scholarly journals Genome-wide association analysis of bean fly resistance and agro-morphological traits in common bean

PLoS ONE ◽  
2021 ◽  
Vol 16 (4) ◽  
pp. e0250729
Author(s):  
Wilson Nkhata ◽  
Hussein Shimelis ◽  
Rob Melis ◽  
Rowland Chirwa ◽  
Tenyson Mzengeza ◽  
...  
Keyword(s):  
Common Bean ◽  
Significant Variation ◽  
Morphological Traits ◽  
Agronomic Traits ◽  
Insect Pest ◽  
Snp Markers ◽  
Crop Damage ◽  
Gene Pools ◽  
Economic Traits ◽  
Bean Fly

The bean fly (Ophiomyia spp) is a key insect pest causing significant crop damage and yield loss in common bean (Phaseolus vulgaris L., 2n = 2x = 22). Development and deployment of agronomic superior and bean fly resistant common bean varieties aredependent on genetic variation and the identification of genes and genomic regions controlling economic traits. This study’s objective was to determine the population structure of a diverse panel of common bean genotypes and deduce associations between bean fly resistance and agronomic traits based on single nucleotide polymorphism (SNP) markers. Ninety-nine common bean genotypes were phenotyped in two seasons at two locations and genotyped with 16 565 SNP markers. The genotypes exhibited significant variation for bean fly damage severity (BDS), plant mortality rate (PMR), and pupa count (PC). Likewise, the genotypes showed significant variation for agro-morphological traits such as days to flowering (DTF), days to maturity (DTM), number of pods per plant (NPP), number of seeds per pod (NSP), and grain yield (GYD). The genotypes were delineated into two populations, which were based on the Andean and Mesoamerican gene pools. The genotypes exhibited a minimum membership coefficient of 0.60 to their respective populations. Eighty-three significant (P<0.01) markers were identified with an average linkage disequilibrium of 0.20 at 12Mb across the 11 chromosomes. Three markers were identified, each having pleiotropic effects on two traits: M100049197 (BDS and NPP), M3379537 (DTF and PC), and M13122571 (NPP and GYD). The identified markers are useful for marker-assisted selection in the breeding program to develop common bean genotypes with resistance to bean fly damage.

scholarly journals Molecular Hallmarks, Agronomic Performances and Seed Nutraceutical Properties to Exploit Neglected Genetic Resources of Common Beans Grown by Organic Farming in Two Contrasting Environments

2021 ◽  
Vol 12 ◽  
Author(s):  
Pietro Sica ◽  
Francesco Scariolo ◽  
Aline Galvao ◽  
Domiziana Battaggia ◽  
Carlo Nicoletto ◽  
...  
Keyword(s):  
Genetic Resources ◽  
Common Bean ◽  
Sea Level ◽  
Seed Yield ◽  
Molecular Genetic ◽  
Snp Markers ◽  
Gene Pools ◽  
Crop Species ◽  
Pure Lines ◽  
Nutraceutical Properties

Common bean (Phaseolus vulgaris L.) is an essential source of food proteins and an important component of sustainable agriculture systems around the world. Thus, conserving and exploiting the genetic materials of this crop species play an important role in achieving global food safety and security through the preservation of functional and serependic opportunities afforded by plant species diversity. Our research aimed to collect and perform agronomic, morpho-phenological, molecular-genetic, and nutraceutical characterizations of common bean accessions, including lowland and mountain Venetian niche landraces (ancient farmer populations) and Italian elite lineages (old breeder selections). Molecular characterization with SSR and SNP markers grouped these accessions into two well-separated clusters that were linked to the original Andean and Mesoamerican gene pools, which was consistent with the outputs of ancestral analysis. Genetic diversity in the two main clusters was not distributed equally the Andean gene pool was found to be much more uniform than the Mesoamerican pool. Additional subdivision resulted in subclusters, supporting the existence of six varietal groups. Accessions were selected according to preliminary investigations and historical records and cultivated in two contrasting Venetian environments: sea-level and mountain territories. We found that the environment significantly affected some nutraceutical properties of the seeds, mainly protein and starch contents. The antioxidant capacity was found significantly greater at sea level for climbing accessions and in the mountains for dwarf accessions. The seed yield at sea level was halved than mountain due to a seeds reduction in weight, volume, size and density. At sea level, bean landraces tended to have extended flowering periods and shorter fresh pod periods. The seed yield was positively correlated with the length of the period during which plants had fresh pods and negatively correlated with the length of the flowering period. Thus, the agronomic performance of these genetic resources showed their strong connection and adaptation to mountainous environments. On the whole, the genetic-molecular information put together for these univocal bean entries was combined with overall results from plant and seed analyses to select and transform the best accessions into commercial varieties (i.e., pure lines) suitable for wider cultivation.

