The genome of Areca catechu provides insights into sex determination of monoecious plants

Sex biased expression of hormone related genes at early stage of sex differentiation in papaya flowers

(2021) Juan Liu et al.   Horticulture Research

Flower-Specific Overproduction of Cytokinins Altered Flower Development and Sex Expression in the Perennial Woody Plant Jatropha curcas L.

(2020) Xin Ming et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The persimmon genome reveals clues to the evolution of a lineage-specific sex determination system in plants

(2020) Takashi Akagi et al.   PLoS Genetics

Pathways to sex determination in plants: how many roads lead to Rome?

(2020) Guanqiao Feng et al.   CURRENT OPINION IN PLANT BIOLOGY

RepeatModeler2 for automated genomic discovery of transposable element families

(2020) Jullien M. Flynn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data

(2020) Chengjie Chen et al.   Molecular Plant

Integrative genome-wide analysis reveals the role of WIP proteins in inhibition of growth and development

(2020) Maria Victoria Gomez Roldan et al.   Communications Biology

Evolutionary Variation in MADS-box Dimerization Affects Floral Development and Protein Abundance in Maize

(2020) Maria Jazmin Abraham-Juarez et al.   PLANT CELL

Comparative transcriptome analysis of male and female flowers in Spinacia oleracea L

(2020) Ning Li et al.   BMC GENOMICS

Genetic and molecular bases of cucumber (Cucumis sativus L.) sex determination

(2019) Magdalena Ewa Pawełkowicz et al.   MOLECULAR BREEDING

How can developmental biology help feed a growing population?

(2019) Scott A. Boden et al.   DEVELOPMENT

Specific chromatin changes mark lateral organ founder cells in the Arabidopsis thaliana inflorescence meristem

(2019) Anneke Frerichs et al.   JOURNAL OF EXPERIMENTAL BOTANY

Tasselseed5 encoding a cytochrome C oxidase affects jasmonate catabolism in sex determination of maize

(2019) Fei Wang et al.   Journal of Integrative Plant Biology

Exogenous Promoter Triggers APETALA3 Silencing through RNA-Directed DNA Methylation Pathway in Arabidopsis

(2019) Benqi Wang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Assembly of chromosome-scale contigs by efficiently resolving repetitive sequences with long reads

(2019) Huilong Du et al.   Nature Communications

The water lily genome and the early evolution of flowering plants

(2019) Liangsheng Zhang et al.   NATURE

A Y-Encoded Suppressor of Feminization Arose via Lineage-Specific Duplication of a Cytokinin Response Regulator in Kiwifruit

(2018) Takashi Akagi et al.   PLANT CELL

First chloroplast genomics study of Phoenix dactylifera (var. Naghal and Khanezi): A comparative analysis

(2018) Abdul Latif Khan et al.   PLoS One

Genus-wide sequencing supports a two-locus model for sex-determination in Phoenix

(2018) Maria F. Torres et al.   Nature Communications

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

The bHLH Transcription Factors MYC2, MYC3, and MYC4 Are Required for Jasmonate-Mediated Inhibition of Flowering in Arabidopsis

(2017) Houping Wang et al.   Molecular Plant

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

Cloning and Functional Analysis of MADS-box Genes, TaAG-A and TaAG-B, from a Wheat K-type Cytoplasmic Male Sterile Line

(2017) Wenlong Yang et al.   Frontiers in Plant Science

The genome draft of coconut (Cocos nucifera)

(2017) Yong Xiao et al.   GigaScience

Pathways for making unisexual flowers and unisexual plants:Moving beyond the “two mutations linked on one chromosome” model

(2016) Susanne S. Renner   AMERICAN JOURNAL OF BOTANY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

(2016) Neva C. Durand et al.   Cell Systems

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

(2015) Guangchuang Yu et al.   BIOINFORMATICS

Recent Y chromosome divergence despite ancient origin of dioecy in poplars (Populus)

(2015) A. Geraldes et al.   MOLECULAR ECOLOGY

A cucurbit androecy gene reveals how unisexual flowers develop and dioecy emerges

(2015) A. Boualem et al.   SCIENCE

De Novo Assembly of Coding Sequences of the Mangrove Palm (Nypa fruticans) Using RNA-Seq and Discovery of Whole-Genome Duplications in the Ancestor of Palms

(2015) Ziwen He et al.   PLoS One

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

A small XY chromosomal region explains sex determination in wild dioecious V. vinifera and the reversal to hermaphroditism in domesticated grapevines

(2014) Sandrine Picq et al.   BMC PLANT BIOLOGY

Rice CYP703A3, a cytochrome P450 hydroxylase, is essential for development of anther cuticle and pollen exine

(2014) Xijia Yang et al.   Journal of Integrative Plant Biology

DYT1 directly regulates the expression ofTDF1for tapetum development and pollen wall formation in Arabidopsis

(2014) Jing-Nan Gu et al.   PLANT JOURNAL

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

A Y-chromosome-encoded small RNA acts as a sex determinant in persimmons

(2014) T. Akagi et al.   SCIENCE

nhmmer: DNA homology search with profile HMMs

(2013) T. J. Wheeler et al.   BIOINFORMATICS

Oil palm genome sequence reveals divergence of interfertile species in Old and New worlds

(2013) Rajinder Singh et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA

(2012) S. E. Wuest et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

De novo genome sequencing and comparative genomics of date palm (Phoenix dactylifera)

(2011) Eman K Al-Dous et al.   NATURE BIOTECHNOLOGY

The Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in Arabidopsis

(2011) S. Song et al.   PLANT CELL

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

A transposon-induced epigenetic change leads to sex determination in melon

(2009) Antoine Martin et al.   NATURE

A Critical Role for the TIFY Motif in Repression of Jasmonate Signaling by a Stabilized Splice Variant of the JASMONATE ZIM-Domain Protein JAZ10 in Arabidopsis

(2009) H. S. Chung et al.   PLANT CELL

Functional conservation and diversification of class E floral homeotic genes in rice (Oryza sativa)

(2009) Rongfeng Cui et al.   PLANT JOURNAL

CYP704B1 Is a Long-Chain Fatty Acid  -Hydroxylase Essential for Sporopollenin Synthesis in Pollen of Arabidopsis

(2009) A. A. Dobritsa et al.   PLANT PHYSIOLOGY

tasselseed1 Is a Lipoxygenase Affecting Jasmonic Acid Signaling in Sex Determination of Maize

(2009) I. F. Acosta et al.   SCIENCE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY