scholarly journals Dissection of Allelic Variation Underlying Floral and Fruit Traits in Flare Tree Peony (Paeonia rockii) Using Association Mapping

2021 ◽  
Vol 12 ◽  
Author(s):  
Xin Guo ◽  
Chunyan He ◽  
Fangyun Cheng ◽  
Yuan Zhong ◽  
Xinyun Cheng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Association Analysis ◽  
Complex Traits ◽  
Allelic Variation ◽  
Phenotypic Diversity ◽  
Woody Species ◽  
Fruit Traits ◽  
Tree Peony ◽  
Single Marker ◽  
Paeonia Rockii

Allelic variation in floral quantitative traits, including the elements of flowers and fruits, is caused by extremely complex regulatory processes. In the genetic improvement of flare tree peony (Paeonia rockii), a unique ornamental and edible oil woody species in the genus Paeonia, a better understanding of the genetic composition of these complex traits related to flowers and fruits is needed. Therefore, we investigated the genetic diversity and population structure of 160 P. rockii accessions and conducted single-marker association analysis for 19 quantitative flower and fruit traits using 81 EST-SSR markers. The results showed that the population had a high phenotypic diversity (coefficients of variation, 11.87–110.64%) and a high level of genetic diversity (mean number of alleles, NA = 6.09). These accessions were divided into three subgroups by STRUCTURE analysis and a neighbor-joining tree. Furthermore, we also found a low level of linkage disequilibrium between these EST-SSRs and, by single-marker association analysis, identified 134 significant associations, including four flower traits with 11 EST-SSRs and 10 fruit traits with 32 EST-SSRs. Finally, based on the sequence alignment of the associated markers, P280, PS2, PS12, PS27, PS118, PS131, and PS145 may be considered potential loci to increase the yield of flare tree peony. These results laid the foundation for further analysis of the genetic structure of some key traits in P. rockii and had an obvious potential application value in marker-assisted selection breeding.

scholarly journals Genetic Diversity of Paeonia rockii (Flare Tree Peony) Germplasm Accessions Revealed by Phenotypic Traits, EST-SSR Markers and Chloroplast DNA Sequences

Forests ◽  
2020 ◽  
Vol 11 (6) ◽  
pp. 672
Author(s):  
Xin Guo ◽  
Fangyun Cheng ◽  
Yuan Zhong
Keyword(s):  
Genetic Diversity ◽  
Chloroplast Dna ◽  
Ssr Markers ◽  
Dna Sequences ◽  
Genetic Background ◽  
Background Information ◽  
Phenotypic Traits ◽  
Tree Peony ◽  
Chloroplast Dna Sequences ◽  
Paeonia Rockii

Research Highlights: This study, based on the first collection of cultivated Paeonia rockii (flare tree peony, FTP) germplasm across the main distribution area by our breeding desires, comprehensively evaluates these accessions by using phenotypic traits, expressed sequence tag (EST)-simple sequence repeat (SSR) markers and chloroplast DNA sequences (cpDNA). The results show that these accessions collected selectively by us can represent the genetic background information of FTP as a germplasm of tree crops. Background and Objectives: FTP has high cultural, ornamental and medicinal value traditionally, as well as recently presenting a significance as an emerging edible oil with high α-linolenic acid contents in the seeds. The objectives of this study are to reveal the characteristics of the genetic diversity of FTP, as well as to provide scientific suggestions for the utilization of tree peony breeding and the conservation of germplasm resource. Materials and Methods: Based on the phenotypic traits, EST-SSR markers and chloroplast DNA sequence variation, we studied the diversity of a newly established population of 282 FTP accessions that were collected and propagated by ourselves in our breeding project in recent years. Results: (1) There was an abundant variation in phenotype of the accessions, and the phenotypic variation was evenly distributed within the population, without significant hierarchical structure, (2) the EST-SSR data showed that these 282 accessions had relatively high genetic diversity, in which a total of 185 alleles were detected in 34 pairs of primers. The 282 accessions were divided into three distinct groups, and (3) the chloroplast DNA sequences (cpDNA) data indicated that these accessions had a higher genetic diversity than the population level and a lower genetic diversity than the species level of wild P. rockii, and the existing spatial genetic structure of these accessions can be divided into two branches. Conclusions: From the results of the three analyses, we found that these accessions can fully reflect the genetic background information of FTP germplasm resources, so their protection and utilization will be of great significance for genetic improvement of woody peonies.

