scholarly journals Agro-morphological characterization based genetic diversity of Indonesian local rice germplasm

2021 ◽  
Vol 948 (1) ◽  
pp. 012004
Author(s):  
I W Mulsanti ◽  
A Risliawati ◽  
N Yunani
Keyword(s):  
Genetic Diversity ◽  
Principal Component Analysis ◽  
Quantitative Data ◽  
Morphological Traits ◽  
Principal Component ◽  
Morphological Characters ◽  
Morphological Characterization ◽  
Tiller Number ◽  
Rice Germplasm ◽  
Productive Tiller

Abstract The present study was carried out to characterize 103 Indonesian local rice germplasm on the basis of 20 agro-morphological traits. The local rice germplasm originated from Riau and Jambi province in Sumatera island. Principal Component Analysis (PCA) was used to analyzed 11 quantitative data. PCA explained the genetic diversity of the rice germplasm accession. Most of the morphological characters showed variation in different accession. PC1 and PC2 explained about 32.5% and 22.1% of the variability, respectively. PCI and PC2 mostly related with traits such as productive tiller number (PTN), vegetative tiller number (VTN), plant height (PH), and culm length (CL). PCA-Biplot showed accession from Jambi and Riau manage to be separated, even though the PCA percent is only 54.6%. Accession originated from Riau marked by number of tillers (PTN, VTN), and grain weight (GW) traits. Based on cluster analysis, rice germplasm grouped in to 4 main clusters. Most of the accession from Jambi and Riau grouped in the same cluster, which is cluster I. Whereas eight local accessions from Riau grouped in the same cluster separately (cluster II). Two accession which are Padi Jarum (Acc 2711) and Ketan Hitam (Acc 9300) are individually, separated from others.

scholarly journals Genetic diversity of Albanian pea (Pisum sativum L.) landraces assessed by morphological traits and molecular markers

2014 ◽  
Vol 50 (No. 2) ◽  
pp. 177-184 ◽  
Author(s):  
B. Gixhari ◽  
M. Pavelková ◽  
H. Ismaili ◽  
H. Vrapi ◽  
A. Jaupi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Molecular Markers ◽  
Morphological Traits ◽  
Principal Component ◽  
Morphological Characters ◽  
Insertion Polymorphism ◽  
Growing Seasons ◽  
And Cluster Analysis

In order to investigate the genetic diversity present in the pea germplasm stored in the Albanian genebank, we analyzed 28 local pea genotypes of Albanian origins for 23 quantitative morphological traits, as well as 14 retrotransposon-based insertion polymorphism (RBIP) molecular markers. The study of morphological characters carried out during three growing seasons (2010, 2011 and 2012) had the objective of characterization of traits useful in breeding programs. RBIP marker analysis revealed the genetic similarity in range from 0.06 to 0.45. ANOVA, principal component analysis (PCA) and cluster analysis was used to visualize the association among different traits. Most of the quantitative morphological traits showed significant differences. PCA and cluster analysis (Ward’s method) carried out for morphological traits divided the local pea genotypes into three clusters. Finally, the study identified the agronomicaly important traits which will facilitate the maintenance and agronomic evaluation of the collections.

scholarly journals Keanekaragaman genotipe-genotipe potensial dan penentuan keragaman karakter argo-morfologi ercis (Pisum sativum L.)

Jurnal Agro ◽  
10.15575/3230 ◽  
2018 ◽  
Vol 5 (2) ◽  
pp. 127-139
Author(s):  
Rawina Saragih ◽  
Darmawan Saptadi ◽  
Chindy Ulima Zanetta ◽  
Budi Waluyo
Keyword(s):  
Genetic Diversity ◽  
Principal Component Analysis ◽  
Pisum Sativum ◽  
Pearson Correlation ◽  
Principal Component ◽  
Morphological Characters ◽  
Agglomerative Hierarchical Clustering ◽  
Pair Group ◽  
Pisum Sativum L ◽  
Index Value