scholarly journals Population structure and genetic diversity analyses of common bean germplasm collections of East and Southern Africa using morphological traits and high-density SNP markers

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0243238
Author(s):  
Wilson Nkhata ◽  
Hussein Shimelis ◽  
Rob Melis ◽  
Rowland Chirwa ◽  
Tenyson Mzengeza ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Variation ◽  
Common Bean ◽  
Southern Africa ◽  
Crop Improvement ◽  
Phenotypic Expression ◽  
Snp Markers ◽  
High Yield ◽  
Gene Pools

Knowledge of genetic diversity in plant germplasm and the relationship between genetic factors and phenotypic expression is vital for crop improvement. This study's objectives were to understand the extent of genetic diversity and population structure in 60 common bean genotypes from East and Southern Africa. The common bean genotypes exhibited significant (p<0.05) levels of variability for traits such as days to flowering (DTF), days to maturity (DTM), number of pods per plant (NPP), number of seeds per pod (NSP), and grain yield per hectare in kilograms (GYD). About 47.82 per cent of the variation among the genotypes was explained by seven principal components (PC) associated with the following agronomic traits: NPP, NFF (nodes to first flower), DTF, GH (growth habit) and GYD. The SNP markers revealed mean gene diversity and polymorphic information content values of 0.38 and 0.25, respectively, which suggested the presence of considerable genetic variation among the assessed genotypes. Analysis of molecular variance showed that 51% of the genetic variation were between the gene pools, while 49% of the variation were within the gene pools. The genotypes were delineated into two distinct groups through the population structure, cluster and phylogenetic analyses. Genetically divergent genotypes such as DRK57, MW3915, NUA59, and VTTT924/4-4 with high yield and agronomic potential were identified, which may be useful for common bean improvement.

Performance Evaluation of Grain Yield and Yield Related Traits in Common bean Genotypes at Yabello and Abaya, Southern Ethiopia

1970 ◽  
Vol 3 ◽  
pp. 28-34
Author(s):  
Ejigu Ejara, Wassu Mohammed, Berhanu Amsalu ◽  
Zinash Misgana, Mulatu Gabisa, Ganane Tasama
Keyword(s):  
Grain Yield ◽  
Common Bean ◽  
Agronomic Traits ◽  
Southern Ethiopia ◽  
Design Data ◽  
Nutrition Security ◽  
Lattice Design ◽  
Food And Nutrition ◽  
Borana Zone ◽  
Home Consumption

Common bean is among the major crops grown in southern Ethiopia including Borana zone where the majority of the farmers are Agro-pastoralist and produce the crop mainly for home consumption. The area has potential to the production of common bean for food and nutrition security as well as export commodity. However, scarcity of varieties that fit to the environment is one of the major constraints of production. Therefore, this experiment was conducted to evaluate 36 common bean genotypes including seven released varieties to evaluate performance of genotypes for yield and agronomic traits. The field experiment was conducted in 2015 at two locations (Abaya and Yabello) and genotypes were planted in triple lattice design. Data were collected on yield and important agronomic traits. Analysis of variance computed for individual locations and combined analysis over locations revealed significant variations among genotypes for all traits. Moreover, 16.67% of the genotypes had mean grain yield greater than the best performing released variety across locations and the genotypes showed a grain yield as high as 3.25 tons ha-1. Based on results of this study it is recommended to test the high yielding and early maturing genotypes at many locations to develop preferred varieties across many locations.

scholarly journals Supporting Physiological Trait for Indirect Selection for Grain Yield in Drought-Stressed Popcorn

Plants ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1510
Author(s):  
Samuel Henrique Kamphorst ◽  
Gabriel Moreno Bernardo Gonçalves ◽  
Antônio Teixeira do Amaral Júnior ◽  
Valter Jário de Lima ◽  
Kátia Fabiane Medeiros Schmitt ◽  
...  
Keyword(s):  
Grain Yield ◽  
Multiple Regression ◽  
Morphological Traits ◽  
Vegetation Index ◽  
Agronomic Traits ◽  
Indirect Selection ◽  
Leaf Angle ◽  
Water Restriction ◽  
Leaf Greenness ◽  
Selection Of

