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Perko A, Trapp O, Maul E, Röckel F, Piltaver A, Vršič S. Monitoring and Genotyping of Wild Grapevine ( Vitis vinifera L. subsp. sylvestris) in Slovenia. PLANTS (BASEL, SWITZERLAND) 2024; 13:1234. [PMID: 38732448 PMCID: PMC11085864 DOI: 10.3390/plants13091234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2024] [Revised: 04/20/2024] [Accepted: 04/26/2024] [Indexed: 05/13/2024]
Abstract
Vitis vinifera L. subsp. sylvestris (sylvestris) is the only native wild grapevine in Eurasia (Europe and western Asia) and is the existing ancestor of the grapevine varieties (for wine and table grape production) belonging to the subsp. sativa. In Slovenia, the prevailing opinion has been that there are no Slovenian sylvestris habitats. This study describes sylvestris in Slovenia for the first time and aims to present an overview of the locations of the wild grapevine in the country. In this project, a sample set of 89 accessions were examined using 24 SSR and 2 SSR markers plus APT3 markers to determine flower sex. The accessions were found in forests on the left bank of the Sava River in Slovenia, on the border between alluvial soils and limestone and dolomite soils, five different sites, some of which are described for the first time. The proportion of female to male accessions differed between sites. At two sites, female plants dominated; at others, the ratio was balanced. The plants' genetic diversity and structure were compared with autochthonous and unique varieties of subsp. sativa from old vineyards in Slovenia and with rootstocks escaped from nature from abandoned vineyards. Sylvestris was clearly distinguishable from vinifera and the rootstocks. Based on genetic analyses, it was confirmed that Slovenian sylvestris is closest to the Balkan and German sylvestris groups. Meanwhile, a safety duplication of the wild grapevine accessions has been established at the University Centre of Viticulture and Enology Meranovo, Faculty of Agriculture and Life Sciences at the University of Maribor.
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Affiliation(s)
- Andrej Perko
- University Centre of Viticulture and Enology Meranovo, Faculty of Agriculture and Life Sciences, University of Maribor, Pivola 10, 2311 Hoče, Slovenia;
| | - Oliver Trapp
- Julius Kühn Institute (JKI)-Federal Research Centre of Cultivated Plants, Institute for Grapevine Breeding Geilweilerhof, 76833 Siebeldingen, Germany; (O.T.); (F.R.)
| | - Erika Maul
- Julius Kühn Institute (JKI)-Federal Research Centre of Cultivated Plants, Institute for Grapevine Breeding Geilweilerhof, 76833 Siebeldingen, Germany; (O.T.); (F.R.)
| | - Franco Röckel
- Julius Kühn Institute (JKI)-Federal Research Centre of Cultivated Plants, Institute for Grapevine Breeding Geilweilerhof, 76833 Siebeldingen, Germany; (O.T.); (F.R.)
| | - Andrej Piltaver
- Institute for the Systematics of Higher Fungi, Velika vas 17, 1262 Dol pri Ljubljani, Slovenia;
| | - Stanko Vršič
- University Centre of Viticulture and Enology Meranovo, Faculty of Agriculture and Life Sciences, University of Maribor, Pivola 10, 2311 Hoče, Slovenia;
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Flasco MT, Cieniewicz EJ, Pethybridge SJ, Fuchs MF. Distinct Red Blotch Disease Epidemiological Dynamics in Two Nearby Vineyards. Viruses 2023; 15:v15051184. [PMID: 37243269 DOI: 10.3390/v15051184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 05/12/2023] [Accepted: 05/16/2023] [Indexed: 05/28/2023] Open
Abstract
Grapevine red blotch virus (GRBV) causes red blotch disease and is transmitted by the three-cornered alfalfa hopper, Spissistilus festinus. GRBV isolates belong to a minor phylogenetic clade 1 and a predominant clade 2. Spatiotemporal disease dynamics were monitored in a 1-hectare 'Merlot' vineyard planted in California in 2015. Annual surveys first revealed disease onset in 2018 and a 1.6% disease incidence in 2022. Ordinary runs and phylogenetic analyses documented significant aggregation of vines infected with GRBV clade 1 isolates in one corner of the vineyard (Z = -4.99), despite being surrounded by clade 2 isolates. This aggregation of vines harboring isolates from a non-prevalent clade is likely due to infected rootstock material at planting. GRBV clade 1 isolates were predominant in 2018-2019 but displaced by clade 2 isolates in 2021-2022, suggesting an influx of the latter isolates from outside sources. This study is the first report of red blotch disease progress immediately after vineyard establishment. A nearby 1.5-hectare 'Cabernet Sauvignon' vineyard planted in 2008 with clone 4 (CS4) and 169 (CS169) vines was also surveyed. Most CS4 vines that exhibited disease symptoms one-year post-planting, likely due to infected scion material, were aggregated (Z = -1.73). GRBV isolates of both clades were found in the CS4 vines. Disease incidence was only 1.4% in non-infected CS169 vines in 2022 with sporadic infections of isolates from both clades occurring via secondary spread. Through disentangling GRBV infections due to the planting material and S. festinus-mediated transmission, this study illustrated how the primary virus source influences epidemiological dynamics of red blotch disease.
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Affiliation(s)
- Madison T Flasco
- School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology Section, Cornell University, Geneva, NY 14456, USA
| | - Elizabeth J Cieniewicz
- Department of Plant and Environmental Sciences, Clemson University, Clemson, SC 29634, USA
| | - Sarah J Pethybridge
- School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology Section, Cornell University, Geneva, NY 14456, USA
| | - Marc F Fuchs
- School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology Section, Cornell University, Geneva, NY 14456, USA
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Characterization of Nero Antico di Pretalucente Wine and Grape Fungal Microbiota: An Expression of Abruzzo Region Cultivar Heritage. FERMENTATION 2023. [DOI: 10.3390/fermentation9020150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
The aim of this study was to characterize the ampelographic and genetic profiles of Vitis vinifera L. cv. Nero Antico di Pretalucente and to describe the grape-borne fungal communities. The oenological characteristics and the aroma profile of wine obtained by spontaneous fermentation were also investigated. Microsatellite profiles and ampelographic traits indicated that this cultivar presented a unique profile, and therefore it can be considered a cultivar in its own right and autochthonous of Gessopalena village. Next-generation sequencing analysis revealed that Aureobasidium spp. was the main genus detected on grapes. At the species level, Aureobasidium pullulans was the main species, followed by Alternaria alternata. Wines were characterized by a final ethanol content of 12.75% (v/v), a pH of 3.4, a volatile acidity lower than 0.6 g/L, a content of glycerol of 8.56 g/L, and a concentration of polyphenols and anthocyanins of 977 GAE/L and 266 mg/L, respectively. The intensity and tonality of the wine as well as the active odor compounds found were described. The results obtained could improve the knowledge concerning the agronomic traits and the wine obtained from this ancient and autochthonous grapevine variety cultivated in a foothill area, in order to offer consumers a wine with unique traits.
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Analysis of Wine-Producing Vitis vinifera L. Biotypes, Autochthonous to Crete (Greece), Employing Ampelographic and Microsatellite Markers. LIFE (BASEL, SWITZERLAND) 2023; 13:life13010220. [PMID: 36676169 PMCID: PMC9863062 DOI: 10.3390/life13010220] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/13/2022] [Revised: 01/10/2023] [Accepted: 01/11/2023] [Indexed: 01/15/2023]
Abstract
Vitis vinifera ssp. vinifera (domesticated grapevine) includes thousands of cultivars, which are classified according to their main uses, as wines, fresh fruits or dried raisins and sultanas since ancient times. Evidence showed that Crete grapevine cultivars and winemaking date back to 2300 BC. In this study, fifty-one genotypes belonging to seven different traditional Vitis vinifera cultivars, presumed autochthonous to the island of Crete, were selected for their wine-producing potential and classified by 51 ampelographic descriptors. In addition, five genotypes belonging to two non-autochthonous cultivars were included as out-group controls. Subsequently, in order to characterize genetic diversity, establish genetic relationships within and between cultivars and solve accession-labeling problems, genotypes were fingerprinted employing Simple Sequence Repeat (SSR or microsatellite) markers. Four of the autochthonous cultivars namely 'Vidiano', 'Vilana', 'Plyto', and 'Moschato Spinas' are used in the local economy for blanc (white) wine production while the rest, namely 'Kotsifali', 'Liatiko' and 'Mantilari' for Noir (red) wines. The two cultivars employed as out-group were 'Moschato Samou' and 'Moschato Alexandrias': both white wine producers. Ampelography-based clustering grouped the majority of genotypes along cultivar-specific clusters. All three Moschato cultivars formed a distinct clade pointing to the non-autochthonous origin of 'Moschato Spinas'. A total of one hundred and thirteen (113) SSR alleles were amplified from thirteen (13) SSR loci, with an average number of alleles per locus equal to 10.23 revealing ample genetic polymorphism. The cumulative probability of identity was also quite high (3.389 × 10-16). The overall observed heterozygosity was 0.837 while for twenty-nine of the examined genotypes, at least one private SSR allele was detected. The majority of genotypes were grouped in cultivar-specific clusters. The results of this paper pave the way for the certification and registration of clones of some of the most important wine-producing cultivars in Crete.
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Mahmoud RA, Dahab AA, Mahmoud GA, El-Wahab MAEAA, El-Bassel EH, Mahdy EMB. Ampelographic and Genetic Diversity Assessment of Some Local Grape Genotypes under Egyptian Conditions. AMERICAN JOURNAL OF MOLECULAR BIOLOGY 2023; 13:183-196. [DOI: 10.4236/ajmb.2023.133013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
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Sekridova AV, Shilov IA, Kislin EN, Malyuchenko OP, Kharchenko PN. The Technology of Genetic Identification of Varieties and Wild-Growing Forms of Grapes Based on Multilocus Microsatellite Analysis. APPL BIOCHEM MICRO+ 2022. [DOI: 10.1134/s0003683822090083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Morreale G, Possamai T, Panighel A, De Rosso M, Lovat L, Flamini R, Migliaro D. First investigation on polyphenols and glycosidic aroma precursors in a spontaneous colour mutant of 'Glera', the principal grape variety of Prosecco sparkling wine. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:6623-6631. [PMID: 35608915 DOI: 10.1002/jsfa.12029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Revised: 05/18/2022] [Accepted: 05/24/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND Somatic mutations in Vitis spp. are relatively frequent and can generate new agronomically interesting phenotypes. We report the discovery, genetic and chemical characterization of 'Glera rosa', a mutant for the berry skin colour of 'Glera', the main white cultivar used to produce Prosecco wine. RESULTS We ascertained the relationship between the skin colour of 'Glera rosa' and the polymorphisms in the Myb-gene transcription factors involved in polyphenol biosynthesis. We established that VvMybA1 was homozygous (VvMybA1a/VvMybA1a) in 'Glera' but heterozygous (VvmybA1a/VvmybA1b) in the 'Glera rosa' mutant. We verified that the VvMybA1a non-functional allele contained Grapevine Retrotransposon 1 (Gret1), while in the VvmybA1b allele Gret1 was missing, and the gene function was partially restored. The effects of mutation on 'Glera rosa' grape metabolites were studied by high-resolution mass spectrometry and gas chromatography/mass spectrometry analysis. Fifteen anthocyanins and five unique flavonols were found in the 'Glera rosa' mutant. The mutation also increased the contents of trans-resveratrol and its derivatives (i.e., piceatannol, E-ε-viniferin, cis- and trans-piceid) and of some flavonols in grape. Finally, the mutation did not significantly affect the typical aroma precursors of Glera grape such as glycosidic monoterpenes, norisoprenoids and benzenoids. CONCLUSION 'Glera rosa' could be an interesting genetic source for the wine industry to produce Prosecco DOC rosé typology (made by adding up to 15% of 'Pinot Noir'), which was introduced to the market in 2020 with a worldwide massive success. © 2022 Society of Chemical Industry.
