Genetic diversity among common bean cultivars based on agronomic traits and molecular markers and application to recommendation of parent lines

Pereira, H. S.; Mota, A. P. S.; Rodrigues, Luiz; Souza, T. L. P. O. de; Melo, L. C.

doi:10.1007/s10681-018-2324-y

Cited by 41 publications

(47 citation statements)

References 20 publications

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“…In the case of the carioca commercial class, the complexity is even greater since any change in the ideotype leads to a devaluation of the grain on the market. For that reason, Brazilian common bean breeding programs usually prefer crosses among elite carioca cultivars, due to the additive effects of quantitative traits, obtaining superior advanced bean lines [ 64 , 99 ].…”

Section: Discussionmentioning

confidence: 99%

“…Recent studies have shown that as a result of the limitation of the operational capacity of breeding programs, the right choice of parents for genetic improvement is extremely important [ 64 , 69 , 100 ]. Some authors have reported the possibility of selecting superior parents based only on genotypic information.…”

Section: Discussionmentioning

confidence: 99%

“…In addition to the resistance loci, several studies have reported many ANT resistance sources from mainly cultivars of Andean origin [43,45,48,49,[55][56][57][58], and also some of Mesoamerican origin, belonging to the black or special bean commercial classes [30,33,34,40,[59][60][61][62][63]. Currently, developing new carioca cultivars through breeding is still a challenge as the variety demands high grain quality [64]. Breeding programs routinely exploit only the elite germplasm, which results in a narrow genetic base [65].…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans

et al. 2021

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Brazil is the largest consumer of dry edible beans (Phaseolus vulgaris L.) in the world, 70% of consumption is of the carioca variety. Although the variety has high yield, it is susceptible to several diseases, among them, anthracnose (ANT) can lead to losses of up to 100% of production. The most effective strategy to overcome ANT, a disease caused by the fungus Colletotrichum lindemuthianum, is the development of resistant cultivars. For that reason, the selection of carioca genotypes resistant to multiple ANT races and the identification of loci/markers associated with genetic resistance are extremely important for the genetic breeding process. Using a carioca diversity panel (CDP) with 125 genotypes and genotyped by BeadChip BARCBean6K_3 and a carioca segregating population AM (AND-277 × IAC-Milênio) genotyped by sequencing (GBS). Multiple interval mapping (MIM) and genome-wide association studies (GWAS) were used as mapping tools for the resistance genes to the major ANT physiological races present in the country. In general, 14 single nucleotide polymorphisms (SNPs) showed high significance for resistance by GWAS, and loci associated with multiple races were also identified, as the Co-3 locus. The SNPs ss715642306 and ss715649427 in linkage disequilibrium (LD) at the beginning of chromosome Pv04 were associated with all the races used, and 16 genes known to be related to plant immunity were identified in this region. Using the resistant cultivars and the markers associated with significant quantitative resistance loci (QRL), discriminant analysis of principal components (DAPC) was performed considering the allelic contribution to resistance. Through the DAPC clustering, cultivar sources with high potential for durable anthracnose resistance were recommended. The MIM confirmed the presence of the Co-14 locus in the AND-277 cultivar which revealed that it was the only one associated with resistance to ANT race 81. Three other loci were associated with race 81 on chromosomes Pv03, Pv10, and Pv11. This is the first study to identify new resistance loci in the AND-277 cultivar. Finally, the same Co-14 locus was also significant for the CDP at the end of Pv01. The new SNPs identified, especially those associated with more than one race, present great potential for use in marker-assisted and early selection of inbred lines.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans

et al. 2021

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“…With the current advances in molecular markers, a number of studies have been conducted to assess genetic diversity, population structure, and genome-wide association in the common bean. A wide range of molecular markers, including restriction fragment length polymorphisms (RFLPs; Velasquez and Gepts, 1994;Freyre et al, 1998), random amplified polymorphic DNA (RAPD; Beebe et al, 2000;Durán et al, 2005), inter simple sequence repeats (ISSRs; González et al, 2005;Dagnew et al, 2014), amplified fragment length polymorphisms (AFLPs; Beebe et al, 2001;Papa and Gepts, 2003), simple sequence repeats (SSRs; Blair et al, 2007Blair et al, , 2009Blair et al, , 2010aAsfaw et al, 2009;Kwak and Gepts, 2009;Burle et al, 2010;McClean et al, 2012;De La Fuente et al, 2013;Mercati et al, 2013;Okii et al, 2014Okii et al, , 2017Gioia et al, 2019;Pereira et al, 2019), and single nucleotide polymorphisms (SNPs; Cortés et al, 2011;Blair et al, 2013;Goretti et al, 2013;Cichy et al, 2015a;Rodriguez et al, 2016;Lobaton et al, 2018;Raatz et al, 2019), have been used in common bean.…”

Section: Population Structure and Genome-wide Association Analysis Ofmentioning

confidence: 99%

Population Structure and Genome‐Wide Association Analysis of Bruchid Resistance in Ethiopian Common Bean Genotypes

et al. 2019

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The common bean (Phaseolus vulgaris L.) is among the most important grain legume crops in Africa. However, the common bean grain is heavily damaged by the Mexican bean weevil (Zabrotes subfasciatus Boheman). This study was conducted to determine the population structure and genome‐wide marker–trait associations of bruchid resistance in the common bean. The phenotypic diversity and population structure of 297 genotypes were analyzed, using the Illumina BARCBean6K_3 SNP BeadChip. The genotypes consisted of landraces, released varieties, breeding lines, and Mexican bean weevil resistant lines. A population structure analysis based on a Bayesian genotype clustering approach classified the 297 genotypes into two subpopulations, namely, Middle American and Andean. Similar population patterns were also observed using principal component analysis. The genome‐wide association study analysis identified 24 single‐nucleotide polymorphisms (SNPs) on nine chromosomes, with a significant (P < 0.05) association with the percentages of adult emergence and seed weight loss. The SNPs located on Pv4 and Pv7 were significantly (P < 0.001) associated with the two traits. Other significant SNPs were identified on other chromosomes of the common bean, but none of them was above the cutoff point (1.00 × 10−4). Therefore, further verification of the SNPs that have a significant marker–trait association at P < 0.05 will be vital, and accessions with these SNPs may be useful as parental materials.

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“…To meet this demand, common beans are grown throughout the all year under different cultivation systems and with different technological levels (Heinemann et al, 2016). In general, Brazilian consumers prefer the Mesoamerican carioca (cream seed coat with brown stripes) and black beans, which represent around 70 and 15% of total common bean production, respectively (Pereira et al, 2019).…”

Section: Introductionmentioning

confidence: 99%

Genetic Progress of Seed Yield and Nitrogen Use Efficiency of Brazilian carioca Common Bean Cultivars Using Bayesian Approaches

et al. 2020

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Genetic diversity among common bean cultivars based on agronomic traits and molecular markers and application to recommendation of parent lines

Cited by 41 publications

References 20 publications

Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans

Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans

Population Structure and Genome‐Wide Association Analysis of Bruchid Resistance in Ethiopian Common Bean Genotypes

Genetic Progress of Seed Yield and Nitrogen Use Efficiency of Brazilian carioca Common Bean Cultivars Using Bayesian Approaches

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