Use of SSR-Tools for clone certification in Uruguayan Eucalyptus grandis and Eucalyptus dunniibreeding programs

Torres-Dini, Diego; Bennadji, Zohra; Cabrera, Milton; Centurión, Carmelo; Resquín, Fernando; Balmelli, Gustavo

doi:10.1186/1753-6561-5-s7-p58

Cited by 4 publications

(2 citation statements)

References 8 publications

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“…A probability value of complete identity of 3·96 × 10 −6 guarantees that the individual identity of each cassava hybrid, which is the probability of two genotypes being the same by chance, is 1 in 252 000. Thus, even though the probability reported in the present study is lower than the value observed by Torres-Dini et al (2011) while evaluating Eucalyptus clones using microsatellite markers for certification, in which the PI for all loci was 5·43 × 10 −9 and the probability of two individuals being the same by chance was 1 in 184 000 000, a high resolution power was observed in the present study and the paternity of the cassava hybrids were determined effectively.…”

Section: Discussioncontrasting

confidence: 72%

Development of interspecific hybrids of cassava and paternity analysis with molecular markers

et al. 2012

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The present paper demonstrates the development of interspecific hybrids between Manihot esculenta Crantz ssp. esculenta (Mee) and M. esculenta Crantz ssp. flabellifolia (Mef) and paternity analysis using microsatellite markers [simple sequence repeat (SSR)]. Three Mef accessions (FLA005, FLA025V and FLA029V) were used for crosses with varieties of Mee: Saracura, Aipim Bravo, COL 1725, Aipim Rosa, Abóbora, Paraná and PER334. The paternity of the interspecific hybrids was investigated using 24 SSRs. The observed heterozygosity (Ho), polymorphic information content (PIC), probability of identity (PI) and paternity exclusion (PE) were evaluated. The rate of breeding success varied from 17 to 92%, and an average of two pollinations were required for each generated hybrid plant. The Ho value ranged from 0·11 to 0·92, and the PIC value ranged from 0·12 to 0·59. The uneven distribution of allele frequencies was accompanied by a high PI average (0·56). However, the combined PE for 21 loci was 0·99, which allows for the determination of the paternity of the hybrids with good discriminatory power. Of the 74 hybrids evaluated, 0·82 had their paternity confirmed using microsatellite markers. Discriminant analysis of principal components (DAPC) indicated the presence of eight clusters, of which, one was composed of only Mef varieties and the supposed hybrid Fla52Sar-H7, which was a product of apomixis. The parent Mee and hybrids were allocated in the other seven clusters. The data obtained demonstrate that SSR markers can be routinely used in breeding programmes to verify the paternity of interspecific crosses of cassava.

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Section: Discussioncontrasting

confidence: 72%

Development of interspecific hybrids of cassava and paternity analysis with molecular markers

et al. 2012

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“…The importance of this analysis should be highlighted as its use can avoid the mislabelling of parentage, and which consequently compromises the certification of breeding programmes that guarantee the identity of a germplasm via genotyping (Torres-Dini et al, 2011;De Vieira et al, 2013;Shanmugapriya and Yasodha, 2014). Incorporating traditional breeding strategies with genotyping increases the level of knowledge about improvement populations, enabling a better selection of clones and preventing common errors, thus improving the effectiveness of decision-making for breeders.…”

Section: Snp Markersmentioning

confidence: 99%

Clonal selection ofEucalyptus grandis x Eucalyptus globulusfor productivity, adaptability, and stability, using SNP markers

et al. 2016

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In Uruguay, reforestations with Eucalyptus sp. is of fundamental importance to supply paper, pulp, and wood production. This study investigates genetic, productivity, stability, and adaptability parameters in the selection of Eucalypts grandis x Eucalyptus globulus full-sib hybrid clones. The study was conducted in a clonal test, repeated in two different soils types, in Rio Negro State, Uruguay. The population was characterized phenotypically for diameter at breast height (dbh) and genotyped for SNP markers (EuCHIP60K chip). Mean dbh was similar between sites and the genotype-environment interaction was simple. We found high genotype correlation in clone performance between environments (0.708), indicating the possibility of selecting the same clones for both study locations. Mean heritability between clones (0.724), coefficient of individual genetic variation (10.9 %), and relative variation (0.916), suggest the possibility of gains (estimated at 3.1 % for both sites together) by selecting clones with higher growth rates. A total of 15,196 SNPs were used to confirm parentage and test a genomic selection model for dbh. The predictive capacity was negative (-0.15) given the small population size (78 individuals). The most adaptable material among the tested study sites presented higher values for SNP heterozygosity. Thus, using molecular markers to identify clones responsive to environmental changes can act as a powerful tool in Eucalyptus breeding programs. The hybrid population showed greater adaptability than E. globulus for this region.

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DNA barcoding as a valuable molecular tool for the certification of planting materials in bamboo

et al. 2020

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DNA barcodes developed for selected commercially important bamboo species can be utilized for the certification of planting stock in bamboo nurseries in absence of discriminatory features at the juvenile stage. Planting materials such as micropropagated plantlets, rhizome transplants and culm cuttings, generated at nursery level are directly procured for establishment of commercial plantations without any further verification. Very often misidentification and mixing up occur at nursery level and the error is not discovered until several years have passed. The present study evaluated the potentiality of seven Consortium for Barcode of Life (CBOL) recommended standard DNA barcode regions in commercially important bamboo species of India. Among the analyzed barcode regions, multiple sequence alignment (MSA) of psbA-trnH barcode region showed species-specific nucleotide differences in the studied bamboo taxa. The major nucleotide changes observed were transitions/transversions as well as insertions/deletions of nucleotides. Even though species-specific mononucleotide differences could be identified for most of the studied bamboo taxa, a small amount of sequence similarities were found in some of the Dendrocalamus and Bambusa species, which were grouped together in tree-based analysis. In subtribe Melocanninae, Ochlandra travancorica, Melocanna baccifera and M. clarkei showed unique species-specific psbA-trnH barcodes. Similarly, in the genus Oxytenanthera, unique species-specific psbA-trnH barcodes were obtained for O. monadelpha and O. parvifolia. Thus psbA-trnH barcode region generated distinct species-specific barcodes for commercial bamboo species in genera Bambusa, Dendrocalamus, Melocanna, Oxytenanthera as well as Ochlandra. Any national certification agency set up for the purpose can utilize psbA-trnH DNA barcode region to tag species identity and to establish the authenticity of multiplied planting materials in bamboos.

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Use of SSR-Tools for clone certification in Uruguayan Eucalyptus grandis and Eucalyptus dunniibreeding programs

Cited by 4 publications

References 8 publications

Development of interspecific hybrids of cassava and paternity analysis with molecular markers

Development of interspecific hybrids of cassava and paternity analysis with molecular markers

Clonal selection ofEucalyptus grandis x Eucalyptus globulusfor productivity, adaptability, and stability, using SNP markers

DNA barcoding as a valuable molecular tool for the certification of planting materials in bamboo

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