Genomics Tools Across Rosaceae Species

Dirlewanger, Elisabeth; Denoyes-Rothan, Beatrice; Yamamoto, Takatsugu; Chagné, David

doi:10.1007/978-0-387-77491-6_26

Cited by 8 publications

(5 citation statements)

References 115 publications

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“…1) have been more scarce (Dirlewanger et al 2004(Dirlewanger et al , 2009aShulaev et al 2008;Peace and Norelli 2009). These molecular studies have been performed mainly in peach Pozzi and Vecchietti 2009), considered the model species; followed by almond (Martínez-Gómez et al 2007;Arús et al 2009), a very close species to peach; apricot (Folta and Gardiner 2009); cherry (Dirlewanger et al 2009b); and plum (Esmenjaud and Dirlewanger 2007).…”

Section: Introductionmentioning

confidence: 97%

New approaches to Prunus transcriptome analysis

et al. 2011

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The recent sequencing of the complete genome of the peach offers new opportunities for further transcriptomic studies in Prunus species in the called post-genomics era. First works on transcriptome analysis in Prunus species started in the early 2000s with the development of ESTs (expressed sequence tags) and the analysis of several candidate genes. Later, new strategies of massive analysis (high throughput) of transcriptomes have been applied, producing larger amounts of data in terms of expression of a large number of genes in a single experiment. One of these systems is massive transcriptome analysis using cDNA biochips (microarrays) to analyze thousands of genes by hybridization of mRNA labelled with fluorescence. However, the recent emergence of a massive sequencing methodology ("deep-sequencing") of the transcriptome (RNA-Seq), based on lowering the costs of DNA (in this cases complementary, cDNA) sequencing, could be more suitable than the application of microarrays. Recent papers have described the tremendous power of this technology, both in terms of profiling coverage and quantitative accuracy in transcriptomic studies. Now this technology is being applied to plant species, including Prunus. In this work, we analyze the potential in using this RNA-Seq technology in the study of Prunus transcriptomes and the development of genomic tools. In addition, the strengths and limitations of RNA-Seq relative to microarray profiling have been discussed.

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Section: Introductionmentioning

confidence: 97%

New approaches to Prunus transcriptome analysis

et al. 2011

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“…LGs among apple, pear, loquat (its wild relative bronze loquat Eriobotrya deflexa), and in particular almost perfect co-linearity around the loquat canker resistance locus at the top of LG 10. These findings suggest that all chromosomes of the genera in the tribe Pyreae show good co-linearity despite considerable differences in genome size (range, 1.11 pg/2C to 1.57 pg/2C) (Dickson et al, 1992;Dirlewanger et al, 2009) (Fig. 3).…”

Section: Identified Co-linearity Of Allmentioning

confidence: 84%

“…The basic chromosome number in Rosaceae members is x = 7, 8, 9, 15, or 17 (Dirlewanger et al, 2009;Evans and Campbell, 2002;Potter et al, 2007). The subfamily Rosoideae, which contains raspberry, rose, and strawberry, usually has the chromosome number x = 7.…”

Section: Pyrus and Malusmentioning

confidence: 99%

DNA Markers and Molecular Breeding in Pear and Other Rosaceae Fruit Trees

Yamamoto

2021

Hortic J

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Pear (Pyrus spp.) is one of the most important edible fruits belonging to the family Rosaceae. DNA markers, molecular genetics and genomics, and molecular breeding of pear have greatly progressed over the last few decades. The development of reliable DNA markers, such as simple sequence repeats and single nucleotide polymorphisms, has allowed DNA profiling of pear accessions, assessment of the genetic diversity within pear species, and analyses of phylogenetic relationships among pear species. Reference genetic linkage maps and genome-wide molecular markers have enabled practical marker-assisted selection for resistance to black spot and/or pear scab diseases, self-compatibility, harvest time, and fruit skin color in Japanese pear breeding programs. Molecular breeding has been shown to more than triple the selection efficiency of practical breeding compared with conventional breeding. Furthermore, breeding programs using two novel genomics-based approaches-genome-wide association studies and genomic selection-focusing on fruit quality and texture, and quantitative traits for breeding, are in progress. Co-linearity and functional synteny have been identified between pear and apple (Malus × domestica Borkh), and have been used to efficiently predict the function of a gene of interest and develop selection markers in related species.

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“…The genus Fragaria belongs to family Rosaceae that also contains a large number of commercially significant fruit crops and ornamental plants in it. Fragaria genus is added in to sub-family group Rosoideae that has about 20 difefernet species of the plant added in to it, with some of those being diploid, tetraploid, hexaploid and octaploid varieties [11]. The sub-family also consists a number of wild relatives of the crop such as, Fragaria nubicola and Fragaria vesca which are diploid wild relatives of commercial strawberries.…”

Section: Botanical Aspects Of Strawberry Cultivarsmentioning

confidence: 99%

Management Strategies for Botrytis Rot in Strawberry

Rehman,

Ali,

Hameed

et al. 2023

Edible Berries - New Insights

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Strawberry is major horticultural fruit crop grown across the globe. The crop is basis of a multibillion dollars food product industry and a major employer of the global population. Gray mold disease caused by pathogen Botrytis cinerea is responsible for massive pre-harvest and post-harvest losses in the crop making it a major challenge for the overall health of the industry. Furthermore, infected fruits are equally disliked by commercial buyers and domestic consumer resulting in to major losses for the growers. Rising populations and climate change factors are crucial in this aspect as well, because they have a negative impact on the overall yield of crop and can also lead to rapid mutations in pathogen genome making it more resilient to multiple climatic conditions. In this chapter we are going to discuss fundamentals of this issue, basic biology of the pathogen followed by conventional and modern approaches for disease control and future perspective.

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Genomics Tools Across Rosaceae Species

Cited by 8 publications

References 115 publications

New approaches to Prunus transcriptome analysis

New approaches to Prunus transcriptome analysis

DNA Markers and Molecular Breeding in Pear and Other Rosaceae Fruit Trees

Management Strategies for Botrytis Rot in Strawberry

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