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Affiliation(s)
- Giacomo Morreale
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Tyrone Possamai
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Annarita Panighel
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Mirko De Rosso
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Lorenzo Lovat
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Riccardo Flamini
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Daniele Migliaro
- CREA - Research Centre for Viticulture and Enology, Conegliano, Italy
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Azuma A, Kobayashi S. Demethylation of the 3' LTR region of retrotransposon in VvMYBA1 BEN allele enhances anthocyanin biosynthesis in berry skin and flesh in 'Brazil' grape. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 322:111341. [PMID: 35667250 DOI: 10.1016/j.plantsci.2022.111341] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Revised: 05/23/2022] [Accepted: 05/24/2022] [Indexed: 05/10/2023]
Abstract
Black-skinned and red-fleshed grape 'Brazil' is a bud sport of rosy-skinned 'Benitaka'. 'Brazil' has a much higher anthocyanin content in the skin than that of 'Benitaka' and is characterized by the accumulation of anthocyanins in the flesh. Our genomic analysis of the VvMYBA loci, which regulate anthocyanin biosynthesis, suggested that the difference in skin and flesh color between 'Brazil' and 'Benitaka' cannot be explained by genomic alteration at the loci. Expression levels of VvMYBA1 and anthocyanin biosynthesis-related genes in skin and flesh were significantly higher in 'Brazil' than in 'Benitaka' throughout berry development. DNA methylation levels in the 3' long terminal repeat (LTR) of a retrotransposon in the upstream region of VvMYBA1BEN allele were clearly higher in the skin and flesh of 'Benitaka' than in those of 'Brazil' throughout berry development. These findings suggest that a dramatic decrease in DNA methylation level in the 3' LTR of the retrotransposon in the VvMYBA1BEN allele in 'Brazil' increases the expression levels of VvMYBA1 and anthocyanin accumulation in skin and flesh. Our findings also suggest that skin and flesh colors are inherited together and vary depending on the presence or absence of the VvMYBA1BEN allele.
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Affiliation(s)
- Akifumi Azuma
- Division of Grape and Persimmon Research, Institute of Fruit Tree and Tea Science, National Agriculture and Food Research Organization (NARO), Higashihiroshima, Hiroshima 739-2494, Japan.
| | - Shozo Kobayashi
- Division of Grape and Persimmon Research, Institute of Fruit Tree and Tea Science, National Agriculture and Food Research Organization (NARO), Higashihiroshima, Hiroshima 739-2494, Japan
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Ruan H, Shi X, Gao L, Rashid A, Li Y, Lei T, Dai X, Xia T, Wang Y. Functional analysis of the dihydroflavonol 4-reductase family of Camellia sinensis: exploiting key amino acids to reconstruct reduction activity. HORTICULTURE RESEARCH 2022; 9:uhac098. [PMID: 35795397 PMCID: PMC9250652 DOI: 10.1093/hr/uhac098] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2022] [Accepted: 04/15/2022] [Indexed: 05/28/2023]
Abstract
Anthocyanins and proanthocyanidins (PAs) are important types of flavonoids, plant secondary metabolites with a wide range of industrial and pharmaceutical applications. DFR (dihydroflavonol 4-reductase) is a pivotal enzyme that plays an important role in the flavonoid pathway. Here, four CsDFR genes were isolated from Camellia sinensis, and their overexpression was analyzed in vitro and in vivo. Based on transcription and metabolic analyses, CsDFR expression was closely consistent with catechins and PAs accumulation. Moreover, enzyme activity analyses revealed that the two recombinant proteins CsDFRa and CsDFRc exhibited DFR activity, converting dihydroflavonols into leucoanthocyanins in vitro, but CsDFRb1 and CsDFRb3 did not. CsDFRa and CsDFRc overexpression in AtDFR mutants (tt3) revealed that CsDFRs are involved in the biosynthesis of anthocyanins and PAs, as CsDFRa and CsDFRc restored not only the purple petiole phenotype but also the seed coat color. Site-directed mutagenesis revealed that the two amino acid residues S117 and T123 of CsDFRa play a prominent role in controlling DFR reductase activity. Enzymatic assays indicated that CsDFRa and CsDFRc exhibited a higher affinity for DHQ and DHK, respectively, whereas CsDFRb1N120S and CsDFRb1C126T exhibited a higher affinity for DHM. Our findings comprehensively characterize the DFRs from C. sinensis and shed light on their critical role in metabolic engineering.
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Affiliation(s)
- Haixiang Ruan
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, Anhui 230036, China
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Xingxing Shi
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, Anhui 230036, China
- College of Tea Science, Guizhou University, Guiyang Guizhou 550025, China
| | - Liping Gao
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Arif Rashid
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Yan Li
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Ting Lei
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Xinlong Dai
- College of Tea Science, Guizhou University, Guiyang Guizhou 550025, China
| | - Tao Xia
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, Anhui 230036, China
| | - Yunsheng Wang
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, Anhui 230036, China
- School of Life Science, Anhui Agricultural University, Hefei, Anhui 230036, China
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Augusto D, Ibáñez J, Pinto-Sintra AL, Falco V, Leal F, Martínez-Zapater JM, Oliveira AA, Castro I. Grapevine Diversity and Genetic Relationships in Northeast Portugal Old Vineyards. PLANTS 2021; 10:plants10122755. [PMID: 34961228 PMCID: PMC8705298 DOI: 10.3390/plants10122755] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Revised: 12/08/2021] [Accepted: 12/08/2021] [Indexed: 11/16/2022]
Abstract
More than 100 grapevine varieties are registered as suitable for wine production in “Douro” and “Trás-os-Montes” Protected Designations of Origin regions; however, only a few are actually used for winemaking. The identification of varieties cultivated in past times can be an important step to take advantage of all the potential of these regions grape biodiversity. The conservation of the vanishing genetic resources boosts greater product diversification, and it can be considered strategic in the valorisation of these wine regions. Hence, one goal of the present study was to prospect and characterise, through molecular markers, 310 plants of 11 old vineyards that constitute a broad representation of the grape genetic patrimony of “Douro” and “Trás-os-Montes” wine regions; 280 samples, grouped into 52 distinct known varieties, were identified through comparison of their genetic profiles generated via 6 nuclear SSR and 43 informative SNP loci amplification; the remaining 30 samples, accounting for 13 different genotypes, did not match with any profile in the consulted databases and were considered as new genotypes. This study also aimed at evaluating the population structure among the 65 non-redundant genotypes identified, which were grouped into two ancestral genetic groups. The mean probability of identity values of 0.072 and 0.510 (for the 6 SSR and 226 SNP sets, respectively) were determined. Minor differences were observed between frequencies of chlorotypes A and D within the non-redundant genotypes studied. Twenty-seven pedigrees were confirmed and nine new trios were established. Ancestors of eight genotypes remain unknown.
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Affiliation(s)
- Diana Augusto
- Department of Genetics and Biotechnology, University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal;
| | - Javier Ibáñez
- Institute of Grapevine and Wine Sciences (ICVV), Spanish National Research Council (CSIC), University of La Rioja and Government of La Rioja, 26007 Logroño, Spain; (J.I.); (J.M.M.-Z.)
| | - Ana Lúcia Pinto-Sintra
- Centre for Research and Technology of Agro-Environmental and Biological Sciences (CITAB), Institute for Innovation, Capacity Building and Sustainability of Agri-Food Production (Inov4Agro), University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal; (A.L.P.-S.); (F.L.); (A.A.O.)
| | - Virgílio Falco
- Chemistry Research Centre, Vila Real (CQ-VR), University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal;
| | - Fernanda Leal
- Centre for Research and Technology of Agro-Environmental and Biological Sciences (CITAB), Institute for Innovation, Capacity Building and Sustainability of Agri-Food Production (Inov4Agro), University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal; (A.L.P.-S.); (F.L.); (A.A.O.)
| | - José Miguel Martínez-Zapater
- Institute of Grapevine and Wine Sciences (ICVV), Spanish National Research Council (CSIC), University of La Rioja and Government of La Rioja, 26007 Logroño, Spain; (J.I.); (J.M.M.-Z.)
| | - Ana Alexandra Oliveira
- Centre for Research and Technology of Agro-Environmental and Biological Sciences (CITAB), Institute for Innovation, Capacity Building and Sustainability of Agri-Food Production (Inov4Agro), University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal; (A.L.P.-S.); (F.L.); (A.A.O.)
| | - Isaura Castro
- Centre for Research and Technology of Agro-Environmental and Biological Sciences (CITAB), Institute for Innovation, Capacity Building and Sustainability of Agri-Food Production (Inov4Agro), University of Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal; (A.L.P.-S.); (F.L.); (A.A.O.)
- Correspondence:
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Possamai T, Wiedemann-Merdinoglu S, Merdinoglu D, Migliaro D, De Mori G, Cipriani G, Velasco R, Testolin R. Construction of a high-density genetic map and detection of a major QTL of resistance to powdery mildew (Erysiphe necator Sch.) in Caucasian grapes (Vitis vinifera L.). BMC PLANT BIOLOGY 2021; 21:528. [PMID: 34763660 PMCID: PMC8582213 DOI: 10.1186/s12870-021-03174-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Accepted: 08/09/2021] [Indexed: 05/30/2023]
Abstract
BACKGROUND Vitis vinifera L. is the most cultivated grapevine species worldwide. Erysiphe necator Sch., the causal agent of grape powdery mildew, is one of the main pathogens affecting viticulture. V. vinifera has little or no genetic resistances against E. necator and the grape industry is highly dependent on agrochemicals. Some Caucasian V. vinifera accessions have been reported to be resistant to E. necator and to have no genetic relationships to known sources of resistance to powdery mildew. The main purpose of this work was the study and mapping of the resistance to E. necator in the Caucasian grapes 'Shavtsitska' and 'Tskhvedianis tetra'. RESULTS The Caucasian varieties 'Shavtsitska' and 'Tskhvedianis tetra' showed a strong partial resistance to E. necator which segregated in two cross populations: the resistant genotypes delayed and limited the pathogen mycelium growth, sporulation intensity and number of conidia generated. A total of 184 seedlings of 'Shavtsitska' x 'Glera' population were genotyped through the Genotyping by Sequencing (GBS) technology and two high-density linkage maps were developed for the cross parents. The QTL analysis revealed a major resistance locus, explaining up to 80.15% of the phenotypic variance, on 'Shavtsitska' linkage group 13, which was associated with a reduced pathogen infection as well as an enhanced plant necrotic response. The genotyping of 105 Caucasian accessions with SSR markers flanking the QTL revealed that the resistant haplotype of 'Shavtsitska' was shared by 'Tskhvedianis tetra' and a total of 25 Caucasian grape varieties, suggesting a widespread presence of this resistance in the surveyed germplasm. The uncovered QTL was mapped in the region where the Ren1 locus of resistance to E. necator, identified in the V. vinifera 'Kishmish vatkana' and related grapes of Central Asia, is located. The genetic analysis conducted revealed that the Caucasian grapes in this study exhibit a resistant haplotype different from that of Central Asian grape accessions. CONCLUSIONS The QTL isolated in 'Shavtsitska' and present in the Caucasian V. vinifera varieties could be a new candidate gene of resistance to E. necator to use in breeding programmes. It co-localizes with the Ren1 locus but shows a different haplotype from that of grapevines of Central Asia. We therefore consider that the Caucasian resistance locus, named Ren1.2, contains a member of a cluster of R-genes, of which the region is rich, and to be linked with, or possibly allelic, to Ren1.
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Affiliation(s)
- Tyrone Possamai
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100, Udine, Italy.
- CREA - Research Centre for Viticulture and Enology, viale XXVIII Aprile 26, 31015, Conegliano, TV, Italy.
| | | | - Didier Merdinoglu
- INRAE, Université de Strasbourg, SVQV UMR-A 1131, 28 rue de Herrlisheim, 68000, Colmar, France
| | - Daniele Migliaro
- CREA - Research Centre for Viticulture and Enology, viale XXVIII Aprile 26, 31015, Conegliano, TV, Italy
| | - Gloria De Mori
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100, Udine, Italy
| | - Guido Cipriani
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100, Udine, Italy
| | - Riccardo Velasco
- CREA - Research Centre for Viticulture and Enology, viale XXVIII Aprile 26, 31015, Conegliano, TV, Italy
| | - Raffaele Testolin
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle Scienze 206, 33100, Udine, Italy
- Institute of Applied Genomics, Science & Technology Park "Luigi Danieli", via Jacopo Linussio 51, 33100, Udine, Italy
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Miliordos DE, Merkouropoulos G, Kogkou C, Arseniou S, Alatzas A, Proxenia N, Hatzopoulos P, Kotseridis Y. Explore the Rare—Molecular Identification and Wine Evaluation of Two Autochthonous Greek Varieties: “Karnachalades” and “Bogialamades”. PLANTS 2021; 10:plants10081556. [PMID: 34451601 PMCID: PMC8398411 DOI: 10.3390/plants10081556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Revised: 07/22/2021] [Accepted: 07/26/2021] [Indexed: 11/29/2022]
Abstract
Wines produced from autochthonous Vitis vinifera varieties have an essential financial impact on the national economy of Greece. However, scientific data regarding characteristics and quality aspects of these wines is extremely limited. The aim of the current study is to define the molecular profile and to describe chemical and sensory characteristics of the wines produced by two autochthonous red grapevine varieties—“Karnachalades” and “Bogialamades”—grown in the wider area of Soufli (Thrace, Greece). We used seven microsatellites to define the molecular profile of the two varieties, and then we compared their profile to similar molecular data from other autochthonous as well as international varieties. Grape berries were harvested at optimum technological maturity from a commercial vineyard for two consecutive vintages (2017–2018) and vilification was performed using a common vinification protocol: the 2017 vintage provided wines, from both varieties, with greater rates of phenolics and anthocyanins than 2018, whereas regarding the sensory analysis, “Bogialamades” wine provided a richer profile than “Karnachalades”. To our knowledge, this is the first study that couples both molecular profiling and exploration of the enological potential of the rare Greek varieties “Karnachalades” and “Bogialamades”; they represent two promising varieties for the production of red wines in the historic region of Thrace.
