The relative and absolute frequencies of angiosperm sexual systems: dioecy, monoecy, gynodioecy, and an updated online database, Am J Bot, vol.101, pp.1588-96, 2014. ,
Historical origins and genetic diversity of wine grapes, Trends Genet, vol.22, pp.511-520, 2006. ,
URL : https://hal.archives-ouvertes.fr/hal-02667578
Vitis flower types: from the wild to crop plants, PeerJ, vol.7, p.7879, 2019. ,
Candidate genes within a 143 kb region of the flower sex locus in Vitis, Mol Gen Genomics, vol.287, pp.247-59, 2012. ,
A new version of the grapevine reference genome assembly (12X. v2) and of its annotation (VCost. v3). Genomics data, vol.14, p.56, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01619926
A small XY chromosomal region explains sex determination in wild dioecious V. vinifera and the reversal to hermaphroditism in domesticated grapevines, BMC plant biology, vol.14, p.229, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01190115
Linkage mapping and molecular diversity at the flower sex locus in wild and cultivated grapevine reveal a prominent SSR haplotype in hermaphrodite plants, Mol Biotechnol, vol.54, pp.1031-1038, 2013. ,
Evolutionary genomics of grape (Vitis vinifera ssp. vinifera) domestication, Proc Natl Acad Sci, vol.114, pp.11715-11735, 2017. ,
VviAPRT3 and VviFSEX: two genes involved in sex specification able to distinguish different flower types in Vitis, Front Plant Sci, vol.8, p.98, 2017. ,
Phased diploid genome assembly with single-molecule real-time sequencing, Nat Methods, vol.13, p.1050, 2016. ,
The Rosa genome provides new insights into the domestication of modern roses, Nat Genet, vol.50, pp.772-779, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01798003
The sunflower genome provides insights into oil metabolism, flowering and asterid evolution, Nature, vol.546, pp.148-52, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01603287
Chromosome-scale assemblies of plant genomes using nanopore long reads and optical maps, Nature plants, vol.4, pp.879-87, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01977046
An efficient RNA-seq-based segregation analysis identifies the sex chromosomes of Cannabis sativa, Genome Res, vol.30, pp.164-72, 2020. ,
URL : https://hal.archives-ouvertes.fr/hal-02496865
SEX-DETector: a probabilistic approach to study sex chromosomes in non-model organisms, Genome Biol Evol, vol.8, pp.2530-2573, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-02053627
EuGene: an automated integrative gene finder for eukaryotes and prokaryotes, In Gene Prediction Springer, vol.2019, pp.97-120 ,
URL : https://hal.archives-ouvertes.fr/hal-02790731
RepeatMasker at, Nucleic Acids Res, 2016. ,
SimpleSynteny: a web-based tool for visualization of microsynteny across multiple species, Nucleic Acids Res, vol.44, pp.41-46, 2016. ,
The genomic diversification of grapevine clones, BMC Genomics, vol.20, p.972, 2019. ,
How single molecule real-time sequencing and haplotype phasing have enabled reference-grade diploid genome assembly of wine grapes, Front Plant Sci, vol.8, p.826, 2017. ,
The population genetics of structural variants in grapevine domestication, Nature plants, vol.5, pp.965-79, 2019. ,
Steps in the evolution of heteromorphic sex chromosomes, Heredity, vol.95, pp.118-146, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-00427860
The evolution of restricted recombination in sex chromosomes, Trends Ecol Evol, vol.24, pp.94-102, 2009. ,
The evolution of sex chromosomes and dosage compensation in plants, Genome Biol Evol, vol.9, pp.627-672, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01943816
The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana, Science, vol.327, pp.92-96, 2010. ,
Les populations sauvages et cultivées des Vitis vinifera L. Institut national de la recherche agronomique, 1956. ,
Flower development and sex specification in wild grapevine, BMC Genomics, vol.15, p.1095, 2014. ,
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla, Nature, vol.449, pp.463-470, 2007. ,
URL : https://hal.archives-ouvertes.fr/inria-00180136
Differences in evolution rates among eudicotyledon species observed by analysis of protein divergence, J Hered, vol.104, pp.459-64, 2013. ,
A phylogenetic analysis of the grape genus (Vitis L. ) reveals broad reticulation and concurrent diversification during neogene and quaternary climate change, BMC Evol Biol, vol.13, p.141, 2013. ,
Phylogenomics, biogeography, and adaptive radiation of grapes, Mol Phylogenet Evol, vol.129, pp.258-67, 2018. ,
The genetic basis of sex determination in grapes, Nat Commun, vol.11, p.2902, 2020. ,
Sequencing papaya X and Yh chromosomes reveals molecular basis of incipient sex chromosome evolution, Proc Natl Acad Sci U S A, vol.109, pp.13710-13715, 2012. ,
The genomics of plant sex chromosomes, Plant Sci, vol.236, pp.126-161, 2015. ,
A triptych of the evolution of plant transposable elements, Trends Plant Sci, vol.15, pp.471-479, 2010. ,
Modification of meiotic recombination by natural variation in plants, J Exp Bot, vol.68, pp.5471-83, 2017. ,
The novel plant protein INAPERTURATE POLLEN1 marks distinct cellular domains and controls formation of apertures in the Arabidopsis pollen exine, Plant Cell, vol.24, pp.4452-64, 2012. ,
Pollen aperture factor INP1 acts late in aperture formation by excluding specific membrane domains from exine deposition, Plant Physiol, vol.176, pp.326-365, 2018. ,
Why does some pollen lack apertures? A review of inaperturate pollen in eudicots, Bot J Linn Soc, vol.155, pp.29-48, 2007. ,
