(Q30993138)

28 June 2017

Widespread and Adaptive Alterations in Genome-Wide Gene Expression Associated with Ecological Divergence of Two Oryza Species (English)

1 reference

28 June 2017

Rong Liu

2

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author name string

Jie Guo

1

1 reference

28 June 2017

Lei Huang

3

1 reference

28 June 2017

Xiao-Ming Zheng

4

1 reference

28 June 2017

Ping-Li Liu

5

1 reference

28 June 2017

Yu-Su Du

6

1 reference

28 June 2017

Zhe Cai

7

1 reference

28 June 2017

Lian Zhou

8

1 reference

28 June 2017

Xing-Hua Wei

9

1 reference

28 June 2017

Fu-Min Zhang

10

1 reference

28 June 2017

Song Ge

11

1 reference

28 June 2017

10 September 2015

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Molecular Biology and Evolution

28 June 2017

1 reference

28 June 2017

33

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28 June 2017

1

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28 June 2017

62-78

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maintained by WikiProject

28 June 2017

1 reference

Improved scoring of functional groups from gene expression data by decorrelating GO graph structure

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

An examination of the measurement properties of the pediatric volitional questionnaire.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Phylogenetic relationships of annual and perennial wild rice: probing by direct DNA sequencing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The major clades of MADS-box genes and their role in the development and evolution of flowering plants.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Sex-specific and lineage-specific alternative splicing in primates

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Gene regulation in primates evolves under tissue-specific selection pressures

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The evolution of gene expression levels in mammalian organs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Gene Regulation for Higher Cells: A Theory

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparison of population genetic structures of common wild rice (Oryza rufipogon Griff.), as revealed by analyses of quantitative traits, allozymes, and RFLPs.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

REEF: searching REgionally Enriched Features in genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Pervasive sex-linked effects on transcription regulation as revealed by expression quantitative trait loci mapping in lake whitefish species pairs (Coregonus sp., Salmonidae)

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Transcriptional regulators and the evolution of plant form.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Intra- and interspecific variation in primate gene expression patterns

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Digital gene expression signatures for maize development.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evaluating the role of natural selection in the evolution of gene regulation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Genome-wide approaches to the study of adaptive gene expression evolution: systematic studies of evolutionary adaptations involving gene expression will allow many fundamental questions in evolutionary biology to be addressed

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evidence for widespread adaptive evolution of gene expression in budding yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Natural selection on gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Expression profiling in primates reveals a rapid evolution of human transcription factors

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Genetic architecture for the adaptive origin of annual wild rice, oryza nivara.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Hard selective sweep and ectopic gene conversion in a gene cluster affording environmental adaptation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Targeted sequence capture and resequencing implies a predominant role of regulatory regions in the divergence of a sympatric lake whitefish species pair (Coregonus clupeaformis).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The locus of evolution: evo devo and the genetics of adaptation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Adaptive gene expression divergence inferred from population genomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparative expression profiling in grape (Vitis vinifera) berries derived from frequency analysis of ESTs and MPSS signatures

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Geographical genomics of human leukocyte gene expression variation in southern Morocco

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The genomic basis of adaptive evolution in threespine sticklebacks

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evolution of the PEBP gene family in plants: functional diversification in seed plant evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evolution of primate gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

A neutral model of transcriptome evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evolution at two levels in humans and chimpanzees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

New insights into the history of rice domestication

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Natural variation in gene expression between wild and weedy populations of Helianthus annuus

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Q(ST)-F(ST) comparisons: evolutionary and ecological insights from genomic heterogeneity.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comprehensive comparative analysis of strand-specific RNA sequencing methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Fast and accurate short read alignment with Burrows-Wheeler transform

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Insights into the role of differential gene expression on the ecological adaptation of the snail Littorina saxatilis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Regulatory divergence in Drosophila revealed by mRNA-seq.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Next-generation tag sequencing for cancer gene expression profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Mapping and quantifying mammalian transcriptomes by RNA-Seq

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Transcriptome population genomics reveals severe bottleneck and domestication cost in the African rice (Oryza glaberrima).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evaluation of different reference based annotation strategies using RNA-Seq - a case study in Drososphila pseudoobscura

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The role of gene expression in ecological speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

A new mathematical model for relative quantification in real-time RT-PCR

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Uncovering evolutionary patterns of gene expression using microarrays

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The Gene Ontology's Reference Genome Project: a unified framework for functional annotation across species

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Genomic islands of divergence are not affected by geography of speciation in sunflowers

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparative functional genomics of the fission yeasts

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The genetic architecture of ecological speciation and the association with signatures of selection in natural lake whitefish (Coregonus sp. Salmonidae) species pairs.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparative studies of gene expression and the evolution of gene regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Genetics and phylogenetics of rice domestication

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evidence for ecological speciation and its alternative

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Transcriptional neoteny in the human brain

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The transcriptomics of life-history trade-offs in whitefish species pairs (Coregonus sp.).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

A test of the neutral model of expression change in natural populations of house mouse subspecies.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Strong control, conservative point estimation and simultaneous conservative consistency of false discovery rates: a unified approach

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Reshaping of the maize transcriptome by domestication.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evolution of transcriptional regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Genomic islands of speciation in Anopheles gambiae

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Natural selection in action during speciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The genetic mosaic suggests a new role for hitchhiking in ecological speciation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Contrasting evolution of expression differences in the testis between species and subspecies of the house mouse.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Decoupled evolution of coding region and mRNA expression patterns after gene duplication: implications for the neutralist-selectionist debate

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

A selection index for gene expression evolution and its application to the divergence between humans and chimpanzees

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Extending the Arabidopsis flowering paradigm to a mass flowering phenomenon in the tropics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Variation within and among species in gene expression: raw material for evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

The phenomics and expression quantitative trait locus mapping of brain transcriptomes regulating adaptive divergence in lake whitefish species pairs (Coregonus sp.).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Evidence for widespread positive and negative selection in coding and conserved noncoding regions of Capsella grandiflora.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Regulatory changes underlying expression differences within and between Drosophila species.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Nucleotide divergence vs. gene expression differentiation: comparative transcriptome sequencing in natural isolates from the carrion crow and its hybrid zone with the hooded crow

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Speciation genetics: current status and evolving approaches.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Organ evolution in angiosperms driven by correlated divergences of gene sequences and expression patterns.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

PAML 4: phylogenetic analysis by maximum likelihood

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Ecological divergence in the presence of gene flow in two closely related Oryza species (Oryza rufipogon and O. nivara).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Multilocus analysis of nucleotide variation of Oryza sativa and its wild relatives: severe bottleneck during domestication of rice

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Adaptive population divergence: markers, QTL and traits

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Comparison of genetic differentiation at marker loci and quantitative traits

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSV196

21 January 2018

Identifiers

DOI

10.1093/MOLBEV/MSV196

1 reference

28 June 2017

1 reference