scholarly journals West Java local rice panicle branching architecture

2021 ◽  
Vol 306 ◽  
pp. 01013
Author(s):  
Fyannita Perdhana ◽  
Tri Hastini ◽  
Iskandar Ishaq
Keyword(s):  
West Java ◽  
Rice Varieties ◽  
Cophenetic Correlation ◽  
Breeding Programs ◽  
Local Varieties ◽  
High Yielding Variety ◽  
Significant Difference ◽  
Linkage Method ◽  
Cophenetic Correlation Coefficient ◽  
Rice Genotypes

As local varieties of rice have a very important role as a source of valuable traits in developing high yielding variety through plant breeding programs, it is needed to be characterized. Panicle branching characterization is one of the efforts to understand local varieties of rice characteristics more. We have observed thirtheen characters of panicle branching on 24 West Java local rice varieties. Five panicles of each varieties as accession was observed and statistical analysed. Tukey’s Honest Significant Difference (HSD) test showed differences among accessions in all panicle branching characteristics observed. Based on Principles Component Analysis (PCA), the panicle branching characters observed generally showed the same direction, but among them were not always to be correlated. In the result of clustering based on the ward linkage method, the accessions were divided into two clusters. The first one had 8 members, and the second one had 16 members. The cophenetic correlation coefficient was 0.60, indicated that the clustering through standardized value was faithfully enough to represent the original distances. The result of this research can provide the information for breeder in selecting rice genotypes which have more seeds per panicle as parent in assembling new high yielding rice varieties.

scholarly journals Associations between pigments, antioxidant activity and coloring of blackberry fruits (Rubus sp.) and jellies through storage

2019 ◽  
pp. 1625-1630
Author(s):  
Angela Vacaro de Souza ◽  
Fernando Ferrari Putti ◽  
Marcos Ribeiro da Silva Vieira ◽  
Rogério Lopes Vieites
Keyword(s):  
Antioxidant Activity ◽  
Multivariate Analysis ◽  
Correlation Coefficient ◽  
Clustering Analysis ◽  
Cophenetic Correlation ◽  
Negative Relation ◽  
Linkage Method ◽  
Cophenetic Correlation Coefficient ◽  
The Mean ◽  
Generalized Distance

The objective of this study was to investigate the relations between the amount of anthocyanins, carotenoids and the antioxidant activity measured by the FRAP and TEAC methods. Furthermore, pigments and the coloration of blackberry harvested fruits were measured at 3 different collection points then fruits stored in refrigerated environment and the jelly made from them, preserved in hermetically sealed glasses, without contact with light and temperature of 25ºC. In order to investigate the relations between the study variables (content of anthocyanins and carotenoids, antioxidant activity and coloration using digital colorimeter), Pearson’s correlation analysis was adopted, which indicates the existence of a positive or negative relation between two variables. The α = 5% (correlation coefficient) was used to verify the significance of the correlation. The Mahalanobis (D2) generalized distance for the clustering analysis by the mean linkage method between group of blackberry fruits and jellies was applied. Furthermore, the cophenetic correlation coefficient and multivariate analysis using major components were applied to verify the grouping of different responses of harvesting points of fresh blackberry fruit in natura and jellies. The results showed that there was correlation between the content of anthocyanins and carotenoids in fruits (0.99*) and between the same parameters in jellies. However, this behavior was not clearly observed between the pigments and the antioxidant activity. There was a positive correlation between the factors involved in the coloring of chroma fruits ‘L’, ‘a’, ‘b’ and ºHue in fruits and jellies. Blackberry jellies presented as good sources of anthocyanins and carotenoids.

scholarly journals Evaluation of Newly Developed Rice Lines in Lowland Ecology in Ghana

2020 ◽  
Vol 2 (6) ◽  
Author(s):  
Esther Fobi Donkor ◽  
Remember Roger Adjei ◽  
Sober Ernest Boadu
Keyword(s):  
Moisture Content ◽  
Analysis Of Variance ◽  
Agronomic Traits ◽  
Agricultural Research ◽  
Principal Component ◽  
Research Field ◽  
Rice Varieties ◽  
Statistical Tool ◽  
Cophenetic Correlation ◽  
Cophenetic Correlation Coefficient

