Genetic diversity of table grape based on morphoagronomic traits

The coconut palm is versatile in its adaptability to a wide range of soil and climatic conditions. A long history of its cultivation has resulted in development of many ecotypes, which are adapted to various agro-eco factors prevalent in a particular region. These ecotypes usually are known by the location where they are grown. It is important to explore such adaptation in the coconut population for better utilization of these ecotypes in coconut breeding programs. The aim of the present study was to identify the genetic diversity of the Bedakam and Annur ecotypes of coconut and compare these ecotypes with predominant West Coast Tall (WCT) populations, from which they are presumed to have been derived, using microsatellite markers. All the 17 microsatellite markers used in the study revealed 100% polymorphism. The clustering analysis showed that Annur and Bedakam ecotypes were two separate and distinct populations compared to WCT. It was also evident from the clustering that Annur ecotype was closer to WCT than Bedakam ecotype.

Download Full-text

Genetic diversity and population structure of ridge gourd (Luffa acutangula) accessions in a Thailand collection using SNP markers

Scientific Reports ◽

10.1038/s41598-021-94802-4 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Grimar Abdiel Perez ◽

Pumipat Tongyoo ◽

Julapark Chunwongse ◽

Hans de Jong ◽

Anucha Wongpraneekul ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Germplasm Collection ◽

Snp Markers ◽

Fixation Index ◽

Breeding Programs ◽

Total Fixation ◽

Unrooted Phylogenetic Tree ◽

Luffa Acutangula ◽

Selection Of

AbstractThis study explored a germplasm collection consisting of 112 Luffa acutangula (ridge gourd) accessions, mainly from Thailand. A total of 2834 SNPs were used to establish population structure and underlying genetic diversity while exploring the fruit characteristics together with genetic information which would help in the selection of parental lines for a breeding program. The study found that the average polymorphism information content value of 0.288 which indicates a moderate genetic diversity for this L. acutangula germplasm. STRUCTURE analysis (ΔK at K = 6) allowed us to group the accessions into six subpopulations that corresponded well with the unrooted phylogenetic tree and principal coordinate analyses. When plotted, the STRUCTURE bars to the area of collection, we observed an admixed genotype from surrounding accessions and a geneflow confirmed by the value of FST = 0.137. AMOVA based on STRUCTURE clustering showed a low 12.83% variation between subpopulations that correspond well with the negative inbreeding coefficient value (FIS = − 0.092) and low total fixation index (FIT = 0.057). There were distinguishing fruit shapes and length characteristics in specific accessions for each subpopulation. The genetic diversity and different fruit shapes in the L. acutangula germplasm could benefit the ridge gourd breeding programs to meet the demands and needs of consumers, farmers, and vegetable exporters such as increasing the yield of fruit by the fruit width but not by the fruit length to solve the problem of fruit breakage during exportation.

Download Full-text

Ampelographic characterization of white grapevine cul-tivars (Vitis vinifera L.) grown in Palestine

مجلة جامعة فلسطين التقنية للأبحاث ◽

10.53671/pturj.v3i1.34 ◽

2015 ◽

Vol 3 (1) ◽

pp. 1-11

Author(s):

Rezq Basheer-Salimia

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Germplasm Conservation ◽

Genetic Distances ◽

Vitis Vinifera L ◽

Similarity Matrix ◽

Breeding Programs ◽

Local Varieties ◽

Synonymies And Homonymies

Abstract: In Palestine, grape culture consists of ecotypes and cultivars (also called local varieties), for which a large number of homonymous and synonymous designations exist as well as misnaming of cultivars. The present study is the first report using detailed ampelographic characterizations (39 informative traits) to assess genetic diversity and detect similarities among sixteen accessions collected from putative diverse grape genotypes In general, 30 descriptors presented highly and satisfactory divergent genotypes, whereas the remaining traits showed no or very little ampelographic variation. Based on the similarity matrix and the resulting dendrogram of these ampelographic data, distinguishable genotypes as well as some cases of synonymies and homonymies clearly exist. A synonymy case seemed to be in four genotypes including Jandali-Mfarad, Jan-dali-Mrazraz, Jandali, and Hamadani-Mattar, which indeed showed genetic distances of less than 0.5, sug-gesting their relatedness, and the possibility that they are the same genotype, but with different names. In addition, homonym cases also occur in the following pairs of “Marawi’s, Hamadani’s, and Zaini’s genotypes, in which each pair seems to be two distinctive genotypes. Finally, among the 16 examined genotypes, the Zaini-Baladi genotype tended to show the highest genetic distance values from the others and thus could be potentially incorporated into any further local or regional breeding programs as well as germplasm conservation.

