Gene_locus Report for: vitvi-a5ayn8

(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.)
> cellular organisms: N E > Eukaryota: N E > Viridiplantae: N E > Streptophyta: N E > Streptophytina: N E > Embryophyta: N E > Tracheophyta: N E > Euphyllophyta: N E > Spermatophyta: N E > Magnoliophyta: N E > Mesangiospermae: N E > eudicotyledons: N E > Gunneridae: N E > Pentapetalae: N E > rosids: N E > rosids incertae sedis: N E > Vitales: N E > Vitaceae: N E > Vitis: N E > Vitis vinifera: N E

ABHD13-BEM46 : vitvi-d7tci5Vitis vinifera (Grape). protein bem46-like.
ABHD18 : vitvi-a5blq0Vitis vinifera (Grape) Putative uncharacterized protein.
abh_upf0017 : vitvi-d7tvr0Vitis vinifera (Grape) Putative uncharacterized protein.
Acidic_Lipase : vitvi-a5b6n6Vitis vinifera (Grape) Lipase, vitvi-d7tef1Vitis vinifera (Grape) Lipase, vitvi-d7ubd6Vitis vinifera (Grape) Lipase.
BD-FAE : vitvi-a5bxd7Vitis vinifera (Grape) putative uncharacterized protein.
Bodyguard : vitvi-d7tvr6Vitis vinifera (Grape) Uncharacterized protein.
Carboxypeptidase_S10 : vitvi-a5b5p5Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5b7e5Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5bkl0Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5c8m8Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7sqb8Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7tmb8Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hqe0Vitis vinifera (Grape) Putative uncharacterized protein.
Chlorophyllase_Plant : vitvi-a5b3m9Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7t734Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hi76Vitis vinifera Putative uncharacterized protein.
DPP4N_Peptidase_S9 : vitvi-a5c1g2Vitis vinifera (Grape) Putative uncharacterized protein.
Duf_726 : vitvi-a5bft8Vitis vinifera (Grape) Putative uncharacterized protein.
Duf_829 : vitvi-a7ntu2Vitis vinifera (Grape) Chromosome chr18 scaffold_1, whole genome shotgun sequence, vitvi-a7pus9Vitis vinifera (Grape) Chromosome chr4 scaffold_32, whole genome shotgun sequence, vitvi-a7qpz3Vitis vinifera (Grape) Chromosome undetermined scaffold_139, whole genome shotgun sequence, vitvi-d7tpk8Vitis vinifera (Grape) Chromosome chr3 scaffold_8, whole genome shotgun sequence.
Duf_1350 : vitvi-d7tfn3Vitis vinifera (Grape), Putative uncharacterized protein, vitvi-f6h2u7Vitis vinifera (Grape), Putative uncharacterized protein.
Epoxide_hydrolase : vitvi-a5b8q6Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5c6e7Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a7q3d1Vitis vinifera (Grape) AB hydrolase-1 domain-containing protein.
Glutamyl_Peptidase_S9 : vitvi-d7u2i4Vitis vinifera (Grape). Peptidase_S9 domain-containing protein.
Hydroxynitrile_lyase : vitvi-a5ane2Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5bji4Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7ssd7Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7ssd8Vitis vinifera (Grape) methyl jasmonate esterase VvMJE1, vitvi-d7ssd9Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7u935Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6gyw1Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6gyw2Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6gyw4Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hqf1Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hqf4Vitis vinifera (Grape) Putative uncharacterized protein.
Maspardin-ACP33-SPG21_like : vitvi-d7sx57Vitis vinifera (Grape) Putative uncharacterized protein.
MenH_SHCHC : vitvi-a7pnb4Vitis vinifera (Grape) AlphaBeta_hydrolase concatened to MR_MLE domain-containing protein.
Monoglyceridelipase_lysophospholip : vitvi-a5bm71Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7t940Vitis vinifera (Grape) Putative uncharacterized protein.
Ndr_family : vitvi-d7tum4Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7tba3Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7stm8Vitis vinifera (Grape) Putative uncharacterized protein.
NLS3-Tex30 : vitvi-d7tve2Vitis vinifera (Grape) Putative uncharacterized protein.
Pectinacetylesterase-Notum : vitvi-a5c8p7Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hzf1.1Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6hzf1.2Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-f6he55Vitis vinifera (Grape). Putative uncharacterized protein, vitvi-d7thp4Vitis vinifera (Grape). Putative uncharacterized protein, vitvi-d7tfe6Vitis vinifera (Grape). Putative uncharacterized protein, vitvi-e0cv10Vitis vinifera (Grape). Putative uncharacterized protein.
Pheophytinase : vitvi-f6hhx5Vitis vinifera (Grape) Putative uncharacterized protein.
Plant_carboxylesterase : vitvi-VvTAVitis vinifera (Grape) Tannase VvTA, vitvi-BIG8.1Vitis vinifera (Grape) putative serine hydrolase, vitvi-f6hva3Vitis vinifera (Grape). Uncharacterized protein, vitvi-d7tqu0Vitis vinifera (Grape). Uncharacterized protein, vitvi-f6hqq0Vitis vinifera (Grape). Uncharacterized protein, vitvi-a5bej5Vitis vinifera (Grape). Uncharacterized protein, vitvi-d7sut7Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-d7sut6Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6h317Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6h318Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6hsf1Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6hqd1Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6hqd0Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein, vitvi-f6hfp6Vitis vinifera (Grape). Abhydrolase_3 domain-containing protein.
Plant_lipase_EDS1-like : vitvi-f6gsx7 Vitis vinifera (Grape).Enhanced disease susceptibility 1 EDS1 VvEDS1Nterm, vitvi-d7si01Vitis vinifera (Grape). Uncharacterized protein, vitvi-d7si06Vitis vinifera (Grape). Uncharacterized protein.
PPase_methylesterase_euk : vitvi-d7tle9Vitis vinifera (Grape) Protein phosphatase methylesterase 1.
Proline_iminopeptidase : vitvi-a5bej7Vitis vinifera (Grape). Proline iminopeptidase, vitvi-d7t3j3Vitis vinifera (Grape). Proline iminopeptidase, vitvi-d7uce5Vitis vinifera (Grape). Putative uncharacterized protein.
Prolylcarboxypeptidase : vitvi-a5b6r9Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5b8k1Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5b8l9Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5c9w6Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7ssp2Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-d7tg96Vitis vinifera (Grape) Putative uncharacterized protein.
RsbQ-like : vitvi-a5ajc4Vitis vinifera (Grape) Putative uncharacterized protein, vitvi-a5b7c0Vitis vinifera (Grape) KAI2 GSVIVT01000162001, vitvi-a5bub9Vitis vinifera (Grape) Putative uncharacterized protein.
S9N_PREPL_Peptidase_S9 : vitvi-a5ama3Vitis vinifera (Grape) Putative uncharacterized protein.
UCP031088 : vitvi-f6gtp7Vitis vinifera (Grape). Uncharacterized protein

