The pivotal role of small non-coding RNAs in the regulation of seed development

The analysis of Gene Regulatory Networks in plant evo-devo

(2016) Aurélie C. M. Vialette-Guiraud et al.   JOURNAL OF EXPERIMENTAL BOTANY

Over-expression of miR166a inhibits cotyledon formation in somatic embryos and promotes lateral root development in seedlings of Larix leptolepis

(2016) Zhe-Xin Li et al.   PLANT CELL TISSUE AND ORGAN CULTURE

Seed maturation: Simplification of control networks in plants

(2016) Martine Devic et al.   PLANT SCIENCE

DELAY OF GERMINATION1(DOG1) regulates both seed dormancy and flowering time through microRNA pathways

(2016) Heqiang Huo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of microRNAs Actively Involved in Fatty Acid Biosynthesis in Developing Brassica napus Seeds Using High-Throughput Sequencing

(2016) Jia Wang et al.   Frontiers in Plant Science

Identification and expression profiles of sRNAs and their biogenesis and action-related genes in male and female cones of Pinus tabuliformis

(2015) Shi-Hui Niu et al.   BMC GENOMICS

Building a plant: cell fate specification in the early Arabidopsis embryo

(2015) C. A. ten Hove et al.   DEVELOPMENT

The expanding world of small RNAs in plants

(2015) Filipe Borges et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database

(2015) Chih-Hung Chou et al.   NUCLEIC ACIDS RESEARCH

Identification of MicroRNAs and their Targets Associated with Embryo Abortion during Chrysanthemum Cross Breeding via High-Throughput Sequencing

(2015) Fengjiao Zhang et al.   PLoS One

Small RNA and Degradome Sequencing Reveal Complex Roles of miRNAs and Their Targets in Developing Wheat Grains

(2015) Tian Li et al.   PLoS One

Temporal small RNA transcriptome profiling unraveled partitioned miRNA expression in developing maize endosperms between reciprocal crosses

(2015) Mingming Xin et al.   Frontiers in Plant Science

Dynamic parent-of-origin effects on small interfering RNA expression in the developing maize endosperm

(2014) Mingming Xin et al.   BMC PLANT BIOLOGY

Genetic Control of Plant Development by Overriding a Geometric Division Rule

(2014) Saiko Yoshida et al.   DEVELOPMENTAL CELL

MiR397b regulates both lignin content and seed number in Arabidopsis via modulating a laccase involved in lignin biosynthesis

(2014) Cong-Ying Wang et al.   PLANT BIOTECHNOLOGY JOURNAL

An Atlas of Soybean Small RNAs Identifies Phased siRNAs from Hundreds of Coding Genes

(2014) Siwaret Arikit et al.   PLANT CELL

Epigenetic regulation and gene markers as signals of early somatic embryogenesis

(2014) Fatemeh Mahdavi-Darvari et al.   PLANT CELL TISSUE AND ORGAN CULTURE

Global Regulation of Embryonic Patterning in Arabidopsis by MicroRNAs

(2014) W. F. Seefried et al.   PLANT PHYSIOLOGY

Identifying MicroRNAs and Transcript Targets in Jatropha Seeds

(2014) Vanessa Galli et al.   PLoS One

Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs

(2014) Ricardo A. Chávez Montes et al.   Nature Communications

Seed-Development Programs: A Systems Biology–Based Comparison Between Dicots and Monocots

(2013) Nese Sreenivasulu et al.   Annual Review of Plant Biology

Classification and Comparison of Small RNAs from Plants

(2013) Michael J. Axtell   Annual Review of Plant Biology

MicroRNAs and their putative targets in Brassica napus seed maturation

(2013) Daiqing Huang et al.   BMC GENOMICS

Transcription factor and microRNA co-regulatory loops: important regulatory motifs in biological processes and diseases

(2013) H.-M. Zhang et al.   BRIEFINGS IN BIOINFORMATICS

A Protodermal miR394 Signal Defines a Region of Stem Cell Competence in the Arabidopsis Shoot Meristem

(2013) Steffen Knauer et al.   DEVELOPMENTAL CELL

Small RNA and degradome sequencing reveal complex miRNA regulation during cotton somatic embryogenesis

(2013) Xiyan Yang et al.   JOURNAL OF EXPERIMENTAL BOTANY

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

Overexpression of microRNA OsmiR397 improves rice yield by increasing grain size and promoting panicle branching

(2013) Yu-Chan Zhang et al.   NATURE BIOTECHNOLOGY

miRBase: annotating high confidence microRNAs using deep sequencing data

(2013) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

A Comprehensive Expression Analysis of the Arabidopsis MICRORNA165/6 Gene Family during Embryogenesis Reveals a Conserved Role in Meristem Specification and a Non-Cell-Autonomous Function

(2013) Shunsuke Miyashima et al.   PLANT AND CELL PHYSIOLOGY

Regulation of synchronism by abscisic-acid-responsive small noncoding RNAs during somatic embryogenesis in larch (Larix leptolepis)

(2013) Jun-Hong Zhang et al.   PLANT CELL TISSUE AND ORGAN CULTURE

Identification of Direct Targets of FUSCA3, a Key Regulator of Arabidopsis Seed Development

(2013) F. Wang et al.   PLANT PHYSIOLOGY

Identification and Expression Analysis of microRNAs at the Grain Filling Stage in Rice(Oryza sativa L.)via Deep Sequencing

(2013) Rong Yi et al.   PLoS One

Characterization and Expression Patterns of microRNAs Involved in Rice Grain Filling

(2013) Ting Peng et al.   PLoS One

Deep Sequencing of Maize Small RNAs Reveals a Diverse Set of MicroRNA in Dry and Imbibed Seeds

(2013) Detao Li et al.   PLoS One

Deciphering Small Noncoding RNAs during the Transition from Dormant Embryo to Germinated Embryo in Larches (Larix leptolepis)

(2013) Junhong Zhang et al.   PLoS One

Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm

(2013) J. A. Rodrigues et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative profiling of miRNA expression in developing seeds of high linoleic and high oleic safflower (Carthamus tinctorius L.) plants

(2013) Shijiang Cao et al.   Frontiers in Plant Science

Identification of novel MiRNAs and MiRNA expression profiling during grain development in indica rice

(2012) Ying Lan et al.   BMC GENOMICS

Characterization of microRNAs expression during maize seed development

(2012) Mingming Kang et al.   BMC GENOMICS

Identification and characterization of small non-coding RNAs from Chinese fir by high throughput sequencing

(2012) Li-Chuan Wan et al.   BMC PLANT BIOLOGY

Divergent patterns of endogenous small RNA populations from seed and vegetative tissues of Glycine max

(2012) Gracia Zabala et al.   BMC PLANT BIOLOGY

miRNA regulation in the early development of barley seed

(2012) Julien Curaba et al.   BMC PLANT BIOLOGY

Seed Biology in the 21st Century: Perspectives and New Directions

(2012) E. Nambara et al.   PLANT AND CELL PHYSIOLOGY

Dynamic expression of small RNA populations in larch (Larix leptolepis)

(2012) Junhong Zhang et al.   PLANTA

Genome-wide identification of microRNAs in larch and stage-specific modulation of 11 conserved microRNAs and their targets during somatic embryogenesis

(2012) Junhong Zhang et al.   PLANTA

MicroRNA159 Can Act as a Switch or Tuning MicroRNA Independently of Its Abundance in Arabidopsis

(2012) Maria M. Alonso-Peral et al.   PLoS One

Maternal siRNAs as regulators of parental genome imbalance and gene expression in endosperm of Arabidopsis seeds

(2012) J. Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroRNA–Mediated Repression of the Seed Maturation Program during Vegetative Development in Arabidopsis

(2012) Xurong Tang et al.   PLoS Genetics

Transcription factors regulating the progression of monocot and dicot seed development

(2011) Pinky Agarwal et al.   BIOESSAYS

Identification of miRNAs and their target genes in developing soybean seeds by deep sequencing