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Affiliation(s)
- Dimitrios Evangelos Miliordos
- Laboratory of Enology and Alcoholic Drinks, Department of Food Science and Human Nutrition, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (C.K.); (S.A.); (N.P.); (Y.K.)
- Correspondence:
| | - Georgios Merkouropoulos
- Department of Vitis, Institute of Olive Tree, Subtropical Crops and Viticulture, Hellenic Agricultural Organisation—DIMITRA, Leoforos Sofokli Venizelou 1, Lykovrysi, 14123 Attiki, Greece;
| | - Charikleia Kogkou
- Laboratory of Enology and Alcoholic Drinks, Department of Food Science and Human Nutrition, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (C.K.); (S.A.); (N.P.); (Y.K.)
| | - Spyridon Arseniou
- Laboratory of Enology and Alcoholic Drinks, Department of Food Science and Human Nutrition, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (C.K.); (S.A.); (N.P.); (Y.K.)
| | - Anastasios Alatzas
- Molecular Biology Laboratory, Department of Biotechnology, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (A.A.); (P.H.)
| | - Niki Proxenia
- Laboratory of Enology and Alcoholic Drinks, Department of Food Science and Human Nutrition, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (C.K.); (S.A.); (N.P.); (Y.K.)
| | - Polydefkis Hatzopoulos
- Molecular Biology Laboratory, Department of Biotechnology, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (A.A.); (P.H.)
| | - Yorgos Kotseridis
- Laboratory of Enology and Alcoholic Drinks, Department of Food Science and Human Nutrition, Agricultural University of Athens, 75 Iera Odos, 11855 Athens, Greece; (C.K.); (S.A.); (N.P.); (Y.K.)
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Applicability of DNA traceability along the entire wine production chain in the real case of a large Italian cooperative winery. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.107929] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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A single resistance factor to solve vineyard degeneration due to grapevine fanleaf virus. Commun Biol 2021; 4:637. [PMID: 34050254 PMCID: PMC8163887 DOI: 10.1038/s42003-021-02164-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Accepted: 04/28/2021] [Indexed: 11/08/2022] Open
Abstract
Grapevine fanleaf disease, caused by grapevine fanleaf virus (GFLV), transmitted by the soil-borne nematode Xiphinema index, provokes severe symptoms and economic losses, threatening vineyards worldwide. As no effective solution exists so far to control grapevine fanleaf disease in an environmentally friendly way, we investigated the presence of resistance to GFLV in grapevine genetic resources. We discovered that the Riesling variety displays resistance to GFLV, although it is susceptible to X. index. This resistance is determined by a single recessive factor located on grapevine chromosome 1, which we have named rgflv1. The discovery of rgflv1 paves the way for the first effective and environmentally friendly solution to control grapevine fanleaf disease through the development of new GFLV-resistant grapevine rootstocks, which was hitherto an unthinkable prospect. Moreover, rgflv1 is putatively distinct from the virus susceptibility factors already described in plants.
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15
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de Oliveira GL, de Souza AP, de Oliveira FA, Zucchi MI, de Souza LM, Moura MF. Genetic structure and molecular diversity of Brazilian grapevine germplasm: Management and use in breeding programs. PLoS One 2020; 15:e0240665. [PMID: 33057449 PMCID: PMC7561202 DOI: 10.1371/journal.pone.0240665] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 10/01/2020] [Indexed: 12/23/2022] Open
Abstract
The management of germplasm banks is complex, especially when many accessions are involved. Microsatellite markers are an efficient tool for assessing the genetic diversity of germplasm collections, optimizing their use in breeding programs. This study genetically characterizes a large collection of 410 grapevine accessions maintained at the Agronomic Institute of Campinas (IAC) (Brazil). The accessions were genotyped with 17 highly polymorphic microsatellite markers. Genetic data were analyzed to determine the genetic structure of the germplasm, quantify its allelic diversity, suggest the composition of a core collection, and discover cases of synonymy, duplication, and misnaming. A total of 304 alleles were obtained, and 334 unique genotypes were identified. The molecular profiles of 145 accessions were confirmed according to the literature and databases, and the molecular profiles of more than 100 genotypes were reported for the first time. The analysis of the genetic structure revealed different levels of stratification. The primary division was between accessions related to Vitis vinifera and V. labrusca, followed by their separation from wild grapevine. A core collection of 120 genotypes captured 100% of all detected alleles. The accessions selected for the core collection may be used in future phenotyping efforts, in genome association studies, and for conservation purposes. Genetic divergence among accessions has practical applications in grape breeding programs, as the choice of relatively divergent parents will maximize the frequency of progeny with superior characteristics. Together, our results can enhance the management of grapevine germplasm and guide the efficient exploitation of genetic diversity to facilitate the development of new grape cultivars for fresh fruits, wine, and rootstock.
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Affiliation(s)
| | - Anete Pereira de Souza
- Molecular Biology and Genetic Engineering Center (CBMEG), University of Campinas (UNICAMP), Campinas, SP, Brazil
- Department of Plant Biology, Biology Institute, University of Campinas (UNICAMP) UNICAMP, Campinas, SP, Brazil
| | - Fernanda Ancelmo de Oliveira
- Molecular Biology and Genetic Engineering Center (CBMEG), University of Campinas (UNICAMP), Campinas, SP, Brazil
| | - Maria Imaculada Zucchi
- Laboratory of Conservation Genetics and Genomics, Agribusiness Technological Development of São Paulo (APTA), Piracicaba, SP, Brazil
| | - Lívia Moura de Souza
- Molecular Biology and Genetic Engineering Center (CBMEG), University of Campinas (UNICAMP), Campinas, SP, Brazil
| | - Mara Fernandes Moura
- Advanced Fruit Research Center, Agronomic Institute (IAC), Jundiaí, SP, Brazil
- * E-mail:
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16
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Raimondi S, Tumino G, Ruffa P, Boccacci P, Gambino G, Schneider A. DNA-based genealogy reconstruction of Nebbiolo, Barbera and other ancient grapevine cultivars from northwestern Italy. Sci Rep 2020; 10:15782. [PMID: 32978486 PMCID: PMC7519648 DOI: 10.1038/s41598-020-72799-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 09/01/2020] [Indexed: 01/08/2023] Open
Abstract
Northwestern Italy is a wine region of the world with the highest of reputations, where top quality wines of remarkable economic value are produced from traditional, long-cultivated varieties. Kinship analyses were performed using 32 microsatellite loci and more than 10 K single-nucleotide polymorphism markers on 227 traditional grapes mostly from Northwestern Italy—including those that have been neglected or are threatened. This was done to better understand the genetic grapevine origins and history of this reputable wine producing area, thus enhancing its cultural value and the marketing appeal of its wines. The work revealed a complex network of genetic relationships among varieties, with little contribution of genotypes from other areas. It revealed the major role played by a few ancient grape varieties as parents of numerous offspring, including some that are endangered today. The ancestry of many cultivars is proposed. Among these are Dolcetto, Barbera and Riesling italico. Through the inference of parent–offspring and sibling relations, marker profiles of ungenotyped putative parents were reconstructed, suggesting kinship relations and a possible parentage for Nebbiolo, one of the most ancient wine grapes worldwide. Historic and geographic implications from the resulting kinships are discussed.
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Affiliation(s)
- Stefano Raimondi
- National Research Council of Italy-Institute for Sustainable Plant Protection (CNR-IPSP), Strada delle Cacce 73, 10135, Turin, Italy
| | - Giorgio Tumino
- Council for Agricultural Research and Economics-Research Centre for Genomics and Bioinformatics, Via San Protaso 302, 29017, Fiorenzuola d'Arda, PC, Italy
| | - Paola Ruffa
- National Research Council of Italy-Institute for Sustainable Plant Protection (CNR-IPSP), Strada delle Cacce 73, 10135, Turin, Italy.,University of Turin-Department of Agricultural, Forest and Food Sciences (UNITO-DiSAFA), L. Braccini 2, 10095, Grugliasco, Turin, Italy
| | - Paolo Boccacci
- National Research Council of Italy-Institute for Sustainable Plant Protection (CNR-IPSP), Strada delle Cacce 73, 10135, Turin, Italy
| | - Giorgio Gambino
- National Research Council of Italy-Institute for Sustainable Plant Protection (CNR-IPSP), Strada delle Cacce 73, 10135, Turin, Italy
| | - Anna Schneider
- National Research Council of Italy-Institute for Sustainable Plant Protection (CNR-IPSP), Strada delle Cacce 73, 10135, Turin, Italy.
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Genetic Structure and Relationships among Wild and Cultivated Grapevines from Central Europe and Part of the Western Balkan Peninsula. Genes (Basel) 2020; 11:genes11090962. [PMID: 32825336 PMCID: PMC7563143 DOI: 10.3390/genes11090962] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 08/07/2020] [Accepted: 08/17/2020] [Indexed: 11/16/2022] Open
Abstract
The genetic diversity and relationship between wild (Vitis vinifera L. subsp. sylvestris (Gmel.) Hegi and cultivated (V. vinifera L. subsp. vinifera) grapevine in the western Balkan region and Central Europe have not been studied together previously, although this area has a rich viticultural past. Here, we studied wild grapevine populations sampled from their natural habitats in several countries of the western Balkan region and Central Europe. Their genetic diversity and structure were compared to cultivars that are traditionally in use in this region. A sample set of 243 accessions was genotyped at 20 nuclear microsatellite loci, including 167 sylvestris and 76 diverse vinifera cultivars. The genetic diversity of the wild grapevines was lower than that of cultivars by all genetic parameters. Both hierarchical and nonhierarchical clustering methods differentiated two main groups, indicating clear separation between wild and cultivated vines but also revealed clear gene flow between the cultivated and wild gene pools through overlaps and admixed ancestry values in the graphs. There was greater affinity to the wild grapes in Central European cultivars than in Balkan cultivars. Fine arrangement of the structure among cultivated grapevines showed differentiation among Central European and Balkan cultivars. These results confirm the divergence of wild grapes from vinifera and highlight the "crossroad" role of the western Balkan peninsula in the broader context of European viticulture.
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18
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The Potential of HTS Approaches for Accurate Genotyping in Grapevine ( Vitis vinifera L.). Genes (Basel) 2020; 11:genes11080917. [PMID: 32785184 PMCID: PMC7464945 DOI: 10.3390/genes11080917] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Revised: 08/03/2020] [Accepted: 08/06/2020] [Indexed: 11/16/2022] Open
Abstract
The main challenge associated with genotyping based on conventional length polymorphisms is the cross-laboratory standardization of allele sizes. This step requires the inclusion of standards and manual sizing to avoid false results. Capillary electrophoresis (CE) approaches limit the information to the length polymorphism and do not allow the determination of a complete marker sequence. As an alternative, high-throughput sequencing (HTS) offers complete information regarding marker sequences and their flanking regions. In this work, we investigated the suitability of a semi-quantitative sequencing approach for microsatellite genotyping using Illumina paired-end technology. Twelve microsatellite loci that are well established for grapevine CE typing were analysed on 96 grapevine samples from six different countries. We redesigned primers to the length of the amplicon for short sequencing (~100 bp). The primer pair was flanked with a 10 bp overhang for the introduction of barcodes on both sides of the amplicon to enable high multiplexing. The highest data peaks were determined as simple sequence repeat (SSR) alleles and compared with the CE dataset based on 12 reference samples. The comparison showed that HTS SSR genotyping can successfully replace the CE system in further experiments. We believe that, with next-generation sequencing, genotyping can be improved in terms of its speed, accuracy, and price.