The identification of traits associated with drought tolerance in popcorn is a contribution to support selection of superior plants under soil water deficit. The objective of this study was to choose morphological traits and the leaf greenness index, measured on different dates, to estimate grain yield (GY) and popping expansion (PE), evaluated in a set of 20 popcorn lines with different genealogies, estimated by multiple regression models. The variables were divided into three groups: morpho-agronomic traits—100-grain weight (GW), prolificacy (PR), tassel length (TL), number of tassel branches, anthesis-silking interval, leaf angle (FA) and leaf rolling (FB); variables related to the intensity of leaf greenness during the grain-filling period, at the leaf level, measured by a portable chlorophyll meter (SPAD) and at the canopy level, calculated as the normalized difference vegetation index (NDVI). The inbred lines were cultivated under two water conditions: well-watered (WW), maintained at field capacity, and water stress (WS), for which irrigation was stopped before male flowering. The traits GY (55%) and PE (28%) were most affected by water restriction. Among the morpho-agronomic traits, GW and PR were markedly reduced (>10%). Under dry conditions, the FA in relation to the plant stalk tended to be wider, the FB curvature greater and leaf senescence accelerated (>15% at 22 days after male flowering). The use of multiple regression for the selection of predictive traits proved to be a useful tool for the identification of groups of adequate traits to efficiently predict the economically most important features of popcorn (GY and PE). The SPAD index measured 17 days after male flowering proved useful to select indirectly for GY, while, among the morphological traits, TL stood out for the same purpose. Of all traits, PR was most strongly related with PE under WS, indicating its use in breeding programs. The exploitation of these traits by indirect selection is expected to induce increments in GY and PE.

scholarly journals Genetic Diversity of Common Bean Genotypes as Revealed By Seed Storage Proteins and Some Agronomic Traits

2014 ◽  
Vol 67 (1) ◽  
pp. 125-137 ◽  
Author(s):  
Akbar Marzooghian ◽  
Mohammad Moghaddam ◽  
Mostafa Valizadeh ◽  
Mohammad Hasan Kooshki
Keyword(s):  
Genetic Diversity ◽  
Common Bean ◽  
Yield Components ◽  
Storage Proteins ◽  
Agronomic Traits ◽  
Morphological Characteristics ◽  
Seed Proteins ◽  
Seed Storage ◽  
Seed Storage Proteins ◽  
Seed Morphology

AbstractEvaluation of the genetic diversity present within species is essential for conservation, management and utilization of the genetic resources. The objective of this study was to evaluate genetic variability of 70 common bean genotypes for seed storage proteins, grain morphological characteristics and agronomic traits. Two methods of extracting soluble seed proteins in salt were used.Positive correlations were observed among both seed morphological characters and developmental characters while yield components showed negative correlations with each other. Factor analysis for agronomic and grain morphological traits resulted in three factors were named yield components, seed morphology and phenology, respectively. Most genotypes had lower or medium scores for yield components and phenology factors. Considerable diversity was observed for seed morphology factor among the common bean genotypes.Nei’s diversity coefficient (He= 0.4), effective number of alleles (Ae= 1.69) and number of polymorphic loci (N = 17) indicated larger variation in the extraction method of soluble proteins in low salt (0.2 M NaCl) than high salt (1 M NaCl) condition. Considering that the centers of diversity for common bean are different in seed size, the result of Gst statistics showed that bands with relative mobility of 30, 32, 38 and 40 differentiated two weight groups more than other bands. Furthermore, significant differences were observed between these bands for number of pods per plant and number of seeds per plant.

scholarly journals Genetic diversity and selection of genotypes to enhance Zn and Fe content in common bean

2010 ◽  
Vol 90 (1) ◽  
pp. 49-60 ◽  
Author(s):  
Z I Talukder ◽  
E Anderson ◽  
P N Miklas ◽  
M W Blair ◽  
J Osorno ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Common Bean ◽  
Allelic Variation ◽  
Gene Pools ◽  
Gene Sequences ◽  
Mineral Contents ◽  
Discriminatory Ability ◽  
Fe Content ◽  
Mapping Populations ◽  
Selection Of

