Application of DNA Markers for Identification and Breeding of Perennial Fruit Crops

Lavi, Uri; Cregan, Perry B.; Schaap, Tamar; Hillel, J.

doi:10.1002/9780470650493.ch7

Cited by 13 publications

(7 citation statements)

References 134 publications

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“…Although numerous crop breeding programs are benefiting from new molecular genotyping approaches, these advances are slower in most woody perennial species and especially in tropical and subtropical fruit crops since, in most cases, no previous significant genomic information is available. Regarding avocado, in spite of the different ongoing breeding programs and different types of molecular markers that have been developed and used in the last two decades 5,8,10,14–19,28–31,40,42,43 , there is still a need to generate additional markers that can be used at a large scale, especially to link molecular markers to most of the traits of agronomic interest, that are controlled by multiple genes. Thereby, the use of new approaches such as high throughput sequencing can fill this gap in order to speed up avocado breeding as has occurred in other crops.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide SNP discovery and genomic characterization in avocado (Persea americana Mill.)

Talavera

Soorni

Bombarely

et al. 2019

Sci Rep

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Modern crop breeding is based on the use of genetically and phenotypically diverse plant material and, consequently, a proper understanding of population structure and genetic diversity is essential for the effective development of breeding programs. An example is avocado, a woody perennial fruit crop native to Mesoamerica with an increasing popularity worldwide. Despite its commercial success, there are important gaps in the molecular tools available to support on-going avocado breeding programs. In order to fill this gap, in this study, an avocado ‘Hass’ draft assembly was developed and used as reference to study 71 avocado accessions which represent the three traditionally recognized avocado horticultural races or subspecies (Mexican, Guatemalan and West Indian). An average of 5.72 M reads per individual and a total of 7,108 single nucleotide polymorphism (SNP) markers were produced for the 71 accessions analyzed. These molecular markers were used in a study of genetic diversity and population structure. The results broadly separate the accessions studied according to their botanical race in four main groups: Mexican, Guatemalan, West Indian and an additional group of Guatemalan × Mexican hybrids. The high number of SNP markers developed in this study will be a useful genomic resource for the avocado community.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide SNP discovery and genomic characterization in avocado (Persea americana Mill.)

Talavera

Soorni

Bombarely

et al. 2019

Sci Rep

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“…RAPD markers have greater utility than protein markers, because of their abundance in the genome, stability and their high level of DNA polymorphism (Lavi et al, 1994;Arumuganathan and Earle, 1991;Litz, 1997).…”

Section: Rapd-pcr Analysismentioning

confidence: 99%

Molecular Markers for Self Incompatibility Phenomena in Some Mango Cultivars

Maklad¹,

Desouky²,

Rashed³

et al. 2011

Egyptian Journal of Genetics and Cytology

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“…DNA fingerprinting can be employed for individual identification of cultivars or rootstock for different horticultural purpose, such as breeder's right, identification of pollen parents and determination of genetic relatedness (Lavi et al, 1993). The potential of SSR markers in fingerprinting is well established in mango (Viruel et al, 2005;Shareefa, 2008).…”

Section: Resultsmentioning

confidence: 99%

Molecular characterization of ten mango cultivars using simple sequences repeat (SSR) markers

Kumar¹,

Ponnuswami²,

Nagarajan³

et al. 2013

Afr. J. Biotechnol.

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Simple sequence repeats (SSRs) which is an efficient genetic markers for comparative genome mapping can be helpful in the classification of genotypes, germplasm resource utilization and breeding programmes. Therefore, the present study was conducted to show genetic variation and investigate inter-relationship between ten mango genotypes. Twenty (20) SSR markers were tested with 10 genotypes: Kalepad, Neelum, Swarnarekha, Alphonso Rumani, Sendura, Banganapalli, Himayuddin, Mulgoa and Bangalora. The genomic DNA was extracted from the leaf samples using cetyltrimethyl ammonium bromide (CTAB) method. Polymerase chain reaction (PCR) amplification of the DNA isolated from 10 mango genotypes with 20 SSR primers produced a total of 240 amplified products, of which 184 were polymorphic and 56 monomorphic. The sizes of the alleles detected ranged from 120 to 369 bp. SSR markers were highly polymorphic with an average of 2.70 alleles per primers. SSRs gave moderate values of polymorphic information content (PIC) range of 0.320 to 0.774. The amplified products varied between 2 (LMMA 1, 5, 7, 12, 16, MiSHRS-1 and MiSHRS-37) to 3 and 4 (LMMA 4, 6, 9, 10, 11, 13, 14, 15 MiSHRS-4, 48, 18, 39 and LMMA 8) bands per primer. We obtained moderate degree of genetic diversity, with Jaccard's similarity co-efficient values ranging from 0.075 between cluster I and II to 0.285 between clusters II and III. The dendrogram generated from the unweighted pair group arithmetic average (UPGMA) cluster analysis broadly placed 10 mango cultivars into three major clusters at co-efficient similarity of 0.65. The cluster size varied from 1 to 6 and cluster III was the largest cluster comprising of six cultivars followed by cluster II possessing three and cluster I possessing one variety. Cluster I had the highest diverse cultivars namely, Kalepad, Neelum and Swarnarekha. Cluster II included cultivar of Alphonso. Cluster III contain the cultivars viz., Rumani, Sendura, Bangnapalli, Himayuddin, Mulgoa and Bangalora. Unique fingerprints were identified in the cultivars. The unique fingerprints size ranged from LMMA-8 (257-270 bp), LMMA-11 (232-245 bp) to MiSHRS 39 (340-369 bp). The tendency of clustering among mango cultivars revealed that they have strong affinity towards further breeding programme.

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Application of DNA Markers for Identification and Breeding of Perennial Fruit Crops

Cited by 13 publications

References 134 publications

Genome-Wide SNP discovery and genomic characterization in avocado (Persea americana Mill.)

Genome-Wide SNP discovery and genomic characterization in avocado (Persea americana Mill.)

Molecular Markers for Self Incompatibility Phenomena in Some Mango Cultivars

Molecular characterization of ten mango cultivars using simple sequences repeat (SSR) markers

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