Assessment of diversity in tropical soybean (<i>Glycine max</i> (L.) Merr.) varieties and elite breeding lines using single nucleotide polymorphism markers

Tesfaye, Agajie; Kolawole, Adesike Oladoyin; Unachukwu, Nnanna; Chigeza, Godfree; Tefera, Hailu; Gedil, Melaku

doi:10.1017/s1479262121000034

Cited by 7 publications

(9 citation statements)

References 38 publications

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“…Genetic improvement of any crop rests upon the diversity present within and among the breeding populations (Biyeu et al 2010). Knowledge of genetic variability helps in selection of parental lines to be used when making crosses, establishment of core collections and enhanced utilization of the germplasm in breeding programs (Abebe et al 2021;Bandillo et al 2017). While there is limited diversity among cultivars within country or regional breeding programs because of sharing of common parents (Gwinner et al 2017;Hahn and Würschum 2014;Tiwari et al 2019), introduction of exotic germplasm plays a crucial role in widening the genetic base from which parents can be selected for use to make bi-parental crosses.…”

Section: Introductionmentioning

confidence: 99%

“…A survey of the literature indicates that germplasm diversity characterization can be conducted following two approaches. Both morphological or phenotypic and molecular genetic diversity studies have been used to assess variation in soybean (Abebe et al 2021;Bandillo et al 2015;Chander et al 2021;Malik et al 2011;Jeong et al 2019a, b;Ma et al 2006;Nawaz et al 2021;Ojo et al 2012;Valliyodan et al 2021;Wang et al 2012;Mihaljević et al 2020). The advantages and limitations of both approaches have been discussed.…”

Section: Introductionmentioning

confidence: 99%

“…SNP markers have been successfully used for diversity studies for several crops including soybean (Abebe et al 2021;Chander et al 2021;Liu et al 2017), cowpea (Fatokun et al 2018;Qin et al 2016;Sodedji et al 2021), pigeon pea (Yang et al 2006Zavinon et al 2020) and common bean (Blair et al 2013;Cortés et al 2011;Nemlı et al 2017). Assessment of the genetic diversity among elite lines and varieties developed by IITA using SNPs revealed high diversity within the germplasm and grouped the germplasm into three clusters based on genetic relatedness (Abebe et al 2021). Similarly, broad genetic base among tropical soybean lines with a genetic diversity index of 0.414 using SNP markers has been reported (Chander et al 2021).…”

Section: Introductionmentioning

confidence: 99%

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Analysis of population structure and genetic diversity in a Southern African soybean collection based on single nucleotide polymorphism markers

Tsindi,

Eleblu,

Gasura

et al. 2023

CABI Agric Biosci

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Soybean is an emerging strategic crop for nutrition, food security, and livestock feed in Africa, but improvement of its productivity is hampered by low genetic diversity. There is need for broadening the tropical germplasm base through incorporation and introgression of temperate germplasm in Southern Africa breeding programs. Therefore, this study was conducted to determine the population structure and molecular diversity among 180 temperate and 30 tropical soybean accessions using single nucleotide polymorphism (SNP) markers. The results revealed very low levels of molecular diversity among the 210 lines with implications for the breeding strategy. Low fixation index (FST) value of 0.06 was observed, indicating low genetic differences among populations. This suggests high genetic exchange among different lines due to global germplasm sharing. Inference based on three tools, such as the Evanno method, silhouette plots and UPMGA phylogenetic tree showed the existence of three sub-populations. The UPMGA tree showed that the first sub-cluster is composed of three genotypes, the second cluster has two genotypes, while the rest of the genotypes constituted the third cluster. The third cluster revealed low variation among most genotypes. Negligible differences were observed among some of the lines, such as Tachiyukata and Yougestu, indicating sharing of common parental backgrounds. However large phenotypic differences were observed among the accessions suggesting that there is potential for their utilization in the breeding programs. Rapid phenotyping revealed grain yield potential ranging from one to five tons per hectare for the 200 non-genetically modified accessions. Findings from this study will inform the crossing strategy for the subtropical soybean breeding programs. Innovation strategies for improving genetic variability in the germplasm collection, such as investments in pre-breeding, increasing the geographic sources of introductions and exploitation of mutation breeding would be recommended to enhance genetic gain.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Analysis of population structure and genetic diversity in a Southern African soybean collection based on single nucleotide polymorphism markers

Tsindi,

Eleblu,

Gasura

et al. 2023

CABI Agric Biosci

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“…Cultivated soybean [ Glycine max (L.) Merrill ] is a self-pollinating and an important leguminous source of food, feed, fuel and oil crop with high commercial value widely cultivated globally ( Bocianowski et al., 2019 ; Sritongtae et al., 2021 and Abebe et al., 2021 ). First, the annual wild soybean ( Glycine soja ), the kindred ancestor of the current cultivated soybean ( Glycine max ), originated and is found throughout China ( Qiu and Chang, 2010 ).…”

Section: Introductionmentioning

confidence: 99%

Adaptability and stability for soybean yield by AMMI and GGE models in Ethiopia

Habtegebriel

2022

Front. Plant Sci.