Common bean (Phaseolus vulgaris L.) is an important source of dietary protein and minerals worldwide. Genes conditioning variability for mineral contents are not clearly understood. Our ultimate goal is to identify genes conditioning genetic variation for Zn and Fe content. To establish mapping populations for this objective, we tested mineral content of 29 common bean genotypes. Chemical analyses revealed significant genetic variability for seed Zn and Fe contents among the genotypes. Genetic diversity was evaluated with 49 primer pairs, of which 23 were simple sequence repeats (SSR), 16 were developed from tentative consensus (TC) sequences, and 10 were generated from common bean NBS-LRR gene sequences. The discriminatory ability of molecular markers for identifying allelic variation among genotypes was estimated by polymorphism information content (PIC) and the genetic diversity was measured from genetic similarities between genotypes. Primers developed from NBS-LRR gene sequences were highly polymorphic in both PIC values and number of alleles (0.82 and 5.3), followed by SSRs (0.56 and 3.0), and markers developed from TC (0.39 and 2.0). genetic similarity values between genotypes ranged from 14.0 (JaloEEP558 and DOR364) to 91.4 (MIB152 and MIB465). Cluster analysis clearly discriminated the genotypes into Mesoamerican and Andean gene pools. Common bean genotypes were selected to include in crossing to enhance seed Zn and Fe content based on genetic diversity and seed mineral contents of the genotypes. Key words: Common bean, genetic diversity, mineral nutrients, breeding

scholarly journals Genome-wide association study and genomic selection for plant height, maturity, seed weight, and yield in soybean

2019 ◽  
Author(s):  
Waltram Ravelombola ◽  
Jun Qin ◽  
Ainong Shi ◽  
Fengmin Wang ◽  
Yan Feng ◽  
...  
Keyword(s):  
Association Study ◽  
Genomic Selection ◽  
Candidate Genes ◽  
Plant Height ◽  
Seed Weight ◽  
Genome Wide Association Study ◽  
Agronomic Traits ◽  
Snp Markers ◽  
Genome Wide Association ◽  
Genome Wide

Abstract Background Soybean [ Glycine max (L.) Merr.] is a legume of great interest worldwide. Enhancing genetic gain for agronomic traits via molecular approaches has been long considered as the main task for soybean breeders and geneticists. The objectives of this study were to evaluate maturity, plant height, seed weight, and yield in a diverse soybean accession panel, to conduct a genome-wide association study (GWAS) for these traits and identify SNP markers associated with the four traits, and to assess genomic selection (GS) accuracy. Results A total of 250 soybean accessions were evaluated for maturity, plant height, seed weight, and yield over three years. This panel was genotyped with a total of 10,259 high quality SNPs postulated from genotyping by sequencing (GBS). GWAS was performed using a Bayesian Information and Linkage Disequilibrium Iteratively Nested Keyway (BLINK) model, and GS was evaluated using a ridge regression best linear unbiased predictor (rrBLUP) model. The results revealed that a total of 20, 31, 37, 31, and 23 SNPs were significantly associated with the average 3-year data for maturity, plant height, seed weight, and yield, respectively; some significant SNPs were mapped into previously described loci ( E2 , E4 , and Dt1 ) affecting maturity and plant height in soybean and a new locus mapped on chromosome 20 was significantly associated with plant height; Glyma.10g228900 , Glyma.19g200800 , Glyma.09g196700 , and Glyma.09g038300 were candidate genes found in the vicinity of the top or the second best SNP for maturity, plant height, seed weight, and yield, respectively; a 11.5-Mb region of chromosome 10 was associated with both seed weight and yield; and GS accuracy was trait-, year-, and population structure-dependent. Conclusions The SNP markers identified from this study for plant height, maturity, seed weight and yield can be used to improve the four agronomic traits through marker-assisted selection (MAS) and GS in soybean breeding programs. After validation, the candidate genes can be transferred to new cultivars using SNP markers through MAS. The high GS accuracy has confirmed that the four agronomic traits can be selected in molecular breeding through GS.

scholarly journals Bioaktivitas ekstrak biji bintaro terhadap kutu daun Aphis gossypii GLOVER dan pengaruhnya terhadap tanaman cabai

