains some basic features of CDPKs: a catalytic kinase domain including an ATP-binding domain and four EFhand calcium-binding motifs. Real-time PCR analysis indicated the expression of IiCPK1 from two kinds of I. indigotica (tetraploid and diploid). They both were induced in response to cold stress, but tetraploids I. indigotica which has good fertility, exhibited an enhanced resistance and higher yield, and presented to be more responsive and adaptable. Our results suggest that IiCPK1 gene plays a role in adapting to the environmental stress.

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“…Most results concerning alterations in gene expression after polyploid formation have been obtained from studies in allopolyploids, in which changes to the nuclear environment are more profound than that in autopolyploids (Albertin et al 2006;Adams, 2007). Autopolyploids also display differences in gene expression relative to their diploid progenitors (Lu et al 2006). Although gene expression changes are more extensive in studies of polyploidization, we have only limited information about how the extent of change of haploidization (Wang et al 2011).…”

Section: Introductionmentioning

confidence: 99%

Molecular evidence of the haploid origin in wheat (Triticum aestivumL.) withAegilops kotschyicytoplasm and whole genome expression profiling after haploidization

Wang

Liu

et al. 2015

Cereal Research Communications

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Aegiolops kotschyi cytoplasmic male sterile system often results in part of haploid plants in wheat (Triticum aestivum L.). To elucidate the origin of haploid, 235 wheat microsatellite (SSR) primers were randomly selected and screened for polymorphism between haploid (2n = 3x = 21 ABD) and its parents, male-sterile line YM21 (2n = 6x = 42 AABBDD) and male fertile restorer YM2 (2n = 6x = 42 AABBDD). About 200 SSR markers yielded clear bands from denatured PAGE, of which 180 markers have identifiable amplification patterns, and 20 markers (around 8%) resulted in different amplification products between the haploid and the restorer, YM2. There were no SSR markers that were found to be distinguishable between the haploid and the male sterile line YM21. In addition, different distribution of HMW-GS between endosperm and seedlings from the same seeds further confirmed that the haploid genomes were inherited from the maternal parent. After haploidization, 1.7% and 0.91% of total sites were up-and down-regulated exceeding twofold in the shoot and the root of haploid, respectively, and most of the differentially expressed loci were up/down-regulated about twofold. Out of the sensitive loci in haploid, 94 loci in the shoot, 72 loci in the root can be classified into three functional subdivisions: biological process, cellular component and molecular function, respectively.

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A genome-wide comparison of genes responsive to autopolyploidy inIsatis indigotica usingArabidopsis thaliana Affymetrix genechips

Cited by 41 publications

References 24 publications

Different patterns of transcriptomic response to high temperature between diploid and tetraploid Dioscorea zingiberensis C. H.

Different patterns of transcriptomic response to high temperature between diploid and tetraploid Dioscorea zingiberensis C. H.

Tetraploids Isatis indigotica are more responsive and adaptable to stresses than the diploid progenitor based on changes in expression patterns of a cold inducible Ii CPK1

Molecular evidence of the haploid origin in wheat (Triticum aestivumL.) withAegilops kotschyicytoplasm and whole genome expression profiling after haploidization

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