scholarly journals High-throughput measurement of fibroblast rhythms reveals genetic heritability of circadian phenotypes in diversity outbred mice and their founder strains

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Sam-Moon Kim ◽  
Chelsea A. Vadnie ◽  
Vivek M. Philip ◽  
Leona H. Gagnon ◽  
Kodavali V. Chowdari ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
High Throughput ◽  
Complex Traits ◽  
Phenotypic Diversity ◽  
Phenotypic Variability ◽  
Strain Differences ◽  
Behavioral Rhythms ◽  
Genetic Heritability ◽  
Diversity Outbred

AbstractCircadian variability is driven by genetics and Diversity Outbred (DO) mice is a powerful tool for examining the genetics of complex traits because their high genetic and phenotypic diversity compared to conventional mouse crosses. The DO population combines the genetic diversity of eight founder strains including five common inbred and three wild-derived strains. In DO mice and their founders, we established a high-throughput system to measure cellular rhythms using in vitro preparations of skin fibroblasts. Among the founders, we observed strong heritability for rhythm period, robustness, phase and amplitude. We also found significant sex and strain differences for these rhythms. Extreme differences in period for molecular and behavioral rhythms were found between the inbred A/J strain and the wild-derived CAST/EiJ strain, where A/J had the longest period and CAST/EiJ had the shortest. In addition, we measured cellular rhythms in 329 DO mice, which displayed far greater phenotypic variability than the founders—80% of founders compared to only 25% of DO mice had periods of ~ 24 h. Collectively, our findings demonstrate that genetic diversity contributes to phenotypic variability in circadian rhythms, and high-throughput characterization of fibroblast rhythms in DO mice is a tractable system for examining the genetics of circadian traits.

Phenotypic diversity in four woody species on the Canadian prairies

2000 ◽  
Vol 80 (1) ◽  
pp. 137-142 ◽  
Author(s):  
M. A. Chowdhury ◽  
S. Jana ◽  
W. R. Schroeder
Keyword(s):  
Genetic Diversity ◽  
Phenotypic Diversity ◽  
Woody Species ◽  
Molecular Data ◽  
Sea Buckthorn ◽  
Elaeagnus Angustifolia ◽  
Russian Olive ◽  
Canadian Prairies ◽  
Information Index ◽  
Semi Arid

Genetic diversity is a prerequisite for plant adaptation and maintenance of a sustainable ecosystem. Not much information is available on the genetic diversity of woody species on the semi-arid Canadian prairies. We used RAPD fragments to assess the diversity of four woody species of the Elaeagnaceae family, sea buckthorn (Hippophae rhamnoides L.), Russian olive (Elaeagnus angustifolia L.), buffaloberry (Shepherdia argentea Nutt.) and silverberry (Elaeagnus commutata Bernh. Ex Rydb.) collected from several locations in southwestern Saskatchewan. The RAPD fragments were used to generate molecular data for this experiment. Of the total scorable RAPD fragments, 86, 80, 55.2, and 36.5% were polymorphic in sea buckthorn, buffaloberry, silverberry and Russian olive, respectively. Estimates of phenotypic diversity by AMOVA and Shanon's information index revealed that buffaloberry and sea buckthorn had relatively high phenotypic diversity and Russian olive had low phenotypic diversity. Key words: Sea buckthorn, silverberry, buffaloberry, Russian olive, RAPD, phenotypic diversity, Hippophae, Elaeagnus, Shepherdia

scholarly journals Phenotypic Diversity Assessment of Guava (Psidium guajava L.) Collection in Vietnam

