Genetic and environmental effects influencing fruit colour and QTL analysis in raspberry

McCallum, Susan; Woodhead, M.; Hackett, Christine A.; Kassim, Amir Hashim Mohd; Paterson, Alistair; Graham, Julie

doi:10.1007/s00122-010-1334-5

Cited by 58 publications

(54 citation statements)

References 59 publications

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“…Our map is composed entirely of markers derived from non-anonymous DNA sequences, the majority of which are EST-based or gene-derived. As this map was developed from an inter-specific progeny with 'Latham' as a parent, it can be aligned with existing R. idaeus 'Latham'-based maps (Graham et al 2004(Graham et al , 2006Kassim et al 2009;McCallum et al 2010;Sargent et al 2007;Woodhead et al 2008) to obtain a wider view of genetic diversity in Rubus. Overall, our map aligns with the existing maps.…”

Section: Inter-specific Rubus Genetic Map Constructionmentioning

confidence: 99%

Construction of black (Rubus occidentalis) and red (R. idaeus) raspberry linkage maps and their comparison to the genomes of strawberry, apple, and peach

Bushakra

Stephens²,

Atmadjaja

et al. 2012

Theor Appl Genet

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The genus Rubus belongs to the Rosaceae and is comprised of 600-800 species distributed world-wide. To date, genetic maps of the genus consist largely of non-transferable markers such as amplified fragment length polymorphisms. An F(1) population developed from a cross between an advanced breeding selection of Rubus occidentalis (96395S1) and R. idaeus 'Latham' was used to construct a new genetic map consisting of DNA sequence-based markers. The genetic linkage maps presented here are constructed of 131 markers on at least one of the two parental maps. The majority of the markers are orthologous, including 14 Rosaceae conserved orthologous set markers, and 60 new gene-based markers developed for raspberry. Thirty-four published raspberry simple sequence repeat markers were used to align the new maps to published raspberry maps. The 96395S1 genetic map consists of six linkage groups (LG) and covers 309 cM with an average of 10 cM between markers; the 'Latham' genetic map consists of seven LG and covers 561 cM with an average of 5 cM between markers. We used BLAST analysis to align the orthologous sequences used to design primer pairs for Rubus genetic mapping with the genome sequences of Fragaria vesca 'Hawaii 4', Malus × domestica 'Golden Delicious', and Prunus 'Lovell'. The alignment of the orthologous markers designed here suggests that the genomes of Rubus and Fragaria have a high degree of synteny and that synteny decreases with phylogenetic distance. Our results give unprecedented insights into the genome evolution of raspberry from the putative ancestral genome of the single ancestor common to Rosaceae.

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Section: Inter-specific Rubus Genetic Map Constructionmentioning

confidence: 99%

Construction of black (Rubus occidentalis) and red (R. idaeus) raspberry linkage maps and their comparison to the genomes of strawberry, apple, and peach

Bushakra

Stephens²,

Atmadjaja

et al. 2012

Theor Appl Genet

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“…This is made difficult by the fact that, while anthocyanin deficient (yellow/orange-fruited) mutants have been recognized for more than a century (Card, 1898) and differences in the relative proportion of anthocyanins have been reported (Dossett et al, 2008(Dossett et al, , 2010, little variation in the types of anthocyanins present in black raspberry fruit has been found. While a major effort to identify and map genes involved in anthocyanin biosynthesis and fruit color is underway in red raspberry (Kassim et al, 2009;McCallum et al, 2010), the apparent lack of variation in cultivated black raspberry has limited similar work in this crop. The objective of this study was to identify black raspberry seedlings, collected from wild populations, that might contain a novel anthocyanin profile, and to examine their potential for use in further studies on the genetic control of black raspberry anthocyanin biosynthesis.…”

Section: Introductionmentioning

confidence: 99%

Characterization of a novel anthocyanin profile in wild black raspberry mutants: An opportunity for studying the genetic control of pigment and color

Dossett

Lee

Finn

2011

Journal of Functional Foods

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Bramble Caneberry Cyanidin-3-rutinoside Rhamnose Rhamnosyltransferase A B S T R A C TThe type and amount of anthocyanins in raspberries, and other small fruits, has recently received increased attention. Black raspberry (Rubus occidentalis L.), in particular, has long been recognized as a rich source of anthocyanins and has been the focus of many recent studies examining their potential health benefits. In this study, we characterized a novel anthocyanin profile found in seedlings of two wild black raspberry populations collected from South Dakota, USA. Seedlings from these populations lack pigments glycosylated with rutinoside in their fruit, have elevated levels of cyanidin-3-sambubioside, and contain a small but significant amount of pelargonidin-3-glucoside, a pigment reported only once previously in black raspberry. Affected fruit also have lower than typical total anthocyanins (77.5-134.4 mg 100 mL À1 ). Based on the available evidence, we believe the plants have a mutation in the gene encoding anthocyanidin-3-glycoside rhamnosyltransferase (3RT), providing a unique opportunity to identify and study one of the major genes in the anthocyanin pathway and its effect on fruit anthocyanins and color.Published by Elsevier Ltd.

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“…It is supposed to be a complex trait involving not only the amount but also the type of pigments and co-pigments (Giusti et al, 1999; Castañeda-Ovando et al, 2009). Efforts have been made to identify and map the genes associated with anthocyanins in raspberry (Kassim et al, 2009; McCallum et al, 2010). Previous investigations carried out to explore the role of genes influencing pigmentation patterns propose that a dominant form of gene T plays crucial role in regulating the synthesis of anthocyanins (Crane and Lawrence, 1931).…”

Section: Introductionmentioning

confidence: 99%

Nonsense Mutation Inside Anthocyanidin Synthase Gene Controls Pigmentation in Yellow Raspberry (Rubus idaeus L.)

et al. 2016

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Yellow raspberry fruits have reduced anthocyanin contents and offer unique possibility to study the genetics of pigment biosynthesis in this important soft fruit. Anthocyanidin synthase (Ans) catalyzes the conversion of leucoanthocyanidin to anthocyanidin, a key committed step in biosynthesis of anthocyanins. Molecular analysis of the Ans gene enabled to identify an inactive ans allele in a yellow fruit raspberry (“Anne”). A 5 bp insertion in the coding region was identified and designated as ans+5. The insertion creates a premature stop codon resulting in a truncated protein of 264 amino acids, compared to 414 amino acids wild-type ANS protein. This mutation leads to loss of function of the encoded protein that might also result in transcriptional downregulation of Ans gene as a secondary effect, i.e., nonsense-mediated mRNA decay. Further, this mutation results in loss of visible and detectable anthocyanin pigments. Functional characterization of raspberry Ans/ans alleles via complementation experiments in the Arabidopsis thaliana ldox mutant supports the inactivity of encoded protein through ans+5 and explains the proposed block in the anthocyanin biosynthetic pathway in raspberry. Taken together, our data shows that the mutation inside Ans gene in raspberry is responsible for yellow fruit phenotypes.

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Genetic and environmental effects influencing fruit colour and QTL analysis in raspberry

Cited by 58 publications

References 59 publications

Construction of black (Rubus occidentalis) and red (R. idaeus) raspberry linkage maps and their comparison to the genomes of strawberry, apple, and peach

Construction of black (Rubus occidentalis) and red (R. idaeus) raspberry linkage maps and their comparison to the genomes of strawberry, apple, and peach

Characterization of a novel anthocyanin profile in wild black raspberry mutants: An opportunity for studying the genetic control of pigment and color

Nonsense Mutation Inside Anthocyanidin Synthase Gene Controls Pigmentation in Yellow Raspberry (Rubus idaeus L.)

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