Winberige

-genome:

This Pan-genome based on 12X (GCF_000003745.3) and only novel contigs and genes described here.

Blast:


	Only single sequence in FASTA format supported.
	Mode:	DNA RNA Protein
	Input:

Reference:

Year	Reads	Contigs	Submitter	Reference
2007		1	France & Italy	Jaillon et al. Jaillon O, Aury J M, Noel B, et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla[J]. nature, 2007, 449(7161): 463-7.
2007		1	Italy	Velasco et al. Velasco R, Zharkikh A, Troggio M, et al. A high quality draft consensus sequence of the genome of a heterozygous grapevine variety[J]. PloS one, 2007, 2(12): e1326.
2013	27		China	Xin et al. Xin H, Zhang J, Zhu W, et al. The effects of artificial selection on sugar metabolism and transporter genes in grape[J]. Tree genetics & genomes, 2013, 9(5): 1343-1349.
2013	1		Italy	Da et al. Da Silva C, Zamperin G, Ferrarini A, et al. The high polyphenol content of grapevine cultivar tannat berries is conferred primarily by genes that are not shared with the reference genome[J]. The Plant Cell, 2013, 25(12): 4777-4788.
2014	1		France	Leonardelli et al. Leonardelli L. Grapevine acidity: SVM tool development and NGS data analyses[J]. 2014.
2015	7	7	USA	Hyma et al. Hyma K E, Barba P, Wang M, et al. Heterozygous mapping strategy (HetMappS) for high resolution genotyping-by-sequencing markers: a case study in grapevine[J]. PloS one, 2015, 10(8): e0134880.
2015	4		USA	Yang et al. Yang Y, Mao L, Jittayasothorn Y, et al. Messenger RNA exchange between scions and rootstocks in grafted grapevines[J]. BMC plant biology, 2015, 15(1): 1-14.
2016		1	Germany	Ochssner et al. Ochssner I, Hausmann L, Töpfer R. Rpv14, a new genetic source for Plasmopara viticola resistance conferred by Vitis cinerea[J]. Vitis, 2016, 55(2): 79-81.
2016	4		Italy	Cardone et al. Cardone M F, D'Addabbo P, Alkan C, et al. Inter‐varietal structural variation in grapevine genomes[J]. The Plant Journal, 2016, 88(4): 648-661.
2016		1	USA	Chin et al. Chin C S, Peluso P, Sedlazeck F J, et al. Phased diploid genome assembly with single-molecule real-time sequencing[J]. Nature methods, 2016, 13(12): 1050-1054.
2016	1		China	Xu et al. Xu Y, Gao Z, Tao J, et al. Genome-wide detection of SNP and SV variations to reveal early ripening-related genes in grape[J]. PloS one, 2016, 11(2): e0147749.
2017	2		China	Yin et al. Yin L, Qu J, Deng S, et al. Phytohormone and genome variations in Vitis amurensis resistant to downy mildew[J]. Genome, 2017, 60(10): 791-796.
2017	24		USA	Zhou et al. Zhou Y, Massonnet M, Sanjak J S, et al. Evolutionary genomics of grape (Vitis vinifera ssp. vinifera) domestication[J]. Proceedings of the National Academy of Sciences, 2017, 114(44): 11715-11720.
2017		4	USA	Tabidze et al. Tabidze V, Pipia I, Gogniashvili M, et al. Whole genome comparative analysis of four Georgian grape cultivars[J]. Molecular Genetics and Genomics, 2017, 292(6): 1377-1389.
2017	2		Spain	Carbonell-Bejerano et al. Carbonell-Bejerano P, Royo C, Torres-Pérez R, et al. Catastrophic unbalanced genome rearrangements cause somatic loss of berry color in grapevine[J]. Plant physiology, 2017, 175(2): 786-801.
2017	9		Italy	Drori et al. Drori E, Rahimi O, Marrano A, et al. Collection and characterization of grapevine genetic resources (Vitis vinifera) in the Holy Land, towards the renewal of ancient winemaking practices[J]. Scientific reports, 2017, 7(1): 1-12.
2017	4		Italy	Marroni et al. Marroni F, Scaglione D, Pinosio S, et al. Reduction of heterozygosity (ROH) as a method to detect mosaic structural variation[J]. Plant biotechnology journal, 2017, 15(7): 791.
