Transcriptome shock in an interspecific F1 triploid hybrid of Oryza revealed by RNA sequencing (Q41131931)

27 September 2017

title

Transcriptome shock in an interspecific F1 triploid hybrid of Oryza revealed by RNA sequencing (English)

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27 September 2017

Chunming Xu

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Silin Zhong

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Ying Wu

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27 September 2017

Yue Sun

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27 September 2017

Xutong Wang

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27 September 2017

Xiuyun Lin

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27 September 2017

Shuai Sun

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27 September 2017

Kun Shen

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27 September 2017

Jie Wang

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27 September 2017

Tingting Jiang

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27 September 2017

Bao Liu

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27 September 2017

publication date

1 April 2015

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Journal of Integrative Plant Biology

27 September 2017

published in

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27 September 2017

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27 September 2017

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27 September 2017

page(s)

150-164

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maintained by WikiProject

27 September 2017

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Hybridization and speciation

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https://api.crossref.org/works/10.1111%2FJIPB.12357

A modified protocol for rapid DNA isolation from plant tissues using cetyltrimethylammonium bromide.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Rapid, repeated, and clustered loss of duplicate genes in allopolyploid plant populations of independent origin.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Transcriptomic shock generates evolutionary novelty in a newly formed, natural allopolyploid plant

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Expression analysis of miRNAs and highly-expressed small RNAs in two rice subspecies and their reciprocal hybrids.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

An interspecific fungal hybrid reveals cross-kingdom rules for allopolyploid gene expression patterns

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

A framework for variation discovery and genotyping using next-generation DNA sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

RNA-seq reveals transcriptomic shock involving transposable elements reactivation in hybrids of young lake whitefish species

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Evolutionary genetics of genome merger and doubling in plants

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Homoeologous recombination in allopolyploids: the polyploid ratchet

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Phylogeny of rice genomes with emphasis on origins of allotetraploid species

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Extensive sex-specific nonadditivity of gene expression in Drosophila melanogaster

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. japonica)

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Homoeolog expression bias and expression level dominance in allopolyploids.

21 January 2018

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https://api.crossref.org/works/10.1111%2FJIPB.12357

Genomic constitution and variation in five partial amphiploids of wheat--Thinopyrum intermedium as revealed by GISH, multicolor GISH and seed storage protein analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Changes to gene expression associated with hybrid speciation in plants: further insights from transcriptomic studies in Senecio

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genomic clues to the evolutionary success of polyploid plants

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Rice interspecies hybrids show precocious or delayed developmental transitions in the endosperm without change to the rate of syncytial nuclear division.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genomic and expression plasticity of polyploidy

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Introgression of genes from Oryza officinalis Well ex Watt to cultivated rice, O. sativa L.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Ancestral polyploidy in seed plants and angiosperms

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The impact of the triploid block on the origin and evolution of polyploid plants.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Developmental timing of DNA elimination following allopolyploidization in wheat.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genome clashes in hybrids: insights from gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Fast and accurate short read alignment with Burrows-Wheeler transform

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The Sequence Alignment/Map format and SAMtools

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Epigenetic phenomena and the evolution of plant allopolyploids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Hybridization as an invasion of the genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Automated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Regulatory divergence in Drosophila revealed by mRNA-seq.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Understanding mechanisms of novel gene expression in polyploids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The map-based sequence of the rice genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genomic expression dominance in allopolyploids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genome-scale transcriptional analyses of first-generation interspecific sunflower hybrids reveals broad regulatory compatibility

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Cis- and trans-regulatory divergence between progenitor species determines gene-expression novelty in Arabidopsis allopolyploids.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Polyploidy and novelty: Gottlieb's legacy

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The role of hybridization in plant speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

A yeast hybrid provides insight into the evolution of gene expression regulation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

The evolutionary significance of ancient genome duplications

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Diversity in the Oryza genus

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genomewide nonadditive gene regulation in Arabidopsis allotetraploids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

A dynamic gene expression atlas covering the entire life cycle of rice.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genome evolution in polyploids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Evolutionary changes in cis and trans gene regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Independent effects of cis- and trans-regulatory variation on gene expression in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Regulatory changes underlying expression differences within and between Drosophila species.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Genome-wide disruption of gene expression in allopolyploids but not hybrids of rice subspecies

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Homoeolog expression bias and expression level dominance in allopolyploid cotton

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. indica)

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

A genome-wide transcription analysis reveals a close correlation of promoter INDEL polymorphism and heterotic gene expression in rice hybrids.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

Persistent whole-chromosome aneuploidy is generally associated with nascent allohexaploid wheat

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

High-throughput illumina strand-specific RNA sequencing library preparation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJIPB.12357

21 January 2018

Identifiers

DOI

10.1111/JIPB.12357

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27 September 2017

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