Rice is one of the major staple foods consumed in all part of the world including Ghana. The study was conducted at the research field of CSIR in Sokwai to evaluate the performance of the newly released rice varieties in lowland ecology in Ghana. The data collected were subjected to analysis of variance using Statistical Tool for Agricultural Research Version 2.0.1. The analysis of variance revealed a highly significant variation among most of the agronomic traits studied except for the panicle length, moisture content, total weight of 5 hills, the percent moisture content and the lodging index. The first five principal component (PC) accounted for 71% of the total variation with PC1, PC2 and PC3 contributing 20%, 17% and 13% respectively. The cluster analysis placed the accessions into five main clusters. The cophenetic correlation coefficient (CCC) was 0.42.

scholarly journals Validity studies among hierarchical methods of cluster analysis using cophenetic correlation coefficient

2019 ◽  
Vol 7 (2A) ◽  
Author(s):  
Priscilla Ramos Carvalho ◽  
Casimiro Sepúlveda Munita ◽  
André Luiz Lapolli
Keyword(s):  
Cluster Analysis ◽  
Correlation Coefficient ◽  
Single Linkage ◽  
Cophenetic Correlation ◽  
Data Set ◽  
Archaeological Data ◽  
Average Linkage ◽  
Linkage Method ◽  
Cophenetic Correlation Coefficient ◽  
Statistical Program

The literature presents many methods for partitioning of data set, and is difficult choose which is the most suitable, since the various combinations of methods based on different measures of dissimilarity can lead to different patterns of grouping and false interpretations. Nevertheless, little effort has been expended in evaluating these methods empirically using an archaeological data set. In this way, the objective of this work is make a comparative study of the different cluster analysis methods and identify which is the most appropriate. For this, the study was carried out using a data set of 45 samples of ceramic fragments, analyzed by instrumental neutron activation analysis (INAA). The methods used for this study were: Single linkage, Complete linkage, Average linkage, Centroid and Ward. The validation was done using the cophenetic correlation coefficient and comparing these values the average linkage method obtained better results. A script of the statistical program R with some functions was created to obtain the cophenetic correlation. By means of these values was possible to choose the most appropriate method to be used in the data set.

scholarly journals Diversity analysis of some selected rice genotypes through SSR- based molecular markers

2016 ◽  
Vol 12 (2) ◽  
pp. 307-311 ◽  
Author(s):  
MH Shahriar ◽  
AHK Robin ◽  
SN Begum ◽  
A Hoque
Keyword(s):  
Genetic Diversity ◽  
Marker Assisted Selection ◽  
Oryza Sativa L ◽  
Diversity Analysis ◽  
Growth Duration ◽  
Rice Varieties ◽  
Breeding Programs ◽  
Breeding Lines ◽  
Early Maturing ◽  
Rice Genotypes

An experiment was carried out to assess the genetic diversity of advanced rice (Oryza sativa L.) breeding lines using three SSR markers viz., RM147, RM167 and RM215. Thirty T- aman advanced breeding lines at F9 generation along with 4 check varieties were assessed. All three primers showed polymorphism. A total of 29 alleles were detected among the rice genotypes with an average of 9.67 alleles per locus. Polymorphism information content (PIC) ranged from 0.47 to 0.88 with an average of 0.71. A dendrogram was constructed based on total microsatellite polymorphism and 34 genotypes were grouped into four major clusters at 0.36 similarity co-efficient differentiating the early maturing genotypes from the late maturing types. The information about the genetic diversity might be utilized in future breeding programs for developing rice varieties with much shorter growth duration. The results also suggested that microsatellite markers which are linked to genes or QTLs responsible for growth duration properties are suitable tools for marker assisted selection (MAS) to select the rice genotypes of shorter growth duration.J. Bangladesh Agril. Univ. 12(2): 307-311, December 2014

scholarly journals Breeding of High Cooking and Eating Quality in Rice by Marker-Assisted Backcrossing (MABc) Using KASP Markers

Plants ◽  
2021 ◽  
Vol 10 (4) ◽  
pp. 804
Author(s):  
Me-Sun Kim ◽  
Ju-Young Yang ◽  
Ju-Kyung Yu ◽  
Yi Lee ◽  
Yong-Jin Park ◽  
...  
Keyword(s):  
Genetic Background ◽  
Amylose Content ◽  
Yield Potential ◽  
Eating Quality ◽  
Breeding Cycle ◽  
Recurrent Parent ◽  
Rice Varieties ◽  
Breeding Programs ◽  
Genome Wide ◽  
Cooking And Eating Quality

