scholarly journals Genetic Variation And Association Mapping of Phenolic, Flavonoid Content And Antioxidant Capacity In USDA Rice Mini-Core Collection

2021 ◽  
Author(s):  
Qingzhu Li ◽  
Yongyi Ge ◽  
Lily Yan Wang ◽  
Kehu Li
Keyword(s):  
Association Mapping ◽  
Antioxidant Capacity ◽  
Core Collection ◽  
Phenolic Content ◽  
Total Phenolics ◽  
Genotypic Variation ◽  
Genotypic Diversity ◽  
Flavonoid Content ◽  
Mini Core Collection ◽  
Genome Wide

Abstract Genotypic diversity of total phenolics, flavonoid content and antioxidant capacity in the USDA rice mini-core collection was analyzed. Wide genotypic variation was found in total phenolics, flavonoid content and ABTS antioxidant capacity. Genome-wide association mapping between the three antioxidant traits and 155 SSR markers was conducted using Q + K model which takes both population structure (Q) and relative kinship (K) into consideration. A total of 23 marker trait association were identified with markers from Rc gene showed the strongest association with the three antioxidant traits. Rid12, RM484, RM162, RM5371 were commonly detected for phenolic content, flavonoids content and antioxidant capacity.

Association mapping of grain color, phenolic content, flavonoid content and antioxidant capacity in dehulled rice

2010 ◽  
Vol 122 (5) ◽  
pp. 1005-1016 ◽  
Author(s):  
Yafang Shao ◽  
Liang Jin ◽  
Gan Zhang ◽  
Yan Lu ◽  
Yun Shen ◽  
...  
Keyword(s):  
Association Mapping ◽  
Antioxidant Capacity ◽  
Phenolic Content ◽  
Flavonoid Content ◽  
Grain Color

Design of a Brassica rapa core collection for association mapping studiesThis article is one of a selection of papers from the conference “Exploiting Genome-wide Association in Oilseed Brassicas: a model for genetic improvement of major OECD crops for sustainable farming”.

Genome ◽  
2010 ◽  
Vol 53 (11) ◽  
pp. 884-898 ◽  
Author(s):  
Jianjun Zhao ◽  
Anna Artemyeva ◽  
Dunia Pino Del Carpio ◽  
Ram Kumar Basnet ◽  
Ningwen Zhang ◽  
...  
Keyword(s):  
Association Mapping ◽  
Flowering Time ◽  
Brassica Rapa ◽  
Core Collection ◽  
Field Experiments ◽  
Research Centre ◽  
Candidate Gene Approach ◽  
Core Collections ◽  
Genome Wide ◽  
Using Data

A Brassica rapa collection of 239 accessions, based on two core collections representing different morphotypes from different geographical origins, is presented and its use for association mapping is illustrated for flowering time. We analyzed phenotypic variation of leaf and seed pod traits, plant architecture, and flowering time using data collected from three field experiments and evaluated the genetic diversity with a set of SSR markers. The Wageningen University and Research Centre (WUR) and the Vavilov Research Institute of Plant Industry (VIR) core collections had similar representations of most morphotypes, as illustrated by the phenotypic and genetic variation within these groups. The analysis of population structure revealed five subgroups in the collection, whereas previous studies of the WUR core collection indicated four subgroups; the fifth group identified consisted mainly of oil accessions from the VIR core collection, winter oils from Pakistan, and a number of other types. A very small group of summer oils is described, that is not related to other oil accessions. A candidate gene approach was chosen for association mapping of flowering time with a BrFLC1 biallelic CAPS marker and a BrFLC2 multiallelic SSR marker. The two markers were significantly associated with flowering time, but their effects were confined to certain morphotypes and (or) alleles. Based on these results, we discuss the optimal design for an association mapping population and the need to fix the heterogeneous accessions to facilitate phenotyping and genotyping.

scholarly journals Genome-wide association mapping identifies markers associated with cane yield components and sucrose traits in the Louisiana sugarcane core collection