INP1 involvement in pollen aperture formation is evolutionarily conserved and may require species-specific partners, J Exp Bot, vol.69, pp.983-96, 2018. ,
A calmodulin-binding protein from Arabidopsis has an essential role in pollen germination, Proc Natl Acad Sci, vol.100, pp.10558-63, 2003. ,
A conserved ethylene biosynthesis enzyme leads to andromonoecy in two Cucumis species, PloS one, vol.4, issue.7, p.6144, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-02663178
Rice APOPTOSIS INHIBITOR5 coupled with two DEAD-box adenosine 5?-triphosphate-dependent RNA helicases regulates tapetum degeneration, Plant Cell, vol.23, pp.1416-1450, 2011. ,
Sex conversion in a male Vitis vinifera L. by a kinin, Science, vol.152, p.1624, 1966. ,
The evolution of sex determination in plants, Evol Dev Biol, vol.2017, pp.1-14 ,
Young sex chromosomes in plants and animals, New Phytol, vol.224, pp.1095-107, 2019. ,
A model for the evolution of dioecy and gynodioecy, Amer Nat, vol.112, pp.975-97, 1978. ,
Pathways for making unisexual flowers and unisexual plants: moving beyond the "two mutations linked on one chromosome" model, Am J Bot, vol.103, pp.587-596, 2016. ,
Repeated translocation of a gene cassette drives sex-chromosome turnover in strawberries, PLoS Biol, vol.16, p.2006062, 2018. ,
The asparagus genome sheds light on the origin and evolution of a young Y chromosome, Nat Commun, vol.8, pp.1-10, 2017. ,
Genus-wide sequencing supports a two-locus model for sex-determination in Phoenix, Nat Commun, vol.9, pp.1-9, 2018. ,
Two Y-chromosome-encoded genes determine sex in kiwifruit, Nature Plants, vol.5, pp.801-810, 2019. ,
A Y-chromosome-encoded small RNA acts as a sex determinant in persimmons, Science, vol.346, pp.646-50, 2014. ,
Epigenetic regulation of the sex determination gene MeGI in polyploid persimmon, Plant Cell, vol.28, pp.2905-2920, 2016. ,
Gene networks orchestrated by Me GI: a single-factor mechanism underlying sex determination in persimmon, Plant J, vol.98, pp.97-111, 2019. ,
A cucurbit androecy gene reveals how unisexual flowers develop and dioecy emerges, Science, vol.350, pp.688-91, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-02636940
A transposoninduced epigenetic change leads to sex determination in melon, Nature, vol.461, pp.1135-1143, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-01203855
On the rarity of dioecy in flowering plants, Mol Ecol, vol.26, pp.1225-1266, 2017. ,
Inconstant males' and the maintenance of labile sex expression in subdioecious plants, New Phytol, vol.174, pp.194-211, 2007. ,
URL : https://hal.archives-ouvertes.fr/hal-02664793
Studies on sex conversion in male Vitis vinifera L.(sylvestris), Vitis, vol.9, pp.89-96, 1970. ,
Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, pp.1754-60, 2009. ,
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs, Bioinformatics, vol.31, pp.3210-3212, 2015. ,
Population sequencing reveals clonal diversity and ancestral inbreeding in the grapevine cultivar Chardonnay, PLoS Genet, vol.14, p.1007807, 2018. ,
Construction of plant bacterial artificial chromosome (BAC) libraries: an illustrated guide, J Agric Genomics, vol.5, pp.1-100, 2000. ,
Suppressed recombination and unique candidate genes in the divergent haplotype encoding Fhb1, a major Fusarium head blight resistance locus in wheat, Theor Appl Genet, vol.129, pp.1607-1630, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-02631826
Quality control and preprocessing of metagenomic datasets, Bioinformatics, vol.27, pp.863-867, 2011. ,
Identification and removal of ribosomal RNA sequences from metatranscriptomes, Bioinformatics, vol.28, pp.433-438, 2012. ,
STAR: ultrafast universal RNA-seq aligner, Bioinformatics, vol.29, pp.15-21, 2013. ,
Fulllength transcriptome assembly from RNA-Seq data without a reference genome, Nat Biotechnol, vol.29, p.644, 2011. ,
GMAP: a genomic mapping and alignment program for mRNA and EST sequences, Bioinformatics, vol.21, pp.1859-75, 2005. ,
The sequence alignment/map format and SAMtools, Bioinformatics, vol.25, pp.2078-2087, 2009. ,
VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing, Genome Res, vol.22, pp.568-76, 2012. ,
PAML 4: Phylogenetic Analysis by Maximum Likelihood, Mol Biol Evol, vol.24, pp.1586-91, 2007. ,
Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale, BMC Bioinformatics, vol.16, p.227, 2015. ,
Circos: an information aesthetic for comparative genomics, Genome Res, vol.19, pp.1639-1684, 2009. ,
MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization, Brief Bioinform, vol.20, pp.1160-1166, 2019. ,
HTSeq-a Python framework to work with high-throughput sequencing data, Bioinformatics, vol.31, pp.166-175, 2015. ,
BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol.26, pp.841-843, 2010. ,
,
, Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification, Bioinformatics, vol.21, pp.650-659, 2005.
R: a language and environment for statistical computing, 2013. ,
adegenet: a R package for the multivariate analysis of genetic markers, Bioinformatics, vol.24, pp.1403-1408, 2008. ,
URL : https://hal.archives-ouvertes.fr/hal-00428105
Raw and processed sequence data for Sylvestris C1-2 genome assembly, annotation and identification of the sex-determining region. European Nucleotide Archive, 2020. ,
SEX-DETector++: an ultrafast version of SEX-DETector for studying sex chromosomes with genomic data, Github, 2020. ,
Sex detector ++ source code, Zenodo, 2020. ,
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