2021 ◽  
Author(s):  
Dang Quang Bui ◽  
Trung Duc Tran ◽  
Ha Thi My Le ◽  
Tuyet Thi Nguyen ◽  
Yen Thi Oanh Tran
Keyword(s):  
Genetic Diversity ◽  
Phenotypic Diversity ◽  
Psidium Guajava ◽  
Fruit Traits ◽  
Improvement Program ◽  
Breeding Programs ◽  
Processing Industry ◽  
Diversity Assessment ◽  
Fruit Processing ◽  
Range Of Variation

Background: Guava (Psidium guajava L.) is an important cultivated fruit crop in Vietnam due to its commercial value for fresh consumption and especially for fruit processing industry. A large number of diverse guava accessions, both indigenous and exotic, are available in Vietnam but their characterization, which is needed to identify targeted guava accessions for breeding programs, is still limited.Methods: The phenotypic variation and relationship among 40 guava accessions collected across Vietnam were assessed employing leaf and fruit morphological and physiological characterizations.Result: Range of variation for different leaf and fruit parameters were recorded. Significant correlations between leaf and fruit traits relating to yield and fruit quality were also observed implying a possibility of their simultaneous or interchangeable use in selection. Furthermore, the dendrogram generated from agglomeration hierarchical clustering grouped the 40 guava accessions into four major clusters which are highly associated with their origins. The result indicated that existing guava accessions are an important source of genetic diversity and can be used in the guava improvement program in Vietnam.

PROFILING OF GUAVA GENOTYPES GROWN IN VIDARBHA CONDITIONS ON THE BASIS OF MORPHOLOGICAL TRAITS

2017 ◽  
Vol 23 (1) ◽  
Author(s):  
R.A. PATIL ◽  
S.G. BHARAD ◽  
S.N. SAWANT
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Morphological Traits ◽  
Considerable Extent ◽  
Fruit Traits ◽  
Breeding Programmes ◽  
Tree Leaf ◽  
Qualitative Characteristics ◽  
Intrapopulation Diversity

Assessment of genetic diversity in the available germplasm is the prerequisite for development of improved genotypes through planned breeding programmes. In the view of this Forty-eight genotypes of seedling origin guava along with 1 check (L-49/Sardar) collected and conserved at germplasm block, Main Garden, Department of Horticulture, Dr. P. D. A. University, Akola were evaluated for genetic variability and diversity based on the qualitative characteristics. The genotypes were evaluated for sixteen morphological traitsviz. tree, leaf, floral and fruit traits. Results Show considerable extent of variability amongst the 49 genotypes in each traits. A sizeable amount of intrapopulation diversity recorded can be used to identify diverse parents which can be utilized in hybridization programmes.

Genetic Analysis of Chinese Cucumber Collections in the U.S. National Germplasm Collection

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 534e-534 ◽  
Author(s):  
J. Staub ◽  
Felix Sequen ◽  
Tom Horejsi ◽  
Jin Feng Chen
Keyword(s):  
Genetic Diversity ◽  
Principal Component Analysis ◽  
Genetic Variation ◽  
Genetic Analysis ◽  
Allelic Variation ◽  
Germplasm Collection ◽  
Principal Component ◽  
Isozyme Loci ◽  
National Plant Germplasm System ◽  
The U.S

Genetic variation in cucumber accessions from China was assessed by examining variation at 21 polymorphic isozyme loci. Principal component analysis of allelic variation allowed for the depiction of two distinct groupings of Chinese accessions collected in 1994 and 1996 (67 accessions). Six isozyme loci (Gpi, Gr, Mdh-2, Mpi-2, Pep-gl, and Pep-la) were important in elucidating these major groups. These groupings were different from a single grouping of Chinese 146 accessions acquired before 1994. Allelic variation in Chinese accessions allowed for comparisons with other accessions in the U.S. National Plant Germplasm System (U.S. NPGS) collection grouped by continent and sub-continent. When Chinese accessions taken collectively were compared with an array of 853 C. sativus U.S. NPGS accessions examined previously, relationships differed between accessions grouped by country or subcontinent. Data indicate that acquisition of additional Chinese and Indian cucumber accessions would be strategically important for increasing genetic diversity in the U.S. NPGS cucumber collection.