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Genotype by environment interaction (GEI) is a phenomenon that occurs in heterogeneous environments that slows breeding progress by preventing the selection of superior cultivars for breeding and commercialization. Therefore, the objectives of this study were to find out how GEI impacts soybean output and to identify the most adapted and stable genotypes. Moreover, to look at the possibility of other mega environments for testing in the future. The experiments were grown for two years in a four-replicated randomized block design at each environment. Over the course of several harvests, yield components, days to flowering, days to maturity, plant height, the number of pods per plants, the number of seeds per plant, hundred seed weight and grain yield per hectare were evaluated in the main for 2018 and 2019.To analyze the stability performance of the genotypes, general linear method, GGE and Additive main effect and multiplicative interaction effects analysis (AMMI) and ASV rank analysis were applied. The GGE biplot revealed that the GGE biplots explained 74.29% of the total variation distributed as,56.69% and 17.62% of sum of squares between principal component PC1 and PC2, respectively whereas, AMMI model, the first two interaction principal component axes (IPCA1 and IPCA2) explained 47.74% and 26.62% of the variation due to GEI, respectively, exposed genotypes identified the five as best performer. The results from the four distinct stability statistics AMMI biplot (G8, G2, G1, G11), ASV (G1, G11; (GSI; G9, G1, G11) and (GGE: G2, G8, G9) are taken into account together with the genotypes` grand mean. The genotypes JM-CLK/CRFD-15-SD (G8) and 5002T (G1), which rank among the best and have the highest seed output, are suitable for hybridization as a parent and commercial production. Therefore, genotypes JM-CLK/CRFD-15-SD (G8) and 5002T(G1) have the highest seed output were among the best and thus could be recommended for release as a new soybean varieties cultivation across.

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“…As the breeding program progresses, it is important to collect as much allelic variability as possible, which can maintain the level of genetic variability of aquatic animals [54]. Genetic diversity should be paid more attention to in the future as a guide for choosing brood stock to form the base population for selective breeding programs and for ongoing monitoring of the levels of inbreeding and genetic drift [55,56].…”

Section: Discussionmentioning

confidence: 99%

Genetic Diversity of Fish in Aquaculture and of Common Carp (Cyprinus carpio) in Traditional Rice–Fish Coculture

Ren

Shixiang³

et al. 2022

Agriculture

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The genetic diversity of cultured species (e.g., plants and fish) has decreased as intensive agriculture and aquaculture have increased in recent decades. Maintaining genetic diversity in agriculture is a significant concern. To test whether aquaculture affects the genetic diversity of aquatic animals and whether traditional agriculture could help maintain genetic diversity, we conducted a meta-analysis to quantify the genetic diversity of cultured and wild populations. We also examined the genetic diversity and population genetic structure of common carp (Cyprinus carpio) in the traditional rice–fish coculture in the south of Zhejiang Province, China, using 20 microsatellite loci. The results of the meta-analysis showed a negative overall effect size of all cultured aquatic animals that were tested both when weighted by population replicate and when weighted by the inverse of variance. Aquaculture has caused a general decline in the genetic diversity of many cultured aquatic animals. The results from the survey of a traditional rice–fish coculture system in the south of Zhejiang Province of China showed high levels of genetic diversity in all 10 sampled populations (mean Na = 7.40, mean Ne = 4.57, mean I = 1.61, mean He = 0.71, and mean Ho = 0.73). Both the conventional analysis and a model-based analysis revealed a high and significant genetic divergence among the 10 sampled populations all over the three counties (FST value ranged from 0.00 to 0.13, and Nei’s genetic distance ranged from 0.07 to 0.62). Populations within Yongjia and Jingning counties were also genetically differentiated, respectively. Furthermore, molecular variance (AMOVA), membership coefficients estimated by STRUCTURE, PCoA, and migration network analysis supported the findings from pairwise FST values. Our results suggest that the traditional rice–fish coculture plays an important role in maintaining the genetic diversity of carp cocultured in rice paddies and future policies should favor the conservation of the rice–fish system and raise the awareness of farmers on methods to maintain carp genetic diversity.

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Assessment of diversity in tropical soybean (Glycine max (L.) Merr.) varieties and elite breeding lines using single nucleotide polymorphism markers

Cited by 7 publications

References 38 publications

Analysis of population structure and genetic diversity in a Southern African soybean collection based on single nucleotide polymorphism markers

Analysis of population structure and genetic diversity in a Southern African soybean collection based on single nucleotide polymorphism markers

Adaptability and stability for soybean yield by AMMI and GGE models in Ethiopia

Genetic Diversity of Fish in Aquaculture and of Common Carp (Cyprinus carpio) in Traditional Rice–Fish Coculture

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