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Genetic Diversity, Population Structure, and Parentage Analysis of Croatian Grapevine Germplasm. Genes (Basel) 2020; 11:genes11070737. [PMID: 32630730 PMCID: PMC7397172 DOI: 10.3390/genes11070737] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Revised: 06/25/2020] [Accepted: 06/25/2020] [Indexed: 12/29/2022] Open
Abstract
Croatian viticulture was most extensive at the beginning of the 20th century, when about 400 varieties were in use. Autochthonous varieties are the result of spontaneous hybridization from the pre-phylloxera era and are still cultivated today on about 35 % of vineyard area, while some exist only in repositories. We present what is the most comprehensive genetic analysis of all major Croatian national repositories, with a large number of microsatellite, or simple sequence repeat (SSR) markers, and it is also the first study to apply single nucleotide polymorphism (SNP) markers. After 212 accessions were fingerprinted, 95 were classified as unique to Croatian germplasm. Genetic diversity of Croatian germplasm is rather high considering its size. SNP markers proved useful for fingerprinting but less informative and practical than SSRs. Analysis of the genetic structure showed that Croatian germplasm is predominantly part of the Balkan grape gene pool. A high number of admixed varieties and synonyms is a consequence of complex pedigrees and migrations. Parentage analysis confirmed 24 full parentages, as well as 113 half-kinships. Unexpectedly, several key genitors could not be detected within the present Croatian germplasm. The low number of reconstructed parentages (19%) points to severe genetic erosion and stresses the importance of germplasm repositories.
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20
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Arnold C, Schnitzler A. Ecology and Genetics of Natural Populations of North American Vitis Species Used as Rootstocks in European Grapevine Breeding Programs. FRONTIERS IN PLANT SCIENCE 2020; 11:866. [PMID: 32636866 PMCID: PMC7319040 DOI: 10.3389/fpls.2020.00866] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/11/2019] [Accepted: 05/27/2020] [Indexed: 06/11/2023]
Abstract
Three North American Vitis species (V. riparia, V. berlandieri, V. rupestris) became widely used in rootstock breeding programs following the expansion of North American pests and diseases introduced in vineyards of the world during the 19th century. When they escape, they become feral in the most dynamic parts of Mediterranean floodplains. To better understand this ongoing process, we studied the ecology of Vitis species in their native sympatric range. We analyzed in deep 61 plots of 710 m2 containing Vitaceae species along 216 km of the Buffalo River and adjacent plateaus (Arkansas, United States). We investigated the populations structure and genetics of the Vitis complex (i.e., possible hybrids and the Vitis species) and the sharing of habitats with other Vitaceae (Muscadinia rotundifolia and Parthenocissus quinquefolia). Vitaceae share space according to their life strategies and microhabitat along ecological gradients. The plateau niche seems optimal for V. berlandieri and V. aestivalis. V. berlandieri is also found in alluvial zones. The most erosive parts of the river are colonized by V. rupestris, whereas the first terraces include most of the M. rotundifolia populations. Vitis riparia and Parthenocissus live in the largest range of forest habitats, from plateaus to alluvial forests, and from the forest floor to the canopy, with the highest densities along the river. Interestingly, natural hybridization can occur, but establishment success is rare and limited to alluvial forests. In their native range, these populations are controlled by biotic and abiotic conditions. In Europe, the biotic relations among species are different. Our study shows that V. riparia and its hybrids could be the best candidates for a large scale invasion.
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Affiliation(s)
- Claire Arnold
- Unicentre, University of Lausanne, Lausanne, Switzerland
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21
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D’Onofrio C. Introgression Among Cultivated and Wild Grapevine in Tuscany. FRONTIERS IN PLANT SCIENCE 2020; 11:202. [PMID: 32184799 PMCID: PMC7058638 DOI: 10.3389/fpls.2020.00202] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Accepted: 02/11/2020] [Indexed: 05/06/2023]
Abstract
Wild grapevine, Vitis vinifera L. subsp. sylvestris (Gmelin, Hegi) is spontaneous to Europe and common in Tuscany. In this study, wild grapevines were identified in 22 populations from eight locations in Tuscan Maremma (Grosseto and Siena province). The plants were propagated by cuttings, collected in a vineyard, genotyped by nuclear simple sequence repeats (SSRs), chloroplast SSRs and single nucleotide polymorphisms (SNPs), and compared to locally cultivated varieties (Vitis vinifera L. subsp. sativa) and to non-vinifera and non-vitis genotypes. The identity analysis revealed that some individuals were redundant genotypes, suggesting natural vegetative propagation. In addition, four of the supposed V.v. sylvestris were in fact naturalized V.v. sativa. The majority of putative sylvestris genotypes had chlorotype A, while the remainder had chlorotype D, as the majority of Vitis vinifera subsp. sativa cultivated in Italy. Some of the recovered sylvestris genotypes appeared to be natural crosses with cultivated grapevine varieties in Tuscany, and their chlorotype suggests a higher pollen flow from sativa to the sylvestris genotypes than in the opposite direction. In addition, other genotypes appeared to be crosses within sylvestris, sylvestris-sativa or sylvestris-sylvestris siblings, or equivalent relationships. These relationships suggest a noticeably level of sexual reproductive activities among sylvestris and sylvestris-sativa genotypes. A cluster and structure analysis clearly differentiated the true sylvestris from the sativa, and the non-vinifera or non-vitis genotypes, and also highlighted a possible introgression of sylvestris into some Italian and French cultivated varieties. The results therefore suggest that, in addition to the primary ancient center of domestication from the Near East to Central Asia, the introgression among cultivated and wild grapevine occurred in other centers of diversification along the migration routes, contributing to the domestication processes, and suggesting that these processes are still ongoing despite the reduction in populations of sylvestris. The results also highlight that the GrapeReSeq 18K Vitis genotyping chip are suitable for non-vitis genotyping and that the range of SNPs heterozygosity in sylvestris appears to be up to 6% less and does not overlap the heterozygosity range of sativa genotypes.
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Affiliation(s)
- Claudio D’Onofrio
- Department of Agriculture, Food and Environment, University of Pisa, Pisa, Italy
- Nutraceuticals and Food for Health – Nutrafood, University of Pisa, Pisa, Italy
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Bibi AC, Gonias ED, Doulis AG. Genetic Diversity and Structure Analysis Assessed by SSR Markers in a Large Collection of Vitis Cultivars from the Island of Crete, Greece. Biochem Genet 2019; 58:294-321. [PMID: 31776755 DOI: 10.1007/s10528-019-09943-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2019] [Accepted: 10/24/2019] [Indexed: 10/25/2022]
Abstract
The grape (Vitis vinifera L.) cultivars in the island of Crete, Greece represent one of the oldest populations of the species; nevertheless, very scarce information is available about its genetic structure. In this study, Vitis cultivars collected from the island of Crete were characterized using microsatellite markers. A broad germplasm collection representing 44 inferred Vitis cultivars, a total of 163 accessions, from the area of Crete including 37 wine and 7 table cultivars were fingerprinted employing thirteen (13) standardized simple sequence repeat (SSR, microsatellite) loci. SSR allelic analysis and a similarity dendrogram construction (cluster analysis) was followed by a hierarchical STRUCTURE analysis. The mean observed (Ho) and expected heterozygosity (He) were 0.7372 and 0.7686, respectively. The cumulative probability of identity was very low with a value of 3.18 × 10e-15. According to the cluster analysis, twenty-nine of the 44 Vitis cultivars were presented in single clusters and five cultivars were presented as distinct single accessions. In addition, ten (10) cases of synonyms and ten (10) groups of homonyms were also identified. STRUCTURE analysis provided evidence for three genetic groups (putative ancestry groups). Hierarchical STRUCTURE analysis revealed further stratification within each of the three ancestry groups. This work provides the molecular fingerprinting of 44 Vitis cultivars and an initial proposal in their ancestry. In the future, molecular genetic information along with morphological (ampelographic) data will provide an intergraded characterization of existing diversity and will allow for its use in breeding efforts and in commercial viticulture.
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Affiliation(s)
- Androniki C Bibi
- Laboratory of Plant Biotechnology, Hellenic Agricultural Organization DEMETER (Ex. NAGREF), Institute of Olive Tree, Sub-Tropical Crops and Viticulture, P.O. Box 2228, 71003, Heraklion, GR, Greece.
| | - Evangelos D Gonias
- Laboratory of Plant Biotechnology, Hellenic Agricultural Organization DEMETER (Ex. NAGREF), Institute of Olive Tree, Sub-Tropical Crops and Viticulture, P.O. Box 2228, 71003, Heraklion, GR, Greece
| | - Andreas G Doulis
- Laboratory of Plant Biotechnology, Hellenic Agricultural Organization DEMETER (Ex. NAGREF), Institute of Olive Tree, Sub-Tropical Crops and Viticulture, P.O. Box 2228, 71003, Heraklion, GR, Greece
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Riaz S, Pap D, Uretsky J, Laucou V, Boursiquot JM, Kocsis L, Andrew Walker M. Genetic diversity and parentage analysis of grape rootstocks. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:1847-1860. [PMID: 30848297 DOI: 10.1007/s00122-019-03320-5] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2018] [Accepted: 02/27/2019] [Indexed: 05/06/2023]
Abstract
The maternal and paternal parentage of 36 rootstocks was determined and verified. The results of this study indicate that existing grape rootstocks are closely related to each other and have a narrow genetic background. Rootstocks are used to protect grapevines from biotic and abiotic stresses including phylloxera, nematodes, viruses, limestone-based soils, salinity and drought. The most important rootstocks were developed from three grape species between the 1890s and the 1930s in European breeding programs. In this report, we developed nuclear and chloroplast SSR fingerprint data from rootstock selections maintained in germplasm collections, compared them to develop a reference dataset, and carried out parentage analysis to resolve previously reported, and determine new, breeding records. We refined and updated the parentage of 26 rootstocks based on 21 nuclear and 14 chloroplast markers. Results indicate that 39% of the genetic background of analyzed rootstocks originated from only three accessions of three grape species: Vitis berlandieri cv. Rességuier 2, V. rupestris cv. du Lot and V. riparia cv. Gloire de Montpellier. Results determined that Rességuier 2 is the maternal parent for 14 commercial rootstocks, 9 of which are full-sibs with Gloire de Montpellier as the paternal parent. Similarly, du Lot is the paternal parent of nine rootstocks. The pedigree information for 28 rootstocks was determined or corrected in this study. The previously reported pedigree information for eight of the rootstocks was correct. The results found that the world's existing rootstocks have a narrow genetic base derived from only a few American grape species. Future rootstock breeding efforts should use a more diverse array of species to combat a changing climate and pest pressure.
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Affiliation(s)
- Summaira Riaz
- Department of Viticulture and Enology, University of California, Davis, CA, 95616, USA
| | - Daniel Pap
- Department of Viticulture and Enology, University of California, Davis, CA, 95616, USA
| | - Jake Uretsky
- Department of Viticulture and Enology, University of California, Davis, CA, 95616, USA
| | - Valérie Laucou
- Equipe DAAV, UMR AGAP, INRA, Montpellier SupAgro, CIRAD, Univ. Montpellier, 34060, Montpellier, France
| | - Jean-Michel Boursiquot
- Equipe DAAV, UMR AGAP, INRA, Montpellier SupAgro, CIRAD, Univ. Montpellier, 34060, Montpellier, France
| | - László Kocsis
- Department of Horticulture, Georgikon Faculty, University of Pannonia, Keszthely, 8360, Hungary
| | - M Andrew Walker
- Department of Viticulture and Enology, University of California, Davis, CA, 95616, USA.