2017	3		Italy	Gambino et al. Gambino G, Dal Molin A, Boccacci P, et al. Whole-genome sequencing and SNV genotyping of ‘Nebbiolo’(Vitis vinifera L.) clones[J]. Scientific reports, 2017, 7(1): 1-15.
2017	1		France	Canaguier et al. Canaguier A, Grimplet J, Di Gaspero G, et al. A new version of the grapevine reference genome assembly (12X. v2) and of its annotation (VCost. v3)[J]. Genomics data, 2017, 14: 56.
2017	4		Italy	Mercenaro et al. Mercenaro L, Nieddu G, Porceddu A, et al. Sequence polymorphisms and structural variations among four grapevine (Vitis vinifera L.) cultivars representing Sardinian agriculture[J]. Frontiers in plant science, 2017, 8: 1279.
2018	1		Korea	Developing et al. Developing Useful Genes and Markers for Molecular Breeding System By Omics Analysis in Grapevines (머루 및 포도 비교유전체 연구를 통한 분자육종시스템 구축 및 관련 Omics 통합 DB by 윤해근)
2018		1	Australia	Roach et al. Roach M J, Johnson D L, Bohlmann J, et al. Population sequencing reveals clonal diversity and ancestral inbreeding in the grapevine cultivar Chardonnay[J]. PLoS genetics, 2018, 14(11): e1007807.
2018	1		Italy	Dal et al. Dal Santo S, Zenoni S, Sandri M, et al. Grapevine field experiments reveal the contribution of genotype, the influence of environment and the effect of their interaction (G× E) on the berry transcriptome[J]. The Plant Journal, 2018, 93(6): 1143-1159.
2018	37		France	Laucou et al. Laucou V, Launay A, Bacilieri R, et al. Extended diversity analysis of cultivated grapevine Vitis vinifera with 10K genome-wide SNPs[J]. PloS one, 2018, 13(2): e0192540.
2018		1	USA	Patel et al. Patel S, Lu Z, Jin X, et al. Comparison of three assembly strategies for a heterozygous seedless grapevine genome assembly[J]. BMC genomics, 2018, 19(1): 1-12.
2019		1	USA	Zhou et al. Zhou Y, Minio A, Massonnet M, et al. The population genetics of structural variants in grapevine domestication[J]. Nature plants, 2019, 5(9): 965-979.
2019	8		Italy	Magris et al. Magris G, Di Gaspero G, Marroni F, et al. Genetic, epigenetic and genomic effects on variation of gene expression among grape varieties[J]. The Plant Journal, 2019, 99(5): 895-909.
2019		1	France	Girollet et al. Girollet N, Rubio B, Lopez-Roques C, et al. De novo phased assembly of the Vitis riparia grape genome[J]. Scientific data, 2019, 6(1): 1-8.
2019		1	USA	Minio et al. Minio A, Massonnet M, Figueroa-Balderas R, et al. Diploid genome assembly of the wine grape Carménère[J]. G3: Genes, Genomes, Genetics, 2019, 9(5): 1331-1337.
2019	7		France	Delame et al. Delame M, Prado E, Blanc S, et al. Introgression reshapes recombination distribution in grapevine interspecific hybrids[J]. Theoretical and applied genetics, 2019, 132(4): 1073-1087.
2019	473		China	Liang et al. Liang Z, Duan S, Sheng J, et al. Whole-genome resequencing of 472 Vitis accessions for grapevine diversity and demographic history analyses[J]. Nature communications, 2019, 10(1): 1-12.
2020	25		Korea	Kim et al. Kim M S, Hur Y Y, Kim J H, et al. Genome resequencing, improvement of variant calling, and population genomic analyses provide insights into the seedlessness in the genus vitis[J]. G3: Genes, Genomes, Genetics, 2020, 10(9): 3365-3377.
2020	1		China	Sun et al. Sun L, Li S, Jiang J, et al. New quantitative trait locus (QTLs) and candidate genes associated with the grape berry color trait identified based on a high-density genetic map[J]. BMC Plant Biology, 2020, 20(1): 1-13.
2020	1		Japan	Tanaka et al. Tanaka K, Hamaguchi Y, Suzuki S, et al. Genomic Characterization of the Japanese Indigenous Wine Grape Vitis sp. cv. Koshu[J]. Frontiers in Plant Science, 2020, 11: 1629.
2020		8	USA	Massonnet et al. Massonnet M, Cochetel N, Minio A, et al. The genetic basis of sex determination in grapes[J]. Nature communications, 2020, 11(1): 1-12.