Download Full-text

Phenotypic and molecular characterization of a set of tropical maize inbred lines from a public breeding program in Brazil

BMC Genomics ◽

10.1186/s12864-021-08127-7 ◽

2022 ◽

Vol 23 (1) ◽

Author(s):

Sirlene Viana de Faria ◽

Leandro Tonello Zuffo ◽

Wemerson Mendonça Rezende ◽

Diego Gonçalves Caixeta ◽

Hélcio Duarte Pereira ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Inbred Lines ◽

Breeding Program ◽

Tropical Maize ◽

Maize Breeding ◽

Breeding Programs ◽

The Public ◽

Maize Inbred Lines

Abstract Background The characterization of genetic diversity and population differentiation for maize inbred lines from breeding programs is of great value in assisting breeders in maintaining and potentially increasing the rate of genetic gain. In our study, we characterized a set of 187 tropical maize inbred lines from the public breeding program of the Universidade Federal de Viçosa (UFV) in Brazil based on 18 agronomic traits and 3,083 single nucleotide polymorphisms (SNP) markers to evaluate whether this set of inbred lines represents a panel of tropical maize inbred lines for association mapping analysis and investigate the population structure and patterns of relationships among the inbred lines from UFV for better exploitation in our maize breeding program. Results Our results showed that there was large phenotypic and genotypic variation in the set of tropical maize inbred lines from the UFV maize breeding program. We also found high genetic diversity (GD = 0.34) and low pairwise kinship coefficients among the maize inbred lines (only approximately 4.00 % of the pairwise relative kinship was above 0.50) in the set of inbred lines. The LD decay distance over all ten chromosomes in the entire set of maize lines with r2 = 0.1 was 276,237 kb. Concerning the population structure, our results from the model-based STRUCTURE and principal component analysis methods distinguished the inbred lines into three subpopulations, with high consistency maintained between both results. Additionally, the clustering analysis based on phenotypic and molecular data grouped the inbred lines into 14 and 22 genetic divergence clusters, respectively. Conclusions Our results indicate that the set of tropical maize inbred lines from UFV maize breeding programs can comprise a panel of tropical maize inbred lines suitable for a genome-wide association study to dissect the variation of complex quantitative traits in maize, mainly in tropical environments. In addition, our results will be very useful for assisting us in the assignment of heterotic groups and the selection of the best parental combinations for new breeding crosses, mapping populations, mapping synthetic populations, guiding crosses that target highly heterotic and yielding hybrids, and predicting untested hybrids in the public breeding program UFV.

Download Full-text

Characterization of grape cultivars from China using microsatellite markers

Czech Journal of Genetics and Plant Breeding ◽

10.17221/32/2013-cjgpb ◽

2013 ◽

Vol 49 (No. 4) ◽

pp. 164-170 ◽

Cited By ~ 3

Author(s):

D.-L. Guo ◽

Q. Zhang ◽

G.-H. Zhang

Keyword(s):

Polymorphism Information Content ◽

Table Grape ◽

Wine Grape ◽

Principal Coordinates Analysis ◽

Clear Separation ◽

Expected Heterozygosity ◽

Principal Coordinates ◽

Grape Wine ◽

Grape Cultivars

A total of 32 different grape cultivars including representatives of local Chinese cultivars, some important and widely grown Chinese cultivars and international reference cultivars were genotyped at nine microsatellite loci in order to characterize their genetic diversities. The numbers of alleles detected per locus ranged from 9 to 18 with a total of 105 alleles and an average of 11.7 alleles per locus, while the number of microsatellite genotypes varied between 10 and 23, indicating that there are abundant allele diversities in Chinese grape cultivars. The expected heterozygosity varied between 0.740 and 0.915 and the polymorphism information content ranged from 0.716 to 0.908. According to the results of clustering and Principal Coordinates Analysis, three groups were identified among all these cultivars. The clusters of cultivars showed a clear separation of table grape, wine grape of Vitis vinifera and hybrids between European and American species. This study generated a microsatellite profile database for the cultivars from Chinese local and newly bred grapes.