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De Lorenzis G, Mercati F, Bergamini C, Cardone MF, Lupini A, Mauceri A, Caputo AR, Abbate L, Barbagallo MG, Antonacci D, Sunseri F, Brancadoro L. SNP genotyping elucidates the genetic diversity of Magna Graecia grapevine germplasm and its historical origin and dissemination. BMC PLANT BIOLOGY 2019; 19:7. [PMID: 30612542 PMCID: PMC6322315 DOI: 10.1186/s12870-018-1576-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Accepted: 11/27/2018] [Indexed: 05/20/2023]
Abstract
BACKGROUND Magna Graecia is the ancient name for the modern geopolitical region of South Italy extensively populated by Greek colonizers, shown by archeological and historical evidence to be the oldest wine growing region of Italy, crucial for the spread of specialized viticulture around Mediterranean shores. Here, the genetic diversity of Magna Graecia grape germplasm was assessed and its role in grapevine propagation around the Mediterranean basin was underlined. RESULTS A large collection of grapevines from Magna Graecia was compared with germplasm from Georgia to the Iberian Peninsula using the 18 K SNP array. A high level of genetic diversity of the analyzed germplasm was determined; clustering, structure analysis and DAPC (Discriminant Analysis of Principal Components) highlighted the genetic relationships among genotypes from South Italy and the Eastern Mediterranean (Greece). Gene flow from east (Georgia) to west (Iberian Peninsula) was identified throughout the large number of detected admixed samples. Pedigree analysis showed a complex and well-structured network of first degree relationships, where the cultivars from Magna Graecia were mainly involved. CONCLUSIONS This study provided evidence that Magna Graecia germplasm was shaped by historical events that occurred in the area due to the robust link between South Italian and Greek genotypes, as well as, by the availability of different thermal resources for cultivars growing in such different winegrowing areas. The uniqueness of this ampelographic platform was mainly an outcome of complex natural or human-driven crosses involving elite cultivars.
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Affiliation(s)
| | - Francesco Mercati
- Istituto di Bioscienze e Biorisorse CNR, Corso Calatafimi 414, 90120 Palermo, Italy
| | - Carlo Bergamini
- Consiglio per la ricerca in agricoltura e l’analisi dell’economia agraria, Centro di ricerca Viticoltura ed Enologia, CREA-VE, via Casamassima 148, 70010 Turi, Bari Italy
| | - Maria Francesca Cardone
- Consiglio per la ricerca in agricoltura e l’analisi dell’economia agraria, Centro di ricerca Viticoltura ed Enologia, CREA-VE, via Casamassima 148, 70010 Turi, Bari Italy
| | - Antonio Lupini
- Dipartimento AGRARIA, località Feo di Vito snc, 89121 Reggio Calabria, Italy
| | - Antonio Mauceri
- Dipartimento AGRARIA, località Feo di Vito snc, 89121 Reggio Calabria, Italy
| | - Angelo Raffaele Caputo
- Consiglio per la ricerca in agricoltura e l’analisi dell’economia agraria, Centro di ricerca Viticoltura ed Enologia, CREA-VE, via Casamassima 148, 70010 Turi, Bari Italy
| | - Loredana Abbate
- Istituto di Bioscienze e Biorisorse CNR, Corso Calatafimi 414, 90120 Palermo, Italy
| | | | - Donato Antonacci
- Consiglio per la ricerca in agricoltura e l’analisi dell’economia agraria, Centro di ricerca Viticoltura ed Enologia, CREA-VE, via Casamassima 148, 70010 Turi, Bari Italy
| | - Francesco Sunseri
- Dipartimento AGRARIA, località Feo di Vito snc, 89121 Reggio Calabria, Italy
| | - Lucio Brancadoro
- Dipartimento di Scienze Agrarie ed Ambientali, via Celoria 2, 20133 Milan, Italy
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Işçi B. Genetic relationships of some local and introduced grapes ( Vitis vinifera L.) by microsatellite markers. BIOTECHNOL BIOTEC EQ 2019. [DOI: 10.1080/13102818.2019.1664320] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Affiliation(s)
- Burçak Işçi
- Department of Horticulture, Agriculture Faculty, Ege University, Izmir, Turkey
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De Michele R, La Bella F, Gristina AS, Fontana I, Pacifico D, Garfi G, Motisi A, Crucitti D, Abbate L, Carimi F. Phylogenetic Relationship Among Wild and Cultivated Grapevine in Sicily: A Hotspot in the Middle of the Mediterranean Basin. FRONTIERS IN PLANT SCIENCE 2019; 10:1506. [PMID: 31850016 PMCID: PMC6888813 DOI: 10.3389/fpls.2019.01506] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2019] [Accepted: 10/29/2019] [Indexed: 05/09/2023]
Abstract
Grapevine (Vitis vinifera ssp. sativa) is a perennial crop especially important for wine and fruit production. The species is highly polymorphic with thousands of different varieties selected by farmers and clonally propagated. However, it is still debated whether grapevine domestication from its wild ancestor (V. vinifera ssp. sylvestris) has been a single event or rather it occurred on multiple occasions during the diffusion of its cultivation across the Mediterranean. Located in the center of the Basin, Sicily is its largest island and has served as a hotspot for all civilizations that have crossed the Mediterranean throughout history. Hundreds of unique grapevine cultivars are still cultivated in Sicily and its surrounding minor islands, though most of them are menaced by extinction. Wild grapevine is also present with isolated populations thriving along riverbanks. With the aim to evaluate the phylogenetic relationships among Sicilian varieties, and to assess the possible contribution of indigenous wild populations to the genetic makeup of cultivated grapevine, we analyzed 170 domestic cultivars and 125 wild plants, collected from 10 different populations, with 23 SSR markers. We also compared our data with published dataset from Eurasia. Results show that Sicilian wild populations are related to the cultivated Sicilian and Italian germplasm, suggesting events of introgression and/or domestication of local varieties.
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Margaryan K, Maul E, Muradyan Z, Hovhannisyan A, Devejyan H, Melyan G, Aroutiounian R. Armenian national grapevine collection: Conservation, characterization and prospects. BIO WEB OF CONFERENCES 2019. [DOI: 10.1051/bioconf/20191201002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The general strategy for grapevine genetic resources conservation in Armenia encompasses the collection of the still existing diversity and the use of protection techniques to minimize the losses over time. Being studied mainly by ampelography, the genetic diversity of Armenian grapevine needs to be re-investigated in accordance with modern requirements and international scales. The purpose of the presented research was the first large-scale molecular characterization of Armenian grape varieties by molecular methods using a set of 24 simple sequence repeat (SSR) markers encompassing the nine SSR markers recommended by the European project GrapeGen06. The obtained results indicate the uniqueness of the major part of the investigated varieties and reveal a substantial level of genetic variation within the Armenian grapevine. Based on the realized large-scale investigation a true-to-type inventory of Armenian grape germplasm will be realized and documented in theVitis International Variety Catalogue and in the European Vitisdatabase. The next step having strategic importance in terms of conservation of grape genetic resources in Armenia will be establishment of the first ArmenianVitis database with multi-crop passport description of all varieties preserved in grape collection.
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Oganesyants L, Oganesyants L, Vafin R, Vafin R, Galstyan A, Galstyan A, Semipyatniy V, Semipyatniy V, Khurshudyan S, Khurshudyan S, Ryabova A, Ryabova A. Prospects for DNA authentication in wine production monitoring. FOODS AND RAW MATERIALS 2018. [DOI: 10.21603/2308-4057-2018-2-438-448] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Wines DNA authentication is a technological process of their authenticity verification by genetic identification of the main plant ingredient by means of molecular genetic analysis of the residual amounts of Vitis vinifera L nucleic acids extracted from end product cellular debris. The main aim of the research was the analysis of scientific and methodological approaches to the extraction of residual amounts of nucleic acids in wine raw materials and DNA authentication of wines for their subsequent application in solving the problem of determining wine products authenticity and place of origin. The prior art includes various approaches to the extraction of Vitis vinifera L. nucleic acids among which the three methods by Savazzini & Martinelli, Pereira and Bigliazzi can be named basically. Analysis of the effectiveness of different methods of DNA extraction from wines indicates the superiority of the Pereira method over other traditional methods of extraction in terms of DNA yield and quality. Besides, the nucleic acid extracted from wines is characterized as residual since its concentration is significantly reduced in a multi-stage wine production process. The yield of extracted nucleic acid also decreases as the wine ages. The use of microsatellite DNA loci designed for grapes genetic identification is one of the approaches applicable for wine DNA authentication.
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Affiliation(s)
- Lev Oganesyants
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Lev Oganesyants
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Ramil Vafin
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Ramil Vafin
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Aram Galstyan
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Aram Galstyan
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | | | | | - Sergey Khurshudyan
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Sergey Khurshudyan
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Anastasia Ryabova
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
| | - Anastasia Ryabova
- All-Russian Research Institute of Brewing, Non-Alcoholic and Wine Industry
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Zhu J, Guo Y, Su K, Liu Z, Ren Z, Li K, Guo X. Construction of a highly saturated Genetic Map for Vitis by Next-generation Restriction Site-associated DNA Sequencing. BMC PLANT BIOLOGY 2018; 18:347. [PMID: 30541441 PMCID: PMC6291968 DOI: 10.1186/s12870-018-1575-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Accepted: 11/26/2018] [Indexed: 05/09/2023]
Abstract
BACKGROUND High-saturate molecular linkage maps are an important tool in studies on plant molecular biology and assisted breeding. Development of a large set of single nucleotide polymorphisms (SNPs) via next-generation sequencing (NGS)-based methods, restriction-site associated DNA sequencing (RAD-seq), and the generation of a highly saturated genetic map help improve fine mapping of quantitative trait loci (QTL). RESULTS We generated a highly saturated genetic map to identify significant traits in two elite grape cultivars and 176 F1 plants. In total, 1,426,967 high-quality restriction site-associated DNA tags were detected; 51,365, 23,683, and 70,061 markers were assessed in 19 linkage groups (LGs) for the maternal, paternal, and integrated maps, respectively. Our map was highly saturated in terms of marker density and average "Gap ≤ 5 cM" percentage. CONCLUSIONS In this study, RAD-seq of 176 F1 plants and their parents yielded 8,481,484 SNPs and 1,646,131 InDel markers, of which 65,229 and 4832, respectively, were used to construct a highly saturated genetic map for grapevine. This map is expected to facilitate genetic studies on grapevine, including an evaluation of grapevine and deciphering the genetic basis of economically and agronomically important traits. Our findings provide basic essential genetic data the grapevine genetic research community, which will lead to improvements in grapevine breeding.
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Affiliation(s)
- Junchi Zhu
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
| | - Yinshan Guo
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
- Ministry of Education Key Laboratory of Protected Horticulture, Shenyang, 110866 People’s Republic of China
| | - Kai Su
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
| | - Zhendong Liu
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
| | - Zhihua Ren
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
| | - Kun Li
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
| | - Xiuwu Guo
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866 People’s Republic of China
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Zequim Maia SH, de Oliveira-Collet SA, Mangolin CA, de Fátima P.S. Machado M. Differential genetic stability in vineyards of the cultivar ‘Italy’ ( Vitis vinifera L.) cultivated in different regions of Southern and Southwestern Brazil. CIÊNCIA E TÉCNICA VITIVINÍCOLA 2018. [DOI: 10.1051/ctv/20183301066] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
During more than 50 years the vegetative propagation has been the form of maintaining and multiplication of the cv. ’Italy’ vineyards, a ’Bicane’ x ’Muscat Hamburg’ hybrid. In the current study, polymorphism in 17 microsatellite loci was used to evaluate the genetic stability at DNA level in vineyards of cv. ’Italy’ planted in different regions of the states of Paraná and São Paulo, Brazil. Unchanged and equal allele frequency indicating genetic stability was reported in 47% of the microsatellite loci in vineyards of six localities, while allele frequency variation has been observed in Scu15vv, Udv44, Udv74, Udv96, Udv107, Udv108, Vvmd5, Vvmd6 and Vvs3 microsatellite loci. Alleles Udv96140 and Vvs3448, detected in vines in only one of the vineyards, evidenced somatic mutations at molecular level in cv. ’Italy’. Genetic diversity, as result of changes in the allele frequencies in 53% of microsatellite loci, was detected more frequently than somatic mutations due to new alleles. Polymorphism in microsatellite loci revealed different genetic stability in vineyards of cv. ’Italy’ cultivated in six different Brazilian regions and indicated vineyards with less genetic stability as a possible source of somatic mutants, showing traits of agronomic interest with a potential to generate new cultivars.