2020	1		Italy	Foria et al. Foria S, Copetti D, Eisenmann B, et al. Gene duplication and transposition of mobile elements drive evolution of the Rpv3 resistance locus in grapevine[J]. The Plant Journal, 2020, 101(3): 529-542.
2020		1	Germany	Holtgräwe et al. Holtgräwe D, Rosleff Soerensen T, Hausmann L, et al. A Partially Phase-Separated Genome Sequence Assembly of the Vitis Rootstock ‘Börner’(Vitis riparia× Vitis cinerea) and Its Exploitation for Marker Development and Targeted Mapping[J]. Frontiers in plant science, 2020, 11: 156.
2020		1	France	Badouin et al. Badouin H, Velt A, Gindraud F, et al. The wild grape genome sequence provides insights into the transition from dioecy to hermaphroditism during grape domestication[J]. Genome biology, 2020, 21(1): 1-24.
2020		1	USA	Vondras et al. Vondras A M, Minio A, Blanco-Ulate B, et al. The genomic diversification of grapevine clones[J]. BMC genomics, 2019, 20(1): 1-19.
2020	2		Portugal	Ramos et al. Ramos M J N, Coito J L, Faísca-Silva D, et al. Portuguese wild grapevine genome re-sequencing (Vitis vinifera sylvestris)[J]. Scientific reports, 2020, 10(1): 1-15.
2020		1	USA	Patel et al. Patel S, Robben M, Fennell A, et al. Draft genome of the Native American cold hardy grapevine Vitis riparia Michx.‘Manitoba 37’[J]. Horticulture research, 2020, 7(1): 1-13.
2020	7	1	USA	Yang et al. Yang Y, Cuenca J, Wang N, et al. A key ‘foxy’aroma gene is regulated by homology-induced promoter indels in the iconic juice grape ‘Concord’[J]. Horticulture research, 2020, 7(1): 1-12.
2021	1		China	Zhong et al. Zhong H, Zhang F, Zhou X, et al. Genome-wide identification of sequence variations and SSR marker development in the Munake grape cultivar[J]. Frontiers in Ecology and Evolution, 2021, 9: 190.
2021	59		Israel	Sivan et al. Sivan A, Rahimi O, Lavi B, et al. Genomic evidence supports an independent history of Levantine and Eurasian grapevines[J]. Plants, People, Planet, 2021.
2021	4		Argentina	Calderón et al. Calderón L, Mauri N, Muñoz C, et al. Whole genome resequencing and custom genotyping unveil clonal lineages in ‘Malbec’grapevines (Vitis vinifera L.)[J]. Scientific reports, 2021, 11(1): 1-11.
2021		1	China	Wang et al. Wang Y, Xin H, Fan P, et al. The genome of Shanputao (Vitis amurensis) provides a new insight into cold tolerance of grapevine[J]. The Plant Journal, 2021, 105(6): 1495-1506.
2021		1	USA	Cochetel et al. Cochetel N, Minio A, Massonnet M, et al. Diploid chromosome-scale assembly of the Muscadinia rotundifolia genome supports chromosome fusion and disease resistance gene expansion during Vitis and Muscadinia divergence[J]. G3, 2021, 11(4): jkab033.
2021		1	USA	Vondras et al. Vondras A M, Lerno L, Massonnet M, et al. Rootstock influences the effect of grapevine leafroll‐associated viruses on berry development and metabolism via abscisic acid signalling[J]. Molecular Plant Pathology, 2021.
2021		1	USA	Zou et al. Zou C, Massonnet M, Minio A, et al. Multiple independent recombinations led to hermaphroditism in grapevine[J]. Proceedings of the National Academy of Sciences, 2021, 118(15).
2022		1	USA	Park et al. Park M, Vera D, Kambrianda D, et al. Chromosome-level genome sequence assembly and genome-wide association study of Muscadinia rotundifolia reveal the genetics of 12 berry-related traits[J]. Horticulture research, 2022, 9.
2022		1	Japan	Shirasawa et al. Shirasawa K, Hirakawa H, Azuma A, et al. De novo whole-genome assembly in an interspecific hybrid table grape,‘Shine Muscat’[J]. DNA Research, 2022, 29(6): dsac040.

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