The primary goals of rice breeding programs are grain quality and yield potential improvement. With the high demand for rice varieties of premium cooking and eating quality, we developed low-amylose content breeding lines crossed with Samgwang and Milkyqueen through the marker-assisted backcross (MABc) breeding program. Trait markers of the SSIIIa gene referring to low-amylose content were identified through an SNP mapping activity, and the markers were applied to select favorable lines for a foreground selection. To rapidly recover the genetic background of Samgwang (recurrent parent genome, RPG), 386 genome-wide markers were used to select BC1F1 and BC2F1 individuals. Seven BC2F1 lines with targeted traits were selected, and the genetic background recovery range varied within 97.4–99.1% of RPG. The amylose content of the selected BC2F2 grains ranged from 12.4–16.8%. We demonstrated the MABc using a trait and genome-wide markers, allowing us to efficiently select lines of a target trait and reduce the breeding cycle effectively. In addition, the BC2F2 lines confirmed by molecular markers in this study can be utilized as parental lines for subsequent breeding programs of high-quality rice for cooking and eating.

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

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.

scholarly journals Genotype-environment interaction and stability analysis of four fine rice varieties

2012 ◽  
Vol 10 (1) ◽  
pp. 1-7
Author(s):  
P L Biswas ◽  
U K Nath ◽  
S Ghosal ◽  
A K Patwary
Keyword(s):  
Stability Analysis ◽  
Plant Height ◽  
Environmental Changes ◽  
Environment Interaction ◽  
Panicle Length ◽  
Rice Varieties ◽  
Stability Parameters ◽  
Panicle Number ◽  
Days To Maturity ◽  
Rice Genotypes

Genotype-environment interactions through different stability parameters and performance traits of four fine rice genotypes were studied. The traits were; days to 50% flowering, days to maturity, plant height (cm), number of effective tillers per hill, panicle length (cm), number of fertile grains per panicle, number of sterile grains per panicle and yield (t/ha) in four fine rice genotypes across nine environments along with experimental farm of Genetics and Plant Breeding department, Bangladesh Agricultural University (BAU) Mymensingh. Significant differences were observed for genotypes, environments and genotypes–environment interaction. Stability analysis after Eberhat and Russell’s model suggested that the genotypes used in study were more or less responsive to environmental changes. Most of the genotypes performed better in Comilla. BAU125 was found stable for effective tillers per hill and comparatively less sensitive to other genotypes in panicle length and number of sterile grains per panicle. BR5 was stable for days to maturity and plant height whereas Kalizira performed better than other genotypes for fertile grains per panicle. In general, only the genotype BAU125 was found stable for effective tillers per hill, panicle length and lowest number of sterile grains per panicle.   DOI: http://dx.doi.org/10.3329/jbau.v10i1.12011   J. Bangladesh Agril. Univ. 10(1): 1–7, 2012  

scholarly journals Relationship between Growth and Wood properties in Agathis sp. Planted in Indonesia

2017 ◽  
Vol 3 (1) ◽  
pp. 1-5
Author(s):  
Futoshi Ishiguri ◽  
Kazuko Makino ◽  
Imam Wahyudi ◽  
Jun Tanabe ◽  
Yuya Takashima ◽  
...  
Keyword(s):  
Wood Quality ◽  
Basic Density ◽  
Tree Breeding ◽  
Wood Properties ◽  
Stem Diameter ◽  
Breeding Programs ◽  
Significant Difference ◽  
Pilodyn Penetration ◽  
The Mean ◽  
The Relationship