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31
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Barba P, Lillis J, Luce RS, Travadon R, Osier M, Baumgartner K, Wilcox WF, Reisch BI, Cadle-Davidson L. Two dominant loci determine resistance to Phomopsis cane lesions in F 1 families of hybrid grapevines. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2018; 131:1173-1189. [PMID: 29468460 PMCID: PMC5895676 DOI: 10.1007/s00122-018-3070-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2017] [Accepted: 02/15/2018] [Indexed: 05/20/2023]
Abstract
KEY MESSAGE Rapid characterization of novel NB-LRR-associated resistance to Phomopsis cane spot on grapevine using high-throughput sampling and low-coverage sequencing for genotyping, locus mapping and transcriptome analysis provides insights into genetic resistance to a hemibiotrophic fungus. Phomopsis cane and leaf spot, caused by the hemibiotrophic fungus Diaporthe ampelina (syn = Phomopsis viticola), reduces the productivity in grapevines. Host resistance was studied on three F1 families derived from crosses involving resistant genotypes 'Horizon', Illinois 547-1, Vitis cinerea B9 and V. vinifera 'Chardonnay'. All families had progeny with extremely susceptible phenotypes, developing lesions on both dormant canes and maturing fruit clusters. Segregation of symptoms was observed under natural levels of inoculum in the field, while phenotypes on green shoots were confirmed under controlled inoculations in greenhouse. High-density genetic maps were used to localize novel qualitative resistance loci named Rda1 and Rda2 from V. cinerea B9 and 'Horizon', respectively. Co-linearity between reference genetic and physical maps allowed localization of Rda2 locus between 1.5 and 2.4 Mbp on chromosome 7, and Rda1 locus between 19.3 and 19.6 Mbp of chromosome 15, which spans a cluster of five NB-LRR genes. Further dissection of this locus was obtained by QTL mapping of gene expression values 14 h after inoculation across a subset of the 'Chardonnay' × V. cinerea B9 progeny. This provided evidence for the association between transcript levels of two of these NB-LRR genes with Rda1, with increased NB-LRR expression among susceptible progeny. In resistant parent V. cinerea B9, inoculation with D. ampelina was characterized by up-regulation of SA-associated genes and down-regulation of ethylene pathways, suggesting an R-gene-mediated response. With dominant effects associated with disease-free berries and minimal symptoms on canes, Rda1 and Rda2 are promising loci for grapevine genetic improvement.
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Affiliation(s)
- Paola Barba
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA.
- Instituto de Investigaciones Agropecuarias, INIA La Platina, Santa Rosa, 11610, Santiago, Chile.
| | | | - R Stephen Luce
- Horticulture Section, School of Integrative Plant Science, New York State Agricultural Experiment Station, Cornell University, Geneva, NY, 14456, USA
| | - Renaud Travadon
- Department of Plant Pathology, University of California, Davis, CA, 95616, USA
| | - Michael Osier
- Thomas H. Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, 14623, USA
| | - Kendra Baumgartner
- USDA-Agricultural Research Service, Crops Pathology and Genetics Research Unit, Davis, CA, 95616, USA
| | - Wayne F Wilcox
- Plant Pathology Section, School of Integrative Plant Science, New York State Agricultural Experiment Station, Cornell University, Geneva, NY, 14456, USA
| | - Bruce I Reisch
- Horticulture Section, School of Integrative Plant Science, New York State Agricultural Experiment Station, Cornell University, Geneva, NY, 14456, USA
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32
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Dong Z, Liu W, Li X, Tan W, Zhao Q, Wang M, Ren R, Ma X, Tang X. Genetic relationships of 34 grapevine varieties and construction of molecular fingerprints by SSR markers. BIOTECHNOL BIOTEC EQ 2018. [DOI: 10.1080/13102818.2018.1450162] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022] Open
Affiliation(s)
- Zhigang Dong
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Wei Liu
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Xiaomei Li
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Wei Tan
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Qifeng Zhao
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Min Wang
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Rui Ren
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Xiaohe Ma
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
| | - Xiaoping Tang
- Shanxi Academy of Agricultural Sciences /Shanxi Key Laboratory of Germplasm Improvement and Utilization in Pomology, Pomology Institute, Taiyuan, Shanxi, PR China
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Smith HM, Smith BP, Morales NB, Moskwa S, Clingeleffer PR, Thomas MR. SNP markers tightly linked to root knot nematode resistance in grapevine (Vitis cinerea) identified by a genotyping-by-sequencing approach followed by Sequenom MassARRAY validation. PLoS One 2018; 13:e0193121. [PMID: 29462210 PMCID: PMC5819801 DOI: 10.1371/journal.pone.0193121] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2017] [Accepted: 02/05/2018] [Indexed: 11/17/2022] Open
Abstract
Plant parasitic nematodes, including root knot nematode Meloidogyne species, cause extensive damage to agriculture and horticultural crops. As Vitis vinifera cultivars are susceptible to root knot nematode parasitism, rootstocks resistant to these soil pests provide a sustainable approach to maintain grapevine production. Currently, most of the commercially available root knot nematode resistant rootstocks are highly vigorous and take up excess potassium, which reduces wine quality. As a result, there is a pressing need to breed new root knot nematode resistant rootstocks, which have no impact on wine quality. To develop molecular markers that predict root knot nematode resistance for marker assisted breeding, a genetic approach was employed to identify a root knot nematode resistance locus in grapevine. To this end, a Meloidogyne javanica resistant Vitis cinerea accession was crossed to a susceptible Vitis vinifera cultivar Riesling and results from screening the F1 individuals support a model that root knot nematode resistance, is conferred by a single dominant allele, referred as MELOIDOGYNE JAVANICA RESISTANCE1 (MJR1). Further, MJR1 resistance appears to be mediated by a hypersensitive response that occurs in the root apical meristem. Single nucleotide polymorphisms (SNPs) were identified using genotyping-by-sequencing and results from association and genetic mapping identified the MJR1 locus, which is located on chromosome 18 in the Vitis cinerea accession. Validation of the SNPs linked to the MJR1 locus using a Sequenom MassARRAY platform found that only 50% could be validated. The validated SNPs that flank and co-segregate with the MJR1 locus can be used for marker-assisted selection for Meloidogyne javanica resistance in grapevine.
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Affiliation(s)
- Harley M. Smith
- CSIRO Agriculture and Food, Glen Osmond, South Australia, Australia
| | - Brady P. Smith
- CSIRO Agriculture and Food, Glen Osmond, South Australia, Australia
| | - Norma B. Morales
- CSIRO Agriculture and Food, Glen Osmond, South Australia, Australia
| | - Sam Moskwa
- CSIRO Information Management & Technology, Clayton South, Victoria, Australia
| | | | - Mark R. Thomas
- CSIRO Agriculture and Food, Glen Osmond, South Australia, Australia
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Ferrara G, Gallotta A, Pacucci C, Matarrese AMS, Mazzeo A, Giancaspro A, Gadaleta A, Piazzolla F, Colelli G. The table grape 'Victoria' with a long shaped berry: a potential mutation with attractive characteristics for consumers. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2017; 97:5398-5405. [PMID: 28503773 DOI: 10.1002/jsfa.8429] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2016] [Revised: 05/06/2017] [Accepted: 05/10/2017] [Indexed: 06/07/2023]
Abstract
BACKGROUND Puglia is the most important region in Italy for table grape production. Since consumers look for new products, the number of table grape varieties has greatly increased in recent years. RESULTS In a survey in the Puglia region, we identified several years ago a potential mutation of the cv. Victoria. We described this accession in comparison with the standard Victoria for some amphelographic traits. All the characteristics were very similar to the standard Victoria except for the berry shape, which was significantly more elongated. Moreover, the berry of the mutated Victoria showed higher firmness, lightness and chroma than the standard one, with a more intense yellow colour of the skin (appreciated by consumers). The molecular characterisation with 25 SSR markers showed that normal and mutant Victoria were genetically identical at all the analysed loci, thus suggesting that the two accessions could be considered as clones with the difference in berry shape probably due to a somatic mutation. CONCLUSIONS This mutation of the cv. Victoria may have interesting perspective for the market since consumers are always attracted by different shape and colour of the fruits (consumers buy with eyes). This accession can be an alternative clone of the already known standard Victoria. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Giuseppe Ferrara
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Alessandra Gallotta
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Carmela Pacucci
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Angela Maria Stella Matarrese
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Andrea Mazzeo
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Angelica Giancaspro
- Dipartimento di Scienze Agro-Ambientali e Territoriali - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Agata Gadaleta
- Dipartimento di Scienze Agro-Ambientali e Territoriali - Università degli Studi di Bari 'Aldo Moro', Bari, Italy
| | - Francesca Piazzolla
- Dipartimento di Scienze Agrarie, degli Alimenti e dell'Ambiente - Università di Foggia, Foggia, Italy
| | - Giancarlo Colelli
- Dipartimento di Scienze Agrarie, degli Alimenti e dell'Ambiente - Università di Foggia, Foggia, Italy
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Adhikari S, Saha S, Biswas A, Rana TS, Bandyopadhyay TK, Ghosh P. Application of molecular markers in plant genome analysis: a review. THE NUCLEUS 2017. [DOI: 10.1007/s13237-017-0214-7] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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36
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Arnold C, Bachmann O, Schnitzler A. Insights into the Vitis complex in the Danube floodplain (Austria). Ecol Evol 2017; 7:7796-7806. [PMID: 29043035 PMCID: PMC5632635 DOI: 10.1002/ece3.3187] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Revised: 05/20/2017] [Accepted: 05/30/2017] [Indexed: 11/24/2022] Open
Abstract
European grapevine populations quickly disappeared from most of their range, massively killed by the spread of North American grapevine pests and diseases. Nowadays taxonomic pollution represents a new threat. A large Vitis complex involves escaped cultivars, rootstocks, and wild grapevines. The study aimed to provide insight into the Vitis complex in the Danube region through field and genetic analyses. Among the five other major rivers in Europe which still host wild grapevine populations, the Danube floodplain is the only one benefiting from an extensive protected forest area (93 km²) and an relatively active dynamic flood pulse. The Donau‐Auen National Park also regroups the largest wild grapevine population in Europe. Ninety‐two percent of the individuals collected in the park were true wild grapevines, and 8% were hybrids and introgressed individuals of rootstocks, wild grapevines, and cultivars. These three groups are interfertile acting either as pollen donor or receiver. Hybrids were established within and outside the dykes, mostly in anthropized forest edges. The best‐developed individuals imply rootstock genes. They establish in the most erosive parts of the floodplain. 42% of the true wild grapevines lived at the edges of forest/meadow, 33.3% at the edges forest/channels, and 23.9% in forest gaps. DBH (Diameter Breast Height) varied significantly with the occurrence of flooding. Clones were found in both true wild and hybrids/introgressed grapevines. The process of cloning seemed to be prevented in places where flooding dynamics is reduced. The current global distribution of true wild grapevines shows a strong tendency toward clustering, in sites where forestry practices were the most extensive. However, the reduced flooding activity is a danger for long‐term sustainability of the natural wild grapevine population.
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Affiliation(s)
- Claire Arnold
- Unicentre, University of Lausanne Lausanne Switzerland
| | - Olivier Bachmann
- Laboratory of Evolutionary Botany University of Neuchâtel Neuchâtel Switzerland.,Laboratory of Plant Ecology University of Basel Basel Switzerland
| | - Annik Schnitzler
- Laboratoire Interdisciplinaire des Environnements Continentaux LIEC - UMR 7360 CNRS University of Lorraine Metz France
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37
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Bustamante L, Sáez V, Hinrichsen P, Castro MH, Vergara C, von Baer D, Mardones C. Differences in Vvufgt and VvmybA1 Gene Expression Levels and Phenolic Composition in Table Grape (Vitis vinifera L.) 'Red Globe' and Its Somaclonal Variant 'Pink Globe'. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2017; 65:2793-2804. [PMID: 28274120 DOI: 10.1021/acs.jafc.6b04817] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
A novel 'Red Globe' (RG)-derived grape variety, 'Pink Globe' (PG), was described and registered as a new genotype, with earlier ripening and sweeter taste than those of RG. Microsatellite analysis revealed that PG and RG are undifferentiable; however, the PG VvmybA1c contains six single-nucleotide polymorphisms within the coding and noncoding region, possibly related to the reduced VvmybA1 expression levels. Conversely, HPLC-DAD-ESI-MS/MS analysis showed significantly lower anthocyanin content in PG skin than in RG skin, and PG had no detectable trihydroxylated anthocyanins. Total flavonols did not differ between the variants, although some quercetin derivate concentrations were lower in PG. HPLC-FLD analysis revealed slightly higher concentrations of epicatechin and a procyanidin dimer in PG seeds, although the antioxidant capacity of crude extracts from either variety did not differ significantly. These differences, particularly in monomeric anthocyanin content, can be attributed to altered activity of a MYB-type transcription factor, reducing Vvufgt expression.
