4.8 Article

Potential contribution of intrinsic developmental stability toward body plan conservation

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

The hourglass model of evolutionary conservation during embryogenesis extends to developmental enhancers with signatures of positive selection

Jialin Liu et al.

Summary: Inter-species comparisons reveal an hourglass expression pattern during embryogenesis, with a higher proportion of conserved enhancers at the phylotypic period. Positive selection is detected on developmental enhancers at early and late stages, with a depletion at the phylotypic period, suggesting positive selection as an evolutionary mechanism underlying the hourglass pattern of animal evolution.

GENOME RESEARCH (2021)

Article Genetics & Heredity

The Evolution of Gene-Specific Transcriptional Noise Is Driven by Selection at the Pathway Level

Gustavo Valadares Barroso et al.

GENETICS (2018)

Article Genetics & Heredity

The Evolution of Gene-Specific Transcriptional Noise Is Driven by Selection at the Pathway Level

Gustavo Valadares Barroso et al.

GENETICS (2018)

Article Multidisciplinary Sciences

Amphioxus functional genomics and the origins of vertebrate gene regulation

Ferdinand Marletaz et al.

NATURE (2018)

Article Multidisciplinary Sciences

Centromere evolution and CpG methylation during vertebrate speciation

Kazuki Ichikawa et al.

NATURE COMMUNICATIONS (2017)

Article Ecology

Constrained vertebrate evolution by pleiotropic genes

Haiyang Hu et al.

NATURE ECOLOGY & EVOLUTION (2017)

Article Cell Biology

Remaining questions related to the hourglass model in vertebrate evolution

Naoki Irie

CURRENT OPINION IN GENETICS & DEVELOPMENT (2017)

Article Biochemical Research Methods

BCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data

Vagheesh Narasimhan et al.

BIOINFORMATICS (2016)

Article Biochemical Research Methods

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

Mihaela Pertea et al.

NATURE PROTOCOLS (2016)

Article Biotechnology & Applied Microbiology

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

Mihaela Pertea et al.

NATURE BIOTECHNOLOGY (2015)

Article Biochemical Research Methods

HISAT: a fast spliced aligner with low memory requirements

Daehwan Kim et al.

NATURE METHODS (2015)

Article Biochemical Research Methods

Trimmomatic: a flexible trimmer for Illumina sequence data

Anthony M. Bolger et al.

BIOINFORMATICS (2014)

Review Developmental Biology

The developmental hourglass model: a predictor of the basic body plan?

Naoki Irie et al.

DEVELOPMENT (2014)

Article Multidisciplinary Sciences

Gene pleiotropy constrains gene expression changes in fish adapted to different thermal conditions

Spiros Papakostas et al.

NATURE COMMUNICATIONS (2014)

Article Biochemical Research Methods

BEDOPS: high-performance genomic feature operations

Shane Neph et al.

BIOINFORMATICS (2012)

Article Biochemical Research Methods

Fast gapped-read alignment with Bowtie 2

Ben Langmead et al.

NATURE METHODS (2012)

Article Ecology

The evolution of early animal embryos: conservation or divergence?

Alex T. Kalinka et al.

TRENDS IN ECOLOGY & EVOLUTION (2012)

Article Biochemical Research Methods

FIMO: scanning for occurrences of a given motif

Charles E. Grant et al.

BIOINFORMATICS (2011)

Review Biochemistry & Molecular Biology

Fluctuation and response in biology

Ben Lehner et al.

CELLULAR AND MOLECULAR LIFE SCIENCES (2011)

Article Multidisciplinary Sciences

Comparative transcriptome analysis reveals vertebrate phylotypic period during organogenesis

Naoki Irie et al.

NATURE COMMUNICATIONS (2011)

Article History & Philosophy Of Science

Phylogenetic inertia and Darwin's higher Law

Timothy Shanahan

STUDIES IN HISTORY AND PHILOSOPHY OF SCIENCE PART C-STUDIES IN HISTORY AND PHILOSOPHY OF BIOLOGICAL AND BIOMEDICAL SCIENCES (2011)

Article Multidisciplinary Sciences

Gene expression divergence recapitulates the developmental hourglass model

Alex T. Kalinka et al.

NATURE (2010)

Article Biochemical Research Methods

The Sequence Alignment/Map format and SAMtools

Heng Li et al.

BIOINFORMATICS (2009)

Article Multidisciplinary Sciences

Genetic properties influencing the evolvability of gene expression

Christian R. Landry et al.

SCIENCE (2007)

Article Multidisciplinary Sciences

Single-cell proteomic analysis of S-cerevisiae reveals the architecture of biological noise

John R. S. Newman et al.

NATURE (2006)

Article Biology

An evolutionary relationship between genetic variation and phenotypic fluctuation

Kunihiko Kaneko et al.

JOURNAL OF THEORETICAL BIOLOGY (2006)

Review Developmental Biology

Stages of normal development in the medaka Oryzias latipes

T Iwamatsu

MECHANISMS OF DEVELOPMENT (2004)

Article Multidisciplinary Sciences

Control of stochasticity in eukaryotic gene expression

JM Raser et al.

SCIENCE (2004)

Article Developmental Biology

Combinatorial Wnt control of zebrafish midbrain-hindbrain boundary formation

GR Buckles et al.

MECHANISMS OF DEVELOPMENT (2004)

Article Multidisciplinary Sciences

On the relation between fluctuation and response in biological systems

K Sato et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Review Ecology

Tempo and mode in evolution: phylogenetic inertia, adaptation and comparative methods

SP Blomberg et al.

JOURNAL OF EVOLUTIONARY BIOLOGY (2002)

Article Multidisciplinary Sciences

Stochastic gene expression in a single cell

MB Elowitz et al.

SCIENCE (2002)

Article Multidisciplinary Sciences

Waddington's canalization revisited: Developmental stability and evolution

ML Siegal et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Article Biochemistry & Molecular Biology

The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research

J Sprague et al.

NUCLEIC ACIDS RESEARCH (2001)