Ercis (Pisum sativum L.) merupakan salah satu tanaman kacang komersial yang penting di dunia termasuk di Indonesia. Ercis lokal merupakan sumber populasi untuk meningkatkan kapasitas genetik hasil panen polong dan biji melalui seleksi galur murni. Tujuan penelitian ini untuk mempelajari jarak dan keanekaragaman genetik, serta keragaman karakter 37 genotipe potensial ercis hasil seleksi galur murni varietas lokal. Penelitian dilaksanakan pada bulan Maret hingga Juni 2018 di Desa Pendem, Kecamatan Junrejo, Kota Batu. Percobaan menggunakan rancangan acak kelompok dengan 37 genotipe sebagai perlakuan dan diulang tiga kali, sehingga terdapat 111 satuan percobaan. Pengamatan dilakukan pada masing-masing tanaman yakni karakter agronomi dan morfologi. Pengelompokan genetik didasarkan pada agglomerative hierarchical clustering dengan similiritas koefisien kolerasi Pearson dan metode aglomerasi unweighted pair group method average (UPGMA). Keanekaragaman genetik didasarkan pada indeks Shannon-Wiener (H’) dan indeks Shimpson (D). Keragaman karakter agronomi dan morfologi 37 genotipe ercis menggunakan principal component analysis (PCA) dengan pendekatan tipe korelasi Pearson. Berdasarkan analisis klaster 37 genotipe ercis terbagi menjadi 6 kelompok berdasarkan 61 karakter agro-morfologi dengan koefisien kemiripan 89-99%. Diversitas genetik ercis dikategorikan sedang dengan nilai indeks Shanon-Wiener 1,5 dan nilai indeks Simpson 0,26 yang menunjukkan tidak terdapat kelompok genetik yang mendominansi. Tiga puluh tujuh genotipe ercis memiliki keragaman yang luas. Keragaman kumulatif berdasarkan 61 karakter agro-morfologi yang diamati mencapai 87,83% yang melibatkan 44 karakter pada 16 komponen utama pertama.Pea (Pisum sativum L.) is one of the important commercial legumes in the world, including in Indonesia. The aims of the research were to study  genetic distance, diversity, and characters variability of 37 genotypes of pea. The experiment was conducted on March to June 2018 in Pendem, Junrejo, Batu City. The experimental design used a randomized block design with 37 genotypes as treatments and replicated three times. Observations was made on agronomic and morphological characters. Genetic grouping according to agglomerative hierarchical clustering with Pearson correlation coefficient similarity and unweighted pair group average agglomeration method (UPGMA). Genetic diversity based on Shannon-Wiener (H') index and Shimpson (D) index. Variability of agronomic and morphological characters in 37 genotypes was analyzed by principal component analysis (PCA) with Pearson correlation approach. The results showed that cluster analysis of 37 genotypes was divided into six groups in 61 agro-morphological characters with similarity coefficients of 89-99%. Genetic diversity was medium categorized with Shanon-Wiener index value of 1.5 and Simpson index value of 0.26. It was indicated that no dominating on genotypes group. Thirty seven genotypes of pea showed high variability. Cumulative variability on 61 observed agro-morphological characters reached 87.83% which involved 44 characters in 16 first principal components.

scholarly journals Agro-morphological Characterization and Genetic Diversity of Similar Named Aromatic Rice (Oryza sativa L.) Landraces of Bangladesh

2019 ◽  
Vol 22 (1) ◽  
pp. 45-56
Author(s):  
MZ Islam ◽  
N Akter ◽  
T Chakrabarty ◽  
A Bhuiya ◽  
MA Siddique ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Oryza Sativa L ◽  
Principal Component ◽  
Morphological Characters ◽  
Morphological Characterization ◽  
Aromatic Rice ◽  
Rice Landraces ◽  
Maximum Value ◽  
Cluster Distance ◽  
Selection For

Thirty-six similar named aromatic rice landraces of Bangladesh were studied to assess the genetic variation for the agro-morphological traits through Mahalanobis D2 statistics. The landraces were grouped into four clusters, where no duplicate landrace was found. The inter-cluster distances were higher than intra-cluster distances indicating wider genetic diversity among the landraces of different clusters. The intra-cluster distances were lower in all the cases reflecting homogeneity of the landraces within the clusters. The principal component analysis showed that the first five components with vector values > 1 contributed 76.51% of the total variations. The highest number (13) of landraces was constellated in cluster III and the lowest (3) in cluster I. The intra- and inter-cluster distances were the maximum in cluster I (0.63) and between clusters I and IV (17.13), respectively and the minimum in cluster II (0.03) and between clusters III and IV (3.86), respectively. The maximum value of inter cluster distance indicated that the landraces belonging to cluster IV were far diverged from those of cluster I. So, it is expected in our results that parent’s selection for hybridization from the clusters IV and I may give the desirable heterosis for heterotic rice hybrids. Besides, the cluster mean revealed that the crosses between the genotypes of cluster I with those of clusters IV would exhibit high heterosis for maximum good characters. Hence, yield, grain breadth, days to maturity, culm diameter, ligule length had maximum contribution towards genetic divergence. Besides, evaluation of agro-morphological characters demonstrated that the aromatic rice landraces under the present study possessed a considerable genetic diversity. Therefore, similar and duplicate named aromatic rice landraces need to be conserved in Genebank for future breeding programme. Bangladesh Rice j. 2018, 22(1): 45-56