Genomics ◽  
2019 ◽  
Vol 111 (6) ◽  
pp. 1794-1801 ◽  
Author(s):  
Nathanael Fickett ◽  
Andres Gutierrez ◽  
Mohit Verma ◽  
Michael Pontif ◽  
Anna Hale ◽  
...  
Keyword(s):  
Association Mapping ◽  
Yield Components ◽  
Core Collection ◽  
Genome Wide Association ◽  
Cane Yield ◽  
Genome Wide

scholarly journals Proximate and Biological Activity Studies of Syzygium samarangense: Study of different extractives of Syzygium samarangense

2021 ◽  
Vol 3 (1) ◽  
pp. 172-177
Author(s):  
Mohammad Shoeb ◽  
Keyword(s):  
Antioxidant Capacity ◽  
Total Phenolic Content ◽  
Phenolic Content ◽  
Ash Content ◽  
Total Phenolic ◽  
Flavonoid Content ◽  
Methanolic Extracts ◽  
Total Antioxidant ◽  
Polycyclic Aromatic ◽  
Red Variety

Fruits of red and green varieties of Syzygium samarangense, commonly known as Jamrul in Bangladesh, are very popular for all ages of people. Air-dried fruits of S. samarangense were successively extracted with n-hexane, dichloromethane (DCM) and methanol. The moisture and ash content of the raw fruits were determined by thermal heating at 105 and 700, respectively. Different biologically important functional groups were identified by FT-IR spectroscopy. The n-hexane, DCM and methanolic extracts were tested for cytotoxicity against HeLa and Vero cell lines. Total phenolic content, total flavonoid content and total antioxidant capacity in the three extracts of both varieties were determined. The moisture content and ash content were 92% and 90%, and 0.12% and 0.16% in red variety and green variety, respectively. UV-Vis spectrum revealed the presence of long chain conjugation or polycyclic aromatic chromophores in n-hexane, DCM and methanolic extracts of S. samarangense. The DCM extract of both varieties had highest total phenolic content, flavonoid content and antioxidant capacity compared to n-hexane and methanol extracts. The study concludes that the fruit of S. samarangense (red and green variety) grown in Bangladesh are rich source of phytochemicals which possess antioxidant activity and safe to health for their non-cytotoxic properties. The green variety contains more phenolic content and antioxidant capacity than red variety.

scholarly journals Study on Total Phenolic, Flavonoid and Antioxidant Capacity of Fish Singgang Extracts

2021 ◽  
pp. 12-21
Author(s):  
Anis Nafisah Jamain ◽  
Norhaslinda Ridzwan ◽  
Mimie Noratiqah Jumli ◽  
Norhayati Abd Hadi ◽  
Mohd Adzim Khalili Rohin ◽  
...  
Keyword(s):  
Moisture Content ◽  
Antioxidant Capacity ◽  
Total Phenolic Content ◽  
Phenolic Content ◽  
Control Sample ◽  
Ash Content ◽  
Total Flavonoid ◽  
Total Phenolic ◽  
Total Flavonoid Content ◽  
Flavonoid Content

Aim: To evaluate the ash and moisture contents, total phenolic content, total flavonoid content, and antioxidant potential of Terengganu singgang extracts. Study Design: Experimental study. Place and Duration of Study: Central Laboratory, Tissue Culture Laboratory, Universiti Sultan Zainal Abidin, Terengganu between April 2019 and July 2019. Methodology: Samples comprised three types of singgang dishes, which were prepared, cooked, and then extracted with distilled water and ethanol (EtOH) in different strengths, 50%, 70%, and 100%. These singgang samples were chub mackerel (ST), Indian mackerel (SK), and a control sample with no fish(SC). Extracts were analyzed for their moisture and ash content. Also, the total phenolic content (TPC) was assayed using Folin-Ciocalteu reagent, while total flavonoid content (TFC) using AlCl3 colorimetric assay, and antioxidant activity using 1,1-Diphenyl-2-picrylhydrazyl (DPPH). The total antioxidant capacity (T-AOC) was also evaluated. Results: Experimental assays showed that the SC sample extracted in 100% EtOH produced the highest yield (3.7%). SK samples were lower than SC and ST in moisture content and ash content with 94.21%, 96.37% and 93.03% moisture content and 0.85%, 0.71%, and 0.96% ash content. Meanwhile, the extract of ST in 100% EtOH yielded the highest TPC (315.0 mg GAE/100g) and T-AC (8.8 U/mL) but the lowest in DPPH scavenging activity (12.2%). On the other hand, the extract of SK in 70% EtOH gave the highest TFC with 6485.3 mg QE/100g. The correlation of TFC and TPC with DPPH and T-AOC assays was positively significant. Conclusion: In conclusion, the ST extract yielded the best antioxidant capacity.