scholarly journals Genetic diversity of high and low molecular weight glutenin subunits in Saharan bread and durum wheats from Algerian oases

2012 ◽  
Vol 48 (No. 1) ◽  
pp. 23-32 ◽  
Author(s):  
I. Bellil ◽  
M. Chekara Bouziani ◽  
D. Khelifi
Keyword(s):  
Genetic Diversity ◽  
Molecular Weight ◽  
Durum Wheat ◽  
Bread Wheat ◽  
Allelic Variation ◽  
Low Molecular Weight ◽  
Glutenin Subunits ◽  
Lmw Glutenin Subunits ◽  
Genotypic Identification ◽  
Diversity Studies

Saharan wheats have been studied particularly from a botanical viewpoint. Genotypic identification, classification and genetic diversity studies to date were essentially based on the morphology of the spike and grain. For this, the allelic variation at the glutenin loci was studied in a set of Saharan bread and durum wheats from Algerian oases where this crop has been traditionally cultivated. The high molecular weight and low molecular weight glutenin subunit composition of 40 Saharan bread and 30 durum wheats was determined by SDS-PAGE. In Saharan bread wheats 32 alleles at the six glutenin loci were detected, which in combination resulted in 36 different patterns including 17 for HMW and 23 for LMW glutenin subunits. For the Saharan durum wheats, 29 different alleles were identified for the five glutenin loci studied. Altogether, 29 glutenin patterns were detected, including 13 for HMW-GS and 20 for LMW-GS. Three new alleles were found in Saharan wheats, two in durum wheat at the Glu-B1 and Glu-B3 loci, and one in bread wheat at the Glu-B1 locus. The mean indices of genetic variation at the six loci in bread wheat and at the five loci in durum wheat were 0.59 and 0.63, respectively, showing that Saharan wheats were more diverse. This information could be useful to select Saharan varieties with improved quality and also as a source of genes to develop new lines when breeding for quality.

scholarly journals All Populations Matter: Conservation Genomics of Australia’s Iconic Purple Wattle, Acacia purpureopetala

Diversity ◽  
2021 ◽  
Vol 13 (4) ◽  
pp. 139
Author(s):  
Marlien M. van der Merwe ◽  
Jia-Yee S. Yap ◽  
Peter D. Wilson ◽  
Helen T. Murphy ◽  
Andrew Ford
Keyword(s):  
Genetic Diversity ◽  
Allelic Variation ◽  
Germplasm Conservation ◽  
Snp Markers ◽  
Genomic Diversity ◽  
Ex Situ ◽  
Spatial Distance ◽  
Genetic Connectivity ◽  
Conservation Genomics ◽  
Modelling Framework

Maximising genetic diversity in conservation efforts can help to increase the chances of survival of a species amidst the turbulence of the anthropogenic age. Here, we define the distribution and extent of genomic diversity across the range of the iconic but threatened Acacia purpureopetala, a beautiful sprawling shrub with mauve flowers, restricted to a few disjunct populations in far north Queensland, Australia. Seed production is poor and germination sporadic, but the species occurs in abundance at some field sites. While several thousands of SNP markers were recovered, comparable to other Acacia species, very low levels of heterozygosity and allelic variation suggested inbreeding. Limited dispersal most likely contributed towards the high levels of divergence amongst field sites and, using a generalised dissimilarity modelling framework amongst environmental, spatial and floristic data, spatial distance was found to be the strongest factor explaining the current distribution of genetic diversity. We illustrate how population genomic data can be utilised to design a collecting strategy for a germplasm conservation collection that optimises genetic diversity. For this species, inclusion of all field sites will capture maximum genetic diversity for both in situ and ex situ conservation. Assisted cross pollination, within and between field sites and genetically structured groups, is recommended to enhance heterozygosity particularly at the most disjunct sites and further fragmentation should be discouraged to avoid loss of genetic connectivity.

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