Download Full-text

Genetic diversity of tropical-adapted onion germplasm assessed by RAPD markers

Horticultura Brasileira ◽

10.1590/s0102-05362012000100019 ◽

2012 ◽

Vol 30 (1) ◽

pp. 112-118 ◽

Cited By ~ 1

Author(s):

Maria do Desterro M dos Santos ◽

Carlos Francisco Ragassi ◽

Maria Esther de N Fonseca ◽

Anne Gizelle R Buzar ◽

Valter R Oliveira ◽

...

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Germplasm Collection ◽

Rio Grande ◽

Breeding Programs ◽

Tropical Regions ◽

Low Genetic Diversity ◽

Tropical Conditions ◽

Average Similarity ◽

Onion Germplasm

Onion is a crop of significant socioeconomic importance to Brazil. Onion germplasm with adaptation to tropical and sub-tropical conditions has played an important role in the development of this crop in the country. In this context, we studied the genetic diversity in a germplasm collection potentially useful for the development of cultivars for tropical and subtropical regions. The genetic variability of 21 accessions/cultivars that have been used as germplasm and/or were developed by onion breeding programs in Brazil was evaluated via RAPD markers. The following accessions were included in the study :'Red Creole', 'Roxa IPA-3', 'Valenciana 14', 'Beta Cristal', 'Diamante', 'Composto IPA-6', 'Aurora', 'Bojuda Rio Grande', 'Alfa Tropical', 'Pêra IPA-4', 'Primavera', 'Belém IPA-9', 'Crioula Alto Vale', 'Conquista', 'Pira-Ouro', 'Vale-Ouro IPA-11', 'Franciscana IPA-10', 'Serrana', 'CNPH 6400', 'Petroline', and 'Baia Periforme'. From the 520 primers used in the initial screening only 38 displayed stable polymorphisms. They produced 624 amplicons, of which 522 (83.7%) were monomorphic and 102 (16.3%) were polymorphic. An average similarity coefficient of 0.72 was calculated among accessions based upon this subgroup of polymorphic amplicons. This allowed the discrimination of this germplasm collection into six groups with only one of them comprising more than one accession. The main group was formed by 16 accessions ('Diamante', 'Composto IPA-6', 'Aurora', 'Bojuda Rio Grande', 'Conquista', 'Pira-Ouro', 'Serrana', 'Vale-Ouro IPA-11', 'Baia Periforme', 'Primavera', 'Franciscana IPA-10', 'Belém IPA-9', 'Crioula Alto Vale', 'Petroline', 'Pêra IPA-4' and 'Alfa Tropical'), for which the genetic origin (with few exceptions) can be traced back to the variety 'Baia Periforme'. The populations 'Red Creole', 'Roxa IPA-3', 'Beta Cristal', 'CNPH 6400', and 'Valenciana 14' comprised a set of five isolated groups, showing genetic divergence among them and in relation to main 'Baia Periforme' group. This germplasm displayed a relatively low genetic diversity, with the predominance of materials originated from the base population 'Baia Periforme'. There are, however, some accessions, which can add genetic diversity to this germplasm and they can be exploited by onion breeding programs aiming to develop cultivars for tropical regions of the world.

Download Full-text

A PEACH GERMPLASM COLLECTION FOR INCREASING THE GENETIC DIVERSITY IN EUROPEAN BREEDING PROGRAMS

Acta Horticulturae ◽

10.17660/actahortic.2015.1084.15 ◽

2015 ◽

pp. 125-129 ◽

Cited By ~ 3

Author(s):

M.L. Badenes ◽

M. Cambra ◽

M.M. López ◽

I. Batlle ◽

I. Iglesias ◽

...

Keyword(s):

Genetic Diversity ◽

Germplasm Collection ◽

Breeding Programs

Download Full-text

Simple sequence repeat analysis of a clonally propagated species: A tool for managing a grape germplasm collection

Genome ◽

10.1139/g01-026 ◽

2001 ◽

Vol 44 (3) ◽

pp. 432-438 ◽

Cited By ~ 39

Author(s):

G Savage Dangl ◽

Mary Lou Mendum ◽

Bernard H Prins ◽

M Andrew Walker ◽

Carole P Meredith ◽

...