The present study clarified the relationship between the growth and wood properties of 54-year-old Agathis sp. trees planted in Indonesia. Stem diameter, pilodyn penetration, and stress-wave velocity (SWV) were measured for all trees (35 trees) in a plot (30  30 m) located almost at the center of a stand. Based on the mean stem diameter, 10 standard trees in a plot were selected for measuring the basic density (BD) and compressive strength parallel to grain (CS). Core samples (5 mm in diameter) were collected from the 10 selected trees to determine BD and CS. The mean stem diameter, pilodyn penetration and SWV in the plot were 40.2  11.3 cm, 23.4  2.1 cm, and 3.85  0.43 km/s, respectively. No  significant correlation coefficeint (r = -0.327, no significance at 5% level) was obtained between stem diameter and SWV. The mean BD and CS in the 10 trees were 0.42  0.03 g/cm3  and 28.1  2.7 MPa, respectively. A significant positive  correlation was observed between BD and CS. Analysis of variance (ANOVA) revealed a significant difference between BD and CS values of the 10 trees, indicating that wood properties may differ among trees with the same standard growth in a stand. From these results, we concluded that wood quality improvement in this species could be achieved by selecting  trees with high density and strength in tree breeding programs.

scholarly journals The Identification of Rice Varieties Used in Central Sulawesi

2021 ◽  
Vol 232 ◽  
pp. 03013
Author(s):  
Femmi Norfahmi ◽  
Komalawati Komalawati ◽  
Muh. Afif Juradi ◽  
Mardiana Mardiana ◽  
F.F. Munier
Keyword(s):  
Secondary Data ◽  
Rice Production ◽  
Rice Varieties ◽  
Local Varieties ◽  
Rice Productivity ◽  
Pests And Diseases ◽  
High Yielding Varieties ◽  
Central Sulawesi

Central Sulawesi’s rice productivity in 2019 was lower compared to that in 2018. One of the problems for the low productivity of paddy in Central Sulawesi is the application of low quality of seeds. Ministry of Agriculture through Central Sulawesi AIAT has introduced a numbers of new high yielding varieties (HYV) to increase rice production and productivity. To support the dissemination of new HYV, it is important to study the rice varieties that mostly used by farmers in Central Sulawesi. The objectives of this study are to identify the rice varieties and the preferred characteristics of rice varieties that farmers usually used in Central Sulawesi. This study used primary and secondary data. Data were analyzed descriptively and presented in tables and graphs. The results show that most farmers in Central Sulawesi use Mekongga, Ciherang, and Cisantana varieties, and local varieties such as Peluncur, Dewi, Ntabone and others. Farmers generally prefer varieties which tend to produce higher yields and resistant to pests and diseases. To maintain the availability of the varieties in Central Sulawesi, it is important to train farmers to become breeders.

scholarly journals Genetic Diversity Analysis of 53 Indonesian Rice Genotypes using 6K Single Nucleotide Polymorphism Markers

2018 ◽  
Vol 14 (1) ◽  
pp. 1
Author(s):  
Joko Prasetiyono ◽  
Nurul Hidayatun ◽  
Tasliah Tasliah
Keyword(s):  
Genetic Diversity ◽  
Morphological Characters ◽  
Snp Markers ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Tropical Japonica ◽  
Rice Chromosomes ◽  
Improvement Programs ◽  
Rice Genotypes ◽  
Genotypic Mixtures

<p>Indonesia is rich in rice genetic resources, however, only a small number has been used in variety improvement programs. This study aimed to determine the genetic diversity of Indonesian rice varieties using 6K SNP markers. The study was conducted at ICABIOGRAD for DNA isolation and IRRI for SNP marker analysis. Genetic materials were 53 rice genotypes consisting of 49 varieties and 4 check genotypes. SNP markers used were 6K loci. Results showed that among the markers analyzed, only 4,606 SNPs (76.77%) were successfully read. The SNP markers covered all twelve rice chromosomes of 945,178.27 bp. The most common allele observed was GG, whereas the least allele was TG. Dendrograms of the 53 rice varieties analyzed with 4,606 SNPs demonstrated several small groups containing genotypic mixtures between indica and japonica rice, and no groups were found to contain firmly indica or japonica type. Structure analysis (K = 2) with value of 0.8 showed that the 53 rice varieties were divided into several groups and each group consisted of 4 japonica, 2 tropical japonica, 46 indica, and 1 aus rice type, respectively. IR64 and Ciherang proved to have an indica genome, while Rojolele has japonica one. Dupa and Hawara Bunar, usually grouped into tropical japonica rice, were classified as indica type, and Hawara Bunar has perfectly 100% indica type. The results of this study indicated that rice classification (indica-japonica) which is usually classified based only on morphological characters, e.g. grain and leaf shapes, is not enough and classification based on SNP markers should be considered for that purpose.</p>

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