scholarly journals Genome-Wide Detection of SNP Markers Associated with Four Physiological Traits in Groundnut (Arachis hypogaea L.) Mini Core Collection

Agronomy ◽  
2020 ◽  
Vol 10 (2) ◽  
pp. 192 ◽  
Author(s):  
Abdulwahab S. Shaibu ◽  
Clay Sneller ◽  
Babu N. Motagi ◽  
Jackline Chepkoech ◽  
Mercy Chepngetich ◽  
...  
Keyword(s):  
Core Collection ◽  
Vegetation Index ◽  
Normalized Difference Vegetation Index ◽  
Canopy Temperature ◽  
Snp Markers ◽  
Physiological Traits ◽  
Area Index ◽  
Trait Association ◽  
Mini Core Collection ◽  
Genome Wide

In order to integrate genomics in breeding and development of drought-tolerant groundnut genotypes, identification of genomic regions/genetic markers for drought surrogate traits is essential. We used 3249 diversity array technology sequencing (DArTSeq) markers for a genetic analysis of 125 ICRISAT groundnut mini core collection evaluated in 2015 and 2017 for genome-wide marker-trait association for some physiological traits and to determine the magnitude of linkage disequilibrium (LD). Marker-trait association (MTA) analysis, probability values, and percent variation modelled by the markers were calculated using the GAPIT package via the KDCompute interface. The LD analysis showed that about 36% of loci pairs were in significant LD (p < 0.05 and r2 > 0.2) and 3.14% of the pairs were in complete LD. The MTAs studies revealed 20 significant MTAs (p < 0.001) with 11 markers. Four MTAs were identified for leaf area index, 13 for canopy temperature, one for chlorophyll content and two for normalized difference vegetation index. The markers explained 20.8% to 6.6% of the phenotypic variation observed. Most of the MTAs identified on the A subgenome were also identified on the respective homeologous chromosome on the B subgenome. This could be due to a common ancestor of the A and B genome which explains the linkage detected between markers lying on different chromosomes. The markers identified in this study can serve as useful genomic resources to initiate marker-assisted selection and trait introgression of groundnut for drought tolerance after further validation.

scholarly journals Association Analysis of Arsenic-Induced Straighthead in Rice (Oryza sativa L.) Based on the Selected Population with a Modified Model

2017 ◽  
Vol 2017 ◽  
pp. 1-6
Author(s):  
Xiaobai Li ◽  
Biaolin Hu ◽  
Xuhao Pan ◽  
Ning Zhang ◽  
Dianxing Wu
Keyword(s):  
Association Mapping ◽  
Linkage Mapping ◽  
Core Collection ◽  
Oryza Sativa L ◽  
Yield Losses ◽  
Optimal Model ◽  
Physiological Disorder ◽  
Modified Model ◽  
Genome Wide ◽  
Marker Loci

A rice physiological disorder makes mature panicle keep erect with empty grains termed as “straighthead.” Straighthead causes yield losses and is a serious threat to rice production worldwide. Here, a new study of association mapping was conducted to identify QTL involved in straighthead. A subset of 380 accessions was selected from the USDA rice core collection and genotyped with 72 genome-wide SSR markers. An optimal model implemented with principle components (PCs) was used in this association mapping. As a result, five markers were identified to be significantly associated with straighthead. Three of them, RM263, RM169, and RM224, were consistent with a previous study. Three markers, RM475, RM263, and RM19, had a resistant allele associated with a decrease in straighthead rating (straighthead rating ≤ 4.8). In contrast, the two other marker loci RM169 and RM224 had a few susceptible alleles associated with an increase in straighthead rating (straighthead rating ≥ 8.7). Interestingly, RM475 is close to QTL “qSH-2” and “AsS” with straighthead resistance, which was reported in two studies on linkage mapping of straighthead. This finding adds to previous work and is useful for further genetic study of straighthead.

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