Keyword(s):

Genetic Distance ◽

Simple Sequence Repeat ◽

Middle Eastern ◽

Allelic Diversity ◽

Germplasm Collection ◽

Table Grape ◽

Sequence Repeat ◽

Crop Species ◽

Simple Sequence ◽

Grape Cultivars

The USDA germplasm repositories help to preserve the genetic variability of important crop species by collecting and maintaining representative cultivars and related germplasm. Simple sequence repeat markers with high allelic diversity were used to type 41 grapevines from 40 accessions. All vines were either seedless table grape cultivars or cultivars with names similar to table grape cultivars. The proportion of shared alleles was selected as the most appropriate statistical measure of genetic distance for this population. In conjunction with morphological traits, known synonyms were confirmed and a previously unknown synonym was discovered. An alleged synonym in the literature was disproved by the DNA data. The data were consistent with known parentage, where such data were available. Two mislabeled vines in the USDA collection were identified. UPGMA grouped the cultivars loosely into three groups: a group of nine mostly Middle Eastern cultivars, a group of 22 accessions mostly from Russia and Afghanistan that were morphologically similar to 'Thompson Seedless', and a third very loose group of 11 accessions consisting mostly of eastern European wine grape cultivars. The limitations and usefulness of this type of analysis are discussed.Key words: Vitis vinifera, grape, germplasm, simple sequence repeats, genetic distance.

Download Full-text

UNIVARIATE AND MULTIVARIATE APPROACHES IN THE CHARACTERIZATION OF LIMA BEAN GENOTYPES

Revista Caatinga ◽

10.1590/1983-21252020v33n230rc ◽

2020 ◽

Vol 33 (2) ◽

pp. 571-578

Author(s):

MARILHA VIEIRA DE BRITO ◽

VERÔNICA BRITO DA SILVA ◽

CARLOS HUMBERTO AIRES MATOS FILHO ◽

REGINA LUCIA FERREIRA-GOMES ◽

ÂNGELA CELIS DE ALMEIDA LOPES

Keyword(s):

Genetic Diversity ◽

Germplasm Collection ◽

Lima Bean ◽

Combined Analysis ◽

Randomized Design ◽

Qualitative Variables ◽

Completely Randomized Design ◽

Multivariate Approaches ◽

Screen House

ABSTRACT To estimate the genetic diversity among the genotypes of a germplasm collection, a combined analysis of qualitative and quantitative variables was performed. The objective was to promote the morpho-agronomic characterization and estimate the genetic diversity of lima bean genotypes belonging to the Phaseolus Germplasm Bank of UFPI through univariate and multivariate approaches. The experiment was conducted on a screen house between January and September 2016, using a completely randomized design with four replications, with a plot consisting of a pot with a plant. An analysis of variance of the quantitative characteristics was performed and used to estimate the comparison of means. The combined analysis of the quantitative and qualitative variables was performed based on the Gower distance. Subsequently, the genotypes were grouped by the UPGMA method, from which five groups were formed. The lima bean genotypes showed wide genetic variability in relation to morpho-agronomic characteristics.

Download Full-text

Ampelographic characterization of white grapevine cul-tivars (Vitis vinifera L.) grown in Palestine

مجلة جامعة فلسطين التقنية للأبحاث ◽

10.53671/ptukrj.v3i1.34 ◽

2015 ◽

Vol 3 (1) ◽

pp. 1-11

Author(s):

Rezq Basheer-Salimia

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Germplasm Conservation ◽

Genetic Distances ◽

Vitis Vinifera L ◽

Similarity Matrix ◽

Breeding Programs ◽

Local Varieties ◽

Synonymies And Homonymies

Abstract: In Palestine, grape culture consists of ecotypes and cultivars (also called local varieties), for which a large number of homonymous and synonymous designations exist as well as misnaming of cultivars. The present study is the first report using detailed ampelographic characterizations (39 informative traits) to assess genetic diversity and detect similarities among sixteen accessions collected from putative diverse grape genotypes In general, 30 descriptors presented highly and satisfactory divergent genotypes, whereas the remaining traits showed no or very little ampelographic variation. Based on the similarity matrix and the resulting dendrogram of these ampelographic data, distinguishable genotypes as well as some cases of synonymies and homonymies clearly exist. A synonymy case seemed to be in four genotypes including Jandali-Mfarad, Jan-dali-Mrazraz, Jandali, and Hamadani-Mattar, which indeed showed genetic distances of less than 0.5, sug-gesting their relatedness, and the possibility that they are the same genotype, but with different names. In addition, homonym cases also occur in the following pairs of “Marawi’s, Hamadani’s, and Zaini’s genotypes, in which each pair seems to be two distinctive genotypes. Finally, among the 16 examined genotypes, the Zaini-Baladi genotype tended to show the highest genetic distance values from the others and thus could be potentially incorporated into any further local or regional breeding programs as well as germplasm conservation.

Download Full-text