Title: A high quality draft consensus sequence of the genome of a heterozygous grapevine variety
Velasco R, Zharkikh A, Troggio M, Cartwright DA, Cestaro A, Pruss D, Pindo M, FitzGerald LM, Vezzulli S and Viola R <47 more author(s)> Velasco R, Zharkikh A, Troggio M, Cartwright DA, Cestaro A, Pruss D, Pindo M, FitzGerald LM, Vezzulli S, Reid J, Malacarne G, Iliev D, Coppola G, Wardell B, Micheletti D, Macalma T, Facci M, Mitchell JT, Perazzolli M, Eldredge G, Gatto P, Oyzerski R, Moretto M, Gutin N, Stefanini M, Chen Y, Segala C, Davenport C, Dematte L, Mraz A, Battilana J, Stormo K, Costa F, Tao Q, Si-Ammour A, Harkins T, Lackey A, Perbost C, Taillon B, Stella A, Solovyev V, Fawcett JA, Sterck L, Vandepoele K, Grando SM, Toppo S, Moser C, Lanchbury J, Bogden R, Skolnick M, Sgaramella V, Bhatnagar SK, Fontana P, Gutin A, Van de Peer Y, Salamini F, Viola R (- 47)
Ref: PLoS ONE, 2:e1326, 2007 : PubMed
Abstract


ESTHER: Velasco_2007_PLoS.ONE_2_e1326
PubMedSearch: Velasco 2007 PLoS.ONE 2 e1326
PubMedID: 18094749
Gene_locus related to this paper: vitvi-a5ajc4, vitvi-a5ama3, vitvi-a5ane2, vitvi-a5ayn8, vitvi-a5b3m9, vitvi-a5b5p5, vitvi-a5b6n6, vitvi-a5b6r9, vitvi-a5b7c0, vitvi-a5b7e5, vitvi-a5b8k1, vitvi-a5b8l9, vitvi-a5b8q6, vitvi-a5bft8, vitvi-a5bji4, vitvi-a5bkl0, vitvi-a5blq0, vitvi-a5bm71, vitvi-a5bub9, vitvi-a5c1g2, vitvi-a5c6e7, vitvi-a5c8m8, vitvi-a5c8p7, vitvi-a5c9w6, vitvi-a7pnb4, vitvi-d7t940, vitvi-d7tpk8, vitvi-f6hhx5, vitvi-f6hqf1, vitvi-d7tum4, vitvi-d7stm8, vitvi-a5bej7, vitvi-e0cv10, vitvi-f6gtp7, vitvi-a5bej5

Abstract

BACKGROUND: Worldwide, grapes and their derived products have a large market. The cultivated grape species Vitis vinifera has potential to become a model for fruit trees genetics. Like many plant species, it is highly heterozygous, which is an additional challenge to modern whole genome shotgun sequencing. In this paper a high quality draft genome sequence of a cultivated clone of V. vinifera Pinot Noir is presented. PRINCIPAL FINDINGS: We estimate the genome size of V. vinifera to be 504.6 Mb. Genomic sequences corresponding to 477.1 Mb were assembled in 2,093 metacontigs and 435.1 Mb were anchored to the 19 linkage groups (LGs). The number of predicted genes is 29,585, of which 96.1% were assigned to LGs. This assembly of the grape genome provides candidate genes implicated in traits relevant to grapevine cultivation, such as those influencing wine quality, via secondary metabolites, and those connected with the extreme susceptibility of grape to pathogens. Single nucleotide polymorphism (SNP) distribution was consistent with a diffuse haplotype structure across the genome. Of around 2,000,000 SNPs, 1,751,176 were mapped to chromosomes and one or more of them were identified in 86.7% of anchored genes. The relative age of grape duplicated genes was estimated and this made possible to reveal a relatively recent Vitis-specific large scale duplication event concerning at least 10 chromosomes (duplication not reported before). CONCLUSIONS: Sanger shotgun sequencing and highly efficient sequencing by synthesis (SBS), together with dedicated assembly programs, resolved a complex heterozygous genome. A consensus sequence of the genome and a set of mapped marker loci were generated. Homologous chromosomes of Pinot Noir differ by 11.2% of their DNA (hemizygous DNA plus chromosomal gaps). SNP markers are offered as a tool with the potential of introducing a new era in the molecular breeding of grape.