Characterization and selection of interspecific hybrids of Brachiaria decumbens for
            seed production in Campo Grande - MS

Monteiro, Lenise Castilho; Verzignassi, J. R.; Barrios, S. C. L.; Valle, Cacilda Borges do; Fernandes, C. D.; Benteo, Gleiciane de Lima; Libório, C. B.

doi:10.1590/1984-70332016v16n3a27

Cited by 6 publications

(5 citation statements)

References 4 publications

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“…This interspecific hybridization scheme has become the foundation of the Urochloa spp. breeding programs at CIAT and EMBRAPA (Lutts et al, 1991;Miles et al, 2006;Monteiro et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids

Matias

Meireles²,

Nagamatsu

et al. 2019

Preprint

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Although genotyping-by-sequencing (GBS) is a well-established marker technology in diploids, the development of best practices for tetraploid species is a topic of current research. We determined the theoretical relationship between read depth and expected genotype quality (EGQ) for tetraploid vs. diploidized genotype calls. If the GBS method has 1% error, then 17 reads are needed to classify tetraploid samples as heterozygous vs. homozygous with 95% accuracy, compared with 63 reads to determine allele dosage. We developed an R script to convert tetraploid GBS data in Variant Call Format (VCF) into diploidized genotype calls and applied it to 267 interspecific hybrids of the tetraploid forage grass Urochloa (syn. Brachiaria). When reads were aligned to a mock reference genome created from GBS data of the U. brizantha cultivar 'Marandu', 25,678 bi-allelic SNPs were discovered, compared to approximately 3000SNPs when aligning to the closest true reference genomes, Setaria viridis and S. italica. Crossvalidation revealed that missing genotypes were imputed by the Random Forest method with a median accuracy of 0.85, regardless of heterozygote frequency. Using the Urochloa spp. hybrids, we illustrated how filtering samples based only on GQ creates genotype bias; a depth threshold with corresponding EGQ equal to the GQ threshold is also needed, regardless of whether genotypes are called using a diploidized or allele dosage model.

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“…This interspecific hybridization scheme has become the foundation of the Urochloa spp. breeding programs at CIAT and EMBRAPA (Lutts et al, 1991;Miles et al, 2006;Monteiro et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids

Matias

Meireles²,

Nagamatsu

et al. 2019

Preprint

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show abstract

“…This interspecific hybridization scheme has become the foundation of the Urochloa spp. breeding programs at the International Center for Tropical Agriculture in Colombia and the Brazilian Agricultural Research Corporation (EMBRAPA) (Lutts et al, 1991;Miles et al, 2006;Monteiro et al, 2016). As in other crops, genome-wide markers can provide significant value for Urochloa spp.…”

mentioning

confidence: 99%

Expected Genotype Quality and Diploidized Marker Data from Genotyping‐by‐Sequencing of Urochloa spp. Tetraploids

et al. 2019

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The Plant Genome U rochloa is the most cultivated genus as pasture on tropical livestock farms because of its tolerance to acidic soils, good carrying capacity, insect resistance, and nutritional value (Jank et al., 2014; Pessoa-Filho et al., 2017). The most economically important species are U. decumbens (Stapf) R. D. Webster (syn. Brachiaria decumbens Stapf) and U. brizantha (Hochst. ex A. Rich.) R. D. Webster [syn. B. brizantha (Hochst. ex A. Rich.) Stapf], which are both tetraploid (2n = 4x = 36). Apomixis is the normal mode of reproduction in these species, and

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“…The genetic gain in this trait varied from 15.3 to 28.5 reproductive tillers per plant, raising the new average by 23.7%. Monteiro et al (2016), selecting interspecific hybrids of B. decumbens, obtained gains with the selection of 73, 114 and 174% (30, 20 and 10% intensity, respectively) with high heritability amounts (0.88) in the RT trait, which may be a parameter to predict the seed production potential in forage species. In another context, Pereira et al (2017), evaluating the genetic gain for forage traits in apomictic species of the genus Paspalum, low genetic variance and heritability (0.24) was observed for the number of tillers (TT), indicating difficulty in obtaining a genetic gain in the evaluated populations.…”

Section: Rr Lopes Et Almentioning

confidence: 99%

Genetic parameters and predicted gains with selection of interspecific hybrids of Paspalum for seed production

Lopes

Franke

Souza

et al. 2018

Crop Breed. Appl. Biotechnol.

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Characterization and selection of interspecific hybrids of Brachiaria decumbens for seed production in Campo Grande - MS

Abstract: The breeding program Brachiaria developed by Embrapa Beef Cattle

Cited by 6 publications

References 4 publications

Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids

Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids

Expected Genotype Quality and Diploidized Marker Data from Genotyping‐by‐Sequencing of Urochloa spp. Tetraploids

Genetic parameters and predicted gains with selection of interspecific hybrids of Paspalum for seed production

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