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Affiliation(s)
- Luis Bustamante
- Instrumental Analysis Department, Faculty of Pharmacy, University of Concepción , P.O. Box 160-C, Concepción, Chile
| | - Vania Sáez
- Instrumental Analysis Department, Faculty of Pharmacy, University of Concepción , P.O. Box 160-C, Concepción, Chile
| | - Patricio Hinrichsen
- Instituto de Investigaciones Agropecuarias, INIA La Platina , Santa Rosa 11610 La Pintana, Santiago, Chile
| | - María H Castro
- Instituto de Investigaciones Agropecuarias, INIA La Platina , Santa Rosa 11610 La Pintana, Santiago, Chile
| | - Carola Vergara
- Instrumental Analysis Department, Faculty of Pharmacy, University of Concepción , P.O. Box 160-C, Concepción, Chile
| | - Dietrich von Baer
- Instrumental Analysis Department, Faculty of Pharmacy, University of Concepción , P.O. Box 160-C, Concepción, Chile
| | - Claudia Mardones
- Instrumental Analysis Department, Faculty of Pharmacy, University of Concepción , P.O. Box 160-C, Concepción, Chile
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Cantos M, Arroyo-García R, García JL, Lara M, Morales R, López MÁ, Gallardo A, Ocete CA, Rodríguez Á, Valle JM, Vaca R, González-Maestro M, Bánáti H, Ocete R. Current distribution and characterization of the wild grapevine populations in Andalusia (Spain). C R Biol 2017; 340:164-177. [PMID: 28256414 DOI: 10.1016/j.crvi.2017.01.004] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2016] [Revised: 01/25/2017] [Accepted: 01/26/2017] [Indexed: 10/20/2022]
Abstract
For decades, human activities have gradually destroyed the natural habitats of wild grapevine, Vitis vinifera L. subsp. sylvestris (Gmelin) Hegi, and nowadays this species is endangered in southern Europe. In this paper, 94 populations of this species have been localized and characterized in the Andalusian region in the Iberian Peninsula between 1989 and 2013. Location, ecological aspects, and sanitary characteristics are described. Must properties and in vitro tolerance to calcareous conditions were also checked. The paper also contains a global description of female and male individuals. Two hundred individuals from six river basin populations have been sampled, and their genetic structure analyzed by using 25 nuclear microsatellites loci to investigate the gene diversity of wild grape populations in Andalusia at two levels: total individuals and at river basin populations. Also, the genetic relationship of wild and cultivated accessions has been tested. Wild grapevine is considered the ancestor of the cultivated varieties and should be preserved as this material could be used to start breeding programs of cultivated varieties and also to restore riverbank forests, which constitute one of the worst preserved ecosystems in the area.
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Affiliation(s)
- Manuel Cantos
- Instituto de Recursos Naturales y Agrobiología de Sevilla (CSIC), avenue Reina Mercedes 10, 41012 Sevilla, Spain.
| | - Rosa Arroyo-García
- Centro de Biotecnología y Genómica de Plantas, UPM-INIA, Campus de Montegancedo, 28223 Pozuelo de Alarcón, Madrid, Spain
| | - José Luis García
- Instituto de Recursos Naturales y Agrobiología de Sevilla (CSIC), avenue Reina Mercedes 10, 41012 Sevilla, Spain
| | - Miguel Lara
- IFAPA Rancho de la Merced, Ctra. de Trebujena km. 3.2, 11431 Jerez de la Frontera, Cádiz, Spain
| | - Ramón Morales
- Real Jardín Botánico (CSIC), Plaza de Murillo 2, 28014 Madrid, Spain
| | - María Ángeles López
- Laboratorio Entomología Aplicada, Universidad de Sevilla, avenue Reina Mercedes 6, 41012 Sevilla, Spain
| | - Antonio Gallardo
- Laboratorio Entomología Aplicada, Universidad de Sevilla, avenue Reina Mercedes 6, 41012 Sevilla, Spain
| | - Carlos Alvar Ocete
- Laboratorio Entomología Aplicada, Universidad de Sevilla, avenue Reina Mercedes 6, 41012 Sevilla, Spain
| | - Álvaro Rodríguez
- Escuela Universitaria de Ingeniería, Universidad del País Vasco, Vitoria-Gasteiz, Spain
| | - José Manuel Valle
- Escuela Universitaria de Ingeniería, Universidad del País Vasco, Vitoria-Gasteiz, Spain
| | - Ramón Vaca
- Macià Batle Wineries, 07320 Santa María del Camí, Illes Balears, Spain
| | - Magdalena González-Maestro
- Instituto de Recursos Naturales y Agrobiología de Sevilla (CSIC), avenue Reina Mercedes 10, 41012 Sevilla, Spain
| | - Hajnalka Bánáti
- Department of Ecotoxicology, Central Environmental and Food Science Research Institute, Herman Ottó út 15, 1022 Budapest, Hungary
| | - Rafael Ocete
- Laboratorio Entomología Aplicada, Universidad de Sevilla, avenue Reina Mercedes 6, 41012 Sevilla, Spain
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Kosev K, Simeonov I, Ivanov M, Nakov Z, Hvarleva T. Phenotypic and molecular characterization of 18 Bulgarian newly bred grapevine varieties in relation to their resistance to downy mildew. BIOTECHNOL BIOTEC EQ 2017. [DOI: 10.1080/13102818.2016.1259019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Affiliation(s)
- Kalin Kosev
- Group of Molecular Genetics, Agricultural Academy, AgroBioInstitute, Sofia, Bulgaria
| | - Ilian Simeonov
- Department of Grapevine Breeding, Agricultural Academy, Institute of Viticulture and Enology, Pleven, Bulgaria
| | - Miroslav Ivanov
- Department of Grapevine Breeding, Agricultural Academy, Institute of Viticulture and Enology, Pleven, Bulgaria
| | - Zdravko Nakov
- Department of Grapevine Breeding, Agricultural Academy, Institute of Viticulture and Enology, Pleven, Bulgaria
| | - Tzvetanka Hvarleva
- Group of Molecular Genetics, Agricultural Academy, AgroBioInstitute, Sofia, Bulgaria
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40
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Nebish A, Ochssner I, Maul E, Töpfer R, Hausmann L, Hovhannisyan A, Devejyan H, Melyan G, Aroutiounian R. Genetic identification and characterization of Armenian grapevine cultivars. BIO WEB OF CONFERENCES 2017. [DOI: 10.1051/bioconf/20170901020] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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41
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Catalano V, Moreno-Sanz P, Lorenzi S, Grando MS. Experimental Review of DNA-Based Methods for Wine Traceability and Development of a Single-Nucleotide Polymorphism (SNP) Genotyping Assay for Quantitative Varietal Authentication. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2016; 64:6969-6984. [PMID: 27573905 DOI: 10.1021/acs.jafc.6b02560] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The genetic varietal authentication of wine was investigated according to DNA isolation procedures reported for enological matrices and also by testing 11 commercial extraction kits and various protocol modifications. Samples were collected at different stages of the winemaking process of renowned Italian wines Brunello di Montalcino, Lambruschi Modenesi, and Trento DOC. Results demonstrated not only that grape DNA loss is produced by the fermentation process but also that clarification and stabilization operations contribute to the reduction of double-stranded DNA content on wine. Despite the presence of inhibitors, downstream PCR genotyping yielded reliable nuclear and chloroplast SSR markers for must samples, whereas no amplification or inconsistent results were obtained at later stages of the vinification. In addition, a TaqMan genotyping assay based on cultivar-specific single-nucleotide polymorphisms (SNPs) was designed, which allowed assessment of grapevine DNA mixtures. Once the wine matrix limitations are overcome, this sensitive tool may be implemented for the relative quantification of cultivars used for blend wines or frauds.
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Affiliation(s)
- Valentina Catalano
- Research and Innovation Centre, Fondazione Edmund Mach , Via E. Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Paula Moreno-Sanz
- Research and Innovation Centre, Fondazione Edmund Mach , Via E. Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Silvia Lorenzi
- Research and Innovation Centre, Fondazione Edmund Mach , Via E. Mach 1, 38010 San Michele all'Adige, Trento, Italy
| | - Maria Stella Grando
- Research and Innovation Centre, Fondazione Edmund Mach , Via E. Mach 1, 38010 San Michele all'Adige, Trento, Italy
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Gavazzi F, Braglia L, Mastromauro F, Gianì S, Morello L, Breviario D. The Tubulin-Based-Polymorphism Method Provides a Simple and Effective Alternative to the Genomic Profiling of Grape. PLoS One 2016; 11:e0163335. [PMID: 27643687 PMCID: PMC5028034 DOI: 10.1371/journal.pone.0163335] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Accepted: 09/07/2016] [Indexed: 11/19/2022] Open
Abstract
The TBP (Tubulin-Based-Polymorphism) method, based on a nuclear ILP (Intron-Length-Polymorphism) molecular marker, has been used for genotyping 37 accessions of the genus Vitis inclusive of different species, rootstocks, wild and cultivated subspecies. A distinct DNA barcode made up by a different number of amplicons, was attributed to each of the different accessions. TBP data were compared with those obtained, with the use of an internationally validated set of six SSR markers. Genetic relationships among the different accessions, dendrogram distributions, correlation values and polymorphic index values (PICs) were definitively comparable when not in favor of TBP. Such an experimental consistency is based upon a genomic organization of the multiple members of the β-tubulin gene family, the targets of TBP-mediated amplification, that is conserved in Vitis as in any other plant species. The TBP amplicons can actually be used as a useful source of sequence polymorphisms for generating primer pairs capable of identifying specific cultivars in a simple assay. An example for the identification of the ‘Sangiovese’ cv. is reported. More generally, these data are discussed in terms of the actual advantages that the introduction of the TBP method in the field of grape characterization and genotyping can provide.
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Affiliation(s)
- Floriana Gavazzi
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Luca Braglia
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Francesco Mastromauro
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Silvia Gianì
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Laura Morello
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
| | - Diego Breviario
- Institute of Agricultural Biology and Biotechnology - National Research Council, Milan, Italy
- * E-mail:
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43
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Bergamini C, Perniola R, Cardone MF, Gasparro M, Pepe R, Caputo AR, Antonacci D. The molecular characterization by SSRs reveals a new South Italian kinship and the origin of the cultivar Uva di Troia. SPRINGERPLUS 2016; 5:1562. [PMID: 27652135 PMCID: PMC5023643 DOI: 10.1186/s40064-016-3228-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/26/2016] [Accepted: 09/06/2016] [Indexed: 11/10/2022]
Abstract
Vitis vinifera L. varieties were spread through cuttings following historic migrations of people, trades, or after biological crises due to pests outbreaks. Some today’s varieties could be more than a 1000 years old and, although over the centuries these varieties generated most of the remaining cultivars, their origin could be impossible to track back. The Italian grapevine biodiversity is one of most important, most likely due to its strategic position in the middle of the Mediterranean sea. Unravelling of its structure is challenging because of its complexity and the lack of historical documentation. In this paper molecular data are compared with historical documentations. Simple Sequence Repeats fingerprinting are molecular markers best suited to investigate genetic relationships and identify pedigrees. South-Italian germplasm was studied with 54 nuclear microsatellites. A family was identified, consisting of two parents and three siblings and further genetically characterized with six nuclear and five chloroplast microsatellites and described with ampelographic and phylometric analysis. Although these latter were not informative for the kinship identification. The common Bombino bianco was the female parent and the previously unknown Uva rosa antica was the male parent. Bombino nero, Impigno and the popular Uva di Troia, all typical of the south-east Italy, were the offspring. Further research showed that the Uva rosa antica was a synonym of Quagliano and Bouteillan noir, both minor varieties. Quagliano was considered to be autochthonous of some alpine valleys in the north-west of Italy and Bouteillan noir is a neglected variety of Vancluse in France. This finding uncovers the intricate nature of Italian grape cultivars, considered peculiar of an area, but possibly being the remains of ancient latin founding varieties. Consequently, intriguing new hypotheses are discussed and some conclusions are drawn, based on the peculiar geographical origin of the parents, on the distribution of the offspring, on the chance of a single, and perhaps intentional, crossing event.