(2011) Qing-Xin Song et al.   BMC PLANT BIOLOGY

Toward microRNA-mediated gene regulatory networks in plants

(2011) Y. Meng et al.   BRIEFINGS IN BIOINFORMATICS

Arabidopsis Argonaute10 Specifically Sequesters miR166/165 to Regulate Shoot Apical Meristem Development

(2011) Hongliang Zhu et al.   CELL

High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis

(2011) N. W. Breakfield et al.   GENOME RESEARCH

MicroRNAs Regulate the Timing of Embryo Maturation in Arabidopsis

(2011) M. R. Willmann et al.   PLANT PHYSIOLOGY

Small RNA Profiling in Two Brassica napus Cultivars Identifies MicroRNAs with Oil Production- and Development-Correlated Expression and New Small RNA Classes

(2011) Y.-T. Zhao et al.   PLANT PHYSIOLOGY

Construction of MicroRNA- and MicroRNA*-mediated regulatory networks in plants

(2011) Yijun Meng et al.   RNA Biology

A Functional Phylogenomic View of the Seed Plants

(2011) Ernest K. Lee et al.   PLoS Genetics

Functional Motifs in Biochemical Reaction Networks

(2010) John J. Tyson et al.   Annual Review of Physical Chemistry

MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis

(2010) M. D. Nodine et al.   GENES & DEVELOPMENT

DNA Methylation Mediated by a MicroRNA Pathway

(2010) Liang Wu et al.   MOLECULAR CELL

siRNAs from miRNA sites mediate DNA methylation of target genes

(2010) Padmanabhan Chellappan et al.   NUCLEIC ACIDS RESEARCH

MicroRNA Gene Regulation Cascades During Early Stages of Plant Development

(2010) Hiroyuki Nonogaki   PLANT AND CELL PHYSIOLOGY

The role of floral organs in carpels, an Arabidopsis loss-of-function mutation in MicroRNA160a, in organogenesis and the mechanism regulating its expression

(2010) Xiaodong Liu et al.   PLANT JOURNAL

The MicroRNA159-Regulated GAMYB-like Genes Inhibit Growth and Promote Programmed Cell Death in Arabidopsis

(2010) M. M. Alonso-Peral et al.   PLANT PHYSIOLOGY

Stage and tissue-specific modulation of ten conserved miRNAs and their targets during somatic embryogenesis of Valencia sweet orange

(2010) Xiao-Meng Wu et al.   PLANTA

Structure of Arabidopsis HYPONASTIC LEAVES1 and Its Molecular Implications for miRNA Processing

(2010) Seong Wook Yang et al.   STRUCTURE

An engineer's view on regulation of seed development

(2010) Astrid Junker et al.   TRENDS IN PLANT SCIENCE

Small RNAs and Their Roles in Plant Development

(2009) Xuemei Chen   Annual Review of Cell and Developmental Biology

Repression of Apical Homeobox Genes Is Required for Embryonic Root Development in Arabidopsis

(2009) Stephen P. Grigg et al.   CURRENT BIOLOGY

Evolution of the RNA-dependent RNA polymerase (RdRP) genes: Duplications and possible losses before and after the divergence of major eukaryotic groups

(2009) Jie Zong et al.   GENE

Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis

(2009) Rebecca A. Mosher et al.   NATURE

Endogenous, Tissue-Specific Short Interfering RNAs Silence the Chalcone Synthase Gene Family in Glycine max Seed Coats

(2009) J. H. Tuteja et al.   PLANT CELL

Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa

(2008) R. D. Morin et al.   GENOME RESEARCH

Evolution of Arabidopsis MIR genes generates novel microRNA classes

(2008) Franck Vazquez et al.   NUCLEIC ACIDS RESEARCH

The RNA-binding proteins HYL1 and SE promote accurate in vitro processing of pri-miRNA by DCL1

(2008) Z. Dong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Conifers have a unique small RNA silencing signature

(2008) E. V. Dolgosheina et al.   RNA

Gene Regulation by Transcription Factors and MicroRNAs

(2008) O. Hobert   SCIENCE

Plant ARGONAUTES

(2008) Hervé Vaucheret   TRENDS IN PLANT SCIENCE