Jurnal Agro ◽  
10.15575/8380 ◽  
2020 ◽  
Vol 7 (2) ◽  
pp. 179-192
Author(s):  
Rial Mustiarif ◽  
Djamilah Djamilah ◽  
Nanik Setyowati ◽  
Agustin Zakarni
Keyword(s):  
Insect Pest ◽  
Aphis Gossypii ◽  
Dry Weight ◽  
Seed Extract ◽  
Crop Damage ◽  
Time Of Application ◽  
Randomized Design ◽  
Aphis Gossypii Glover ◽  
Before And After ◽  
Two Factors

Aphis gossypii Glover hama penting tanaman cabai, dapat dikendalian dengan menggunakan pestisida nabati. Penelitian bertujuan untuk mengevaluasi waktu aplikasi dan konsentrasi ekstrak kasar biji bintaro (Cerbera odollam G.) dalam mengendalikan A. gossypii Glover serta pengaruhnya terhadap pertumbuhan tanaman cabai. Penelitian menggunakan Rancangan Acak Lengkap, dua faktor dan tiga ulangan. Faktor pertama adalah waktu aplikasi ekstrak (waktu sebelum dan waktu setelah infestasi A. gossypii Glover). Faktor kedua adalah konsentrasi ekstrak bintaro (0%, 1%, 2%, 3%, 4% dan 5%). Hasil penelitian menunjukkan konsentrasi 1% ekstrak biji bintaro menyebabkan mortalitas kutu daunnya 68% sedangkan pada konsentrasi 3% mortalitasnya mencapai 90%. Ekstrak biji bintaro yang diberikan sebelum hama diinfestasikan menyebabkan mortalitas kutu daun 59,5% sedangkan jika diberikan setelah hama diinfestasikan mortalitasnya meningkat menjadi 77,6%. Nilai LC50 dan LC90 ekstrak biji bintaro diaplikasikan sebelum dan setelah hama diinfestasikan secara berurutan adalah 1,8%; 4,4%; 0,57% dan 2,8%. A. gossypii Glover yang diinfestasikan pada tanaman berumur 4 minggu dan disemprot dengan ekstrak biji bintaro pada konsentrasi 1% dapat menurunkan intensitas kerusakan pada hari ke tujuh setelah infestasi dan tidak berpengaruh terhadap jumlah daun, bobot segar maupun bobot kering tanaman cabai. Ekstrak biji bintaro dapat dikembangkan sebagai pestisida nabati untuk mengendalikan hama A. gossypii Glover pada tanaman cabai. Aphis gossypii Glover is an important sucking insect pest of the pepper (Capsicum annum L.), Can be controlled by using natural pesticides. The study aimed to evaluate the application time and concentration of Cerbera odollam G. seed extract in controlling A. gossypii and their effects on pepper, C. annum. Complete randomized design was used in this experiment, with two factors, and was repeated three times. The first factor was the time of application of the extract, consisting of before and after A. gossypii infestation. The second factor was the concentration of C. odollam extract (0%, 1%, 2%, 3%, 4% and 5%). The results indicated the C. odollam seed extract affected the mortality of A. gossypii. At a concentration of 1% of C. odollam seed extract, the mortality of A. gossypii was 68% while at a concentration of 3% the mortality reached up to 90%. C. odollam seed extract applied before infestation, the mortality of A. gossypii was 59.5% whereas, after the infestation, the mortality increased up to 77.6%. LC50 and LC90 extract of C. odollam seeds applied before and after infestation were 1.8%; 4.4%; 0.57% and 2.8% respectively. A. gossypii infested at 8 weeks old pepper and sprayed with C. odollam seed extract at a concentration of 1% lowered the crop damage on the seventh day after infestation. On the other hand, the application of C. odollam seed extract did not affect the number of leaves, fresh weight, and dry weight of pepper. This study indicate that C. odollam seed extract can be developed as a natural pesticide to control A. gossypii on pepper..

scholarly journals Association between agro-morphological traits in common bean under organic fertilization management in Brazil

2021 ◽  
Vol 15 (1) ◽  
pp. 1-7
Author(s):  
Sales Rocha Richardson ◽  
Euclides Pechara da Costa Jaeggi Mário ◽  
Martins Pereira Israel ◽  
Pureza da Cruz Derivaldo ◽  
Rodrigues Nascimento Maxwel ◽  
...  
Keyword(s):  
Common Bean ◽  
Morphological Traits ◽  
Organic Fertilization
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