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Affiliation(s)
- C Bergamini
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
| | - R Perniola
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
| | - M F Cardone
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
| | - M Gasparro
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
| | - R Pepe
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Centro di ricerca per l'orticoltura, Via Cavalleggeri, 25, 84098 Pontecagnano, SA Italy
| | - A R Caputo
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
| | - D Antonacci
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria- CREA - Unità di ricerca per l'uva da tavola e la vitivinicoltura in ambiente mediterraneo, Research Unit for Viticulture and Enology in Southern Italy, Via Casamassima, 148, 70010 Turi, BA Italy
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Patterns of genetic structure and evidence of gene flow among Tunisian Citrus species based on informative nSSR markers. C R Biol 2016; 339:371-7. [PMID: 27522638 DOI: 10.1016/j.crvi.2016.06.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2016] [Revised: 06/14/2016] [Accepted: 06/15/2016] [Indexed: 11/22/2022]
Abstract
This study investigates the extent of genetic diversity, phylogenetic relationships and the amount of gene flow among Tunisian Citrus species based on a set of 15 informative nuclear SSR molecular markers. Genotyping data highlighted an allelic richness among Tunisian Citrus species and has allowed the detection of 168 alleles among them 104.19 were effective. The partition of the total genetic diversity (HT=0.832) showed that the highest amount of variation within the Citrus species is HS=0.550, while the relative amount of the between-species genetic diversity GST does not exceed 0.338. This pattern of genetic structure was supported by low-to-moderate FST pairwise values and the presence of a gene flow (Nm) among the eight Citrus species. The lowest genetic differentiation was revealed between the species C. sinensis and C. insitorum (FST=0.111, Nm=1.99), while the highest genetic differentiation was recorded between the species C. aurantifolia and C. paradisi (FST=0.367, Nm=0.43). The established Neighbor Joining analysis showed that all genotypes were widely discriminated and clearly pooled according to their species of origin, with minor exceptions.
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45
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Pap D, Riaz S, Dry IB, Jermakow A, Tenscher AC, Cantu D, Oláh R, Walker MA. Identification of two novel powdery mildew resistance loci, Ren6 and Ren7, from the wild Chinese grape species Vitis piasezkii. BMC PLANT BIOLOGY 2016; 16:170. [PMID: 27473850 PMCID: PMC4966781 DOI: 10.1186/s12870-016-0855-8] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Accepted: 07/14/2016] [Indexed: 05/20/2023]
Abstract
BACKGROUND Grapevine powdery mildew Erysiphe necator is a major fungal disease in all grape growing countries worldwide. Breeding for resistance to this disease is crucial to avoid extensive fungicide applications that are costly, labor intensive and may have detrimental effects on the environment. In the past decade, Chinese Vitis species have attracted attention from grape breeders because of their strong resistance to powdery mildew and their lack of negative fruit quality attributes that are often present in resistant North American species. In this study, we investigated powdery mildew resistance in multiple accessions of the Chinese species Vitis piasezkii that were collected during the 1980 Sino-American botanical expedition to the western Hubei province of China. RESULTS A framework genetic map was developed using simple sequence repeat markers in 277 seedlings of an F1 mapping population arising from a cross of the powdery mildew susceptible Vitis vinifera selection F2-35 and a resistant accession of V. piasezkii DVIT2027. Quantitative trait locus analyses identified two major powdery mildew resistance loci on chromosome 9 (Ren6) and chromosome 19 (Ren7) explaining 74.8 % of the cumulative phenotypic variation. The quantitative trait locus analysis for each locus, in the absence of the other, explained 95.4 % phenotypic variation for Ren6, while Ren7 accounted for 71.9 % of the phenotypic variation. Screening of an additional 259 seedlings of the F1 population and 910 seedlings from four pseudo-backcross populations with SSR markers defined regions of 22 kb and 330 kb for Ren6 and Ren7 in the V. vinifera PN40024 (12X) genome sequence, respectively. Both R loci operate post-penetration through the induction of programmed cell death, but vary significantly in the speed of response and degree of resistance; Ren6 confers complete resistance whereas Ren7 confers partial resistance to the disease with reduced colony size. A comparison of the kinetics of induction of powdery mildew resistance mediated by Ren6, Ren7 and the Run1 locus from Muscadinia rotundifolia, indicated that the speed and strength of resistance conferred by Ren6 is greater than that of Run1 which, in turn, is superior to that conferred by Ren7. CONCLUSIONS This is the first report of mapping powdery mildew resistance in the Chinese species V. piasezkii. Two distinct powdery mildew R loci designated Ren6 and Ren7 were found in multiple accessions of this Chinese grape species. Their location on different chromosomes to previously reported powdery mildew resistance R loci offers the potential for grape breeders to combine these R genes with existing powdery mildew R loci to produce grape germplasm with more durable resistance against this rapidly evolving fungal pathogen.
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Affiliation(s)
- Dániel Pap
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
- Department of Genetics and Plant Breeding, Corvinus University of Budapest, Villányi út 29-34, 1118 Budapest, Hungary
| | - Summaira Riaz
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
| | - Ian B. Dry
- CSIRO Agriculture, Glen Osmond, SA Australia
| | | | - Alan C. Tenscher
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
| | - Dario Cantu
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
| | - Róbert Oláh
- Department of Genetics and Plant Breeding, Corvinus University of Budapest, Villányi út 29-34, 1118 Budapest, Hungary
| | - M. Andrew Walker
- Department of Viticulture and Enology, University of California, Davis, CA 95616 USA
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Perry KL, McLane H, Hyder MZ, Dangl GS, Thompson JR, Fuchs MF. Grapevine red blotch-associated virus is Present in Free-Living Vitis spp. Proximal to Cultivated Grapevines. PHYTOPATHOLOGY 2016; 106:663-70. [PMID: 26960112 DOI: 10.1094/phyto-01-16-0035-r] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Red blotch is an emerging disease of grapevine associated with grapevine red blotch-associated virus (GRBaV). The virus spreads with infected planting stocks but no vector of epidemiological significance has been conclusively identified. A vineyard block of red-blotch-affected Vitis vinifera 'Cabernet franc' clone 214 was observed in California, with a clustering of infected, symptomatic vines focused along one edge of the field proximal to a riparian habitat with free-living Vitis spp. No genetic heterogeneity was observed in a 587-nucleotide region of the GRBaV genome in a population of 44 Cabernet franc clone 214 isolates. By contrast, genetic differences were observed in isolates from other cultivars and clones growing in adjacent blocks. GRBaV was confirmed infecting four free-living vines, two of which were shown to be V. californica × V. vinifera hybrids. The genomes of three free-living GRBaV vine isolates and seven from V. vinifera cultivars were compared; free-living vine isolates were shown to be more similar to each other and a 'Merlot' isolate than to the other cultivated vine isolates. The finding that GRBaV is present in free-living Vitis spp. indicates the virus can be spread by natural (nonhuman-mediated) means, and we hypothesize that in-field spread of GRBaV is occurring.
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Affiliation(s)
- Keith L Perry
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
| | - Heather McLane
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
| | - Muhammad Z Hyder
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
| | - Gerald S Dangl
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
| | - Jeremy R Thompson
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
| | - Marc F Fuchs
- First, second, third, and fifth authors: Department of Plant Pathology and Plant-Microbe Biology, 334 Plant Science, Cornell University, Ithaca, NY 14853; fourth author: Foundation Plant Services, University of California Davis, One Shields Ave., Davis 95616; sixth author: Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY 14456
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48
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Rustioni L, De Lorenzis G, Hârţa M, Failla O. Pink berry grape (Vitis vinifera L.) characterization: Reflectance spectroscopy, HPLC and molecular markers. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2016; 98:138-45. [PMID: 26687319 DOI: 10.1016/j.plaphy.2015.11.018] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2015] [Revised: 11/25/2015] [Accepted: 11/26/2015] [Indexed: 05/27/2023]
Abstract
Color has a fundamental role for the qualitative evaluation and cultivar characterization of fruits. In grape, a normally functional pigment biosynthesis leads to the accumulation of a high quantity of anthocyanins. In this work, 28 Vitis vinifera L. cultivars accumulating low anthocyanins in berries were studied to characterize the biosynthetic dysfunctions in both a phenotypic and genotypic point of view. Reflectance spectroscopy, HPLC profiles and molecular markers related to VvMybA1 and VvMybA2 genes allowed a detailed description of the pigment-related characteristics of these cultivars. Data were consistent concerning the heterozygosity of the non-functional allele in both investigated genes, resulting in a low colored phenotype as described by reflectance. However, the variability in berry colour among our samples was not fully explained by MybA locus, probably due to specific interferences among the biosynthetic pathways, as suggested by the anthocyanin profile variations detected among our samples. The results presented in this work confirmed the importance of the genetic background: grapes accumulating high levels of cyanidin-3-O-glucosides (di-substituted anthocyanin) are generally originated by white cultivar retro-mutations and they seem to preserve the anomalies in the flavonoid hydroxylases enzymes which negatively affect the synthesis of tri-substituted anthocyanins.
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Affiliation(s)
- Laura Rustioni
- CIRIVE, Centro Interdipartimentale di Ricerca per l'Innovazione in Viticoltura ed Enologia, Dipartimento di Scienze Agrarie e Ambientali - Università degli Studi di Milano, via Celoria 2, 20133 Milano, Italy.
| | - Gabriella De Lorenzis
- CIRIVE, Centro Interdipartimentale di Ricerca per l'Innovazione in Viticoltura ed Enologia, Dipartimento di Scienze Agrarie e Ambientali - Università degli Studi di Milano, via Celoria 2, 20133 Milano, Italy
| | - Monica Hârţa
- Life Science Institute, Faculty of Horticulture, University of Agricultural Sciences and Veterinary Medicine, 3-5 Mănăştur st., 400372, Cluj-Napoca Romania
| | - Osvaldo Failla
- CIRIVE, Centro Interdipartimentale di Ricerca per l'Innovazione in Viticoltura ed Enologia, Dipartimento di Scienze Agrarie e Ambientali - Università degli Studi di Milano, via Celoria 2, 20133 Milano, Italy
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Dangl GS, Mendum ML, Yang J, Walker MA, Preece JE. Hybridization of cultivated Vitis vinifera with wild V. californica and V. girdiana in California. Ecol Evol 2015; 5:5671-84. [PMID: 27069616 PMCID: PMC4813103 DOI: 10.1002/ece3.1797] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2015] [Accepted: 10/02/2015] [Indexed: 01/20/2023] Open
Abstract
Hybridization of introduced domesticates and closely related natives is well documented in annual crops. The widespread introduction of the domesticated grapevine, Vitis vinifera, into California where it overlaps with two native congenerics, with which it is interfertile, provides opportunity to investigate hybridization between woody perennials. Although geographically widespread, the introduction over the past two centuries has been limited to a few elite clonal cultivars, providing a unique opportunity to study the effects of hybridization on the native species. The amount of hybridization with V. vinifera and the genetic diversity of wild-growing Vitis californica and Vitis girdiana were examined using nineteen microsatellite markers. STRUCTURE analysis was used to define hybrid and introgressed individuals and to analyze genetic structure of the native species. FAMOZ software was used to identify which V. vinifera cultivars served as parents of F 1 hybrids. The three species were clearly distinguished by STRUCTURE analysis. Thirty percent of 119 V. californica vines were hybrids. The domesticated parent was identified for 16 F 1 hybrid vines; the original California cultivar, 'Mission', was the parent of eight. Backcrosses were also found, showing introgression into subsequent generations. Similar results were obtained for a small sample of V. girdiana. Removing hybrids greatly reduced the genetic variation of the presumed pure species, among which there was essentially no genetic structure. Limited genetic variability indicates the California natives may be threatened by genetic erosion. The discovery of F 1 hybrids of 'Mission', a cultivar not grown in the areas for ~100 years, suggests long generation times for wild vines that, often, grow into expansive liana and propagate by layering, all factors that limit recruitment in populations already disjunct by habitat lose. Hermaphroditic flowers and fruit that is more attractive to birds may favor the production of backcross seed and establishment of introgressed individuals.
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Affiliation(s)
- Gerald S. Dangl
- Foundation Plant ServicesUniversity of California DavisOne Shields Ave.DavisCalifornia95616
| | - Mary Lou Mendum
- Department of Plant SciencesUniversity of California DavisOne Shields Ave.DavisCalifornia95616
| | - Judy Yang
- Foundation Plant ServicesUniversity of California DavisOne Shields Ave.DavisCalifornia95616
| | - M. Andrew Walker
- Department of Viticulture and EnologyUniversity of California DavisOne Shields Ave.DavisCalifornia95616
| | - John E. Preece
- National Clonal Germplasm RepositoryUSDA‐ARSUniversity of California DavisOne Shields AveDavisCalifornia95616
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Eyduran SP, Ercisli S, Akin M, Eyduran E. Genetic characterization of autochthonous grapevine cultivars from Eastern Turkey by simple sequence repeats (SSRs). BIOTECHNOL BIOTEC EQ 2015. [DOI: 10.1080/13102818.2015.1105726] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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