scholarly journals GENETIC VARIABILITY OF INDONESIAN PAPAYA ACCESSIONS AS REVEALED BY RANDOM AMPLIFIED POLYMORPHIC DNA AND MORPHOLOGICAL CHARACTERIZATION

2019 ◽  
Vol 20 (1) ◽  
pp. 1
Author(s):  
Riry Prihatini ◽  
Tri Budiyanti ◽  
Noflindawati Noflindawati
Keyword(s):  
Genetic Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Principal Component ◽  
Accurate Method ◽  
Morphological Characters ◽  
Morphological Characterization ◽  
Fruit Shape ◽  
Morphological Data ◽  
Group Method ◽  
Pair Group

<p class="abstrakinggris">Diverse papaya (<em>Carica</em> sp.) accessions are found in many regions in Indonesia, but their genetic diversity have not yet been studied. Random Amplified Polymorphic DNA (RAPD) is a simple yet accurate method that can be used to examine the genetic diversity of papaya. The study aimed to examine the genetic diversity of Indonesian papaya accessions using RAPD markers and morphological characters. The RAPD was applied on 23 papaya accessions using 30 primers. The appearing bands were further analyzed with the Unweighted Pair Group Method with Arithmetic Mean (UPGMA) and Principal Component Analysis (PCA). The molecular results were then compared to the fruit morphological data, including fruit shape, size, flesh color, texture, and flavor. The RAPD analysis revealed that the 23 papaya accessions clustered into six main clades with Dice-Sorensen coefficient similarity ranged from 0.71 to 0.98. The first group consisted of 11 accessions, including both the hybrids and local accessions. The second group consisted of eight accessions especially six Indonesian hybrids, a Mexican Hybrid and a Hawaiian hybrid. The other four groups had a single member namely Sicincin Panjang, Lokal Sumani, Cariso, and Carica. The molecular grouping, however, did not align with the fruit character grouping. Overall, it was implied that the Indonesian papaya accessions were genetically narrow, of which some accessions were closely related to Hawaiian and Mexican accessions. These results can be used as a reference on papaya crossbreeding program in Indonesia.</p>

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.

Multivariate Analysis, Genetic Diversity and Phenotypic Correlation of Nineteen Exotic Groundnut Accessions

2016 ◽  
Vol 3 (1) ◽  
Author(s):  
YPJ AMARASINGHE ◽  
G . WIJESINGHE ◽  
R W PUSHPAKUMARA
Keyword(s):  
Genetic Diversity ◽  
Principal Component Analysis ◽  
Growth Parameters ◽  
Principal Component ◽  
Phenotypic Correlation ◽  
Clustering Method ◽  
Yield Parameters ◽  
Arachis Hypogaea L ◽  
Semi Arid ◽  
Number Of Branches

19 Groundnut ( Arachis hypogaea L. ) genotypes receiv ed from International Crops Research Institute for Semi Arid T ropics (ICRISA T) India w ere ev aluated in a non replicated trial and the characters w ere subjected to multiv ariate analysis to study the v ariability within the genotypes. The first 5 axes of the principal component analysis captured 78% of the total v ariability and identified yield parameters such as number of pods per plant, pod w eight per plant and growth parameters such as number of branches per plant, plant spread, and pod characteristics as the characters contributing most to total v ariation. Phenotypic correlation analysis rev ealed that the yield has positiv e correlation with the characters such as number of pods per plant and number of branches per plant. W ards clustering method has grouped the genotypes into 3 distinct clusters. The results can be applied in order to strengthen the breeding program

Genetic Diversity Assessment in Dolichos Bean (Lablab purpureus L.) Based on Principal Component Analysis and Single Linkage Cluster Analysis

2021 ◽  
Author(s):  
S.R. Singh ◽  
S. Rajan ◽  
Dinesh Kumar ◽  
V.K. Soni
Keyword(s):  
Genetic Diversity ◽  
Principal Component Analysis ◽  
Cluster Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
Single Linkage ◽  
Pod Yield ◽  
Diversity Assessment ◽  
Single Linkage Cluster ◽  
Linkage Cluster

Background: Dolichos bean occupies a unique position among the legume vegetables of Indian origin for its high nutritive value and wider climatic adaptability. Despite its wide genetic diversity, no much effort has been undertaken towards genetic improvement of this vegetable crop. Knowledge on genetic variability is an essential pre-requisite as hybrid between two diverse parental lines generates broad spectrum of variability in segregating population. The current study aims to assess the genetic diversity in dolichos genotypes to make an effective selection for yield improvement.Methods: Twenty genotypes collected from different regions were evaluated during year 2016-17 and 2017-18. Data on twelve quantitative traits was analysed using principal component analysis and single linkage cluster analysis for estimation of genetic diversity.Result: Principal component analysis revealed that first five principal components possessed Eigen value greater than 1, cumulatively contributed greater than 82.53% of total variability. The characters positively contributing towards PC-I to PC-V may be considered for dolichos improvement programme as they are major traits involved in genetic variation of pod yield. All genotypes were grouped into three clusters showing non parallelism between geographic and genetic diversity. Cluster-I was best for earliness and number of cluster/plant. Cluster-II for vine length, per cent fruit set, pod length, pod width, pod weight and number of seed /pod, cluster III for number of pods/cluster and pod yield /plant. Selection of parent genotypes from divergent cluster and component having more than one positive trait of interest for hybridization is likely to give better progenies for development of high yielding varieties in Dolichos bean.

scholarly journals A phenetic study of the genus Rasahus Amyot & Serville (Heteroptera, Reduviidae)

1990 ◽  
Vol 1 (3) ◽  
pp. 131-144
Author(s):  
María Coscarón
Keyword(s):  
Principal Component Analysis ◽  
Cluster Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
Morphological Characters ◽  
Basal Plate ◽  
Using Data ◽  
Diagnostic Importance

Cluster analysis by four methods and a principal component analysis were performed using data on 24 morphological characters of 27 species of the genus Rasahus (Peiratinae). The results obtained by the different techniques show general agreement. They confirm the present number of taxa and reveal the existence within the genus of three groups of species: scutellaris , hamatus and vittatus. The scutellaris group is constituted by R. aeneus (Walker), R. maculipennis (Lepelletier and Serville), R. bifurcatas Champion, R. castaneus Coscarón, R. guttatipennis (Stål), R. flavovittarus Stål, R. costarricensis Coscarón, R. scutellaris (Fabricius), R. atratus Coscarón, R. peruensis Coscarón, R. paraguayensis Coscarón, R. surinamensis Coscarón, R. albomaculatus Mayr, R. brasiliensis Coscarón and R. sulcicollis (Serville).The hamatus group contains R. rufiventris (Walker), R. hamatus (Fabricius), R. amapaensis Coscarón, R. arcitenens Stål, R. limai Pinto, R. angulatus coscarón, R. thoracicus Stål, R. biguttatus (Say), R. arcuiger (Stål), R. argentinensis Coscarón and R. grandis Fallou. The vittatus group contains R. vittatus Coscarón. The characters used to separate the groups of species are: shape of the pygophore, shape of the parameres, basal plate complexity, shape of the postocular region and hemelytra pattern. Illustrations of the structures of major diagnostic importance are included.

scholarly journals Antlers Characterization for Identification of Deer Species (Family Cervidae) in Indonesia

2019 ◽  
Vol 4 (3) ◽  
pp. 97
Author(s):  
Donan Satria Yudha ◽  
M Zulfiqar Meizar Pratama ◽  
Rury Eprilurahman
Keyword(s):  
Principal Component Analysis ◽  
Principal Component ◽  
Morphological Characters ◽  
Main Beam ◽  
Size Measurement ◽  
Economic Values ◽  
Deer Species ◽  
Unique Character ◽  
Long Time ◽  
Shape And Size

There are five species of deer (family Cervidae) living in Indonesia today. Male deer possesses antlers, a unique character of male deer. Antlers have economic values for quite a long time. Antler’s growth is influenced by several factors, therefore each species of deer have its own unique antlers’ shape and size. Antler’s identification usually relies on size measurement and overall shape of complete antlers which still attach to the skull. It is difficult to identify shed, broken or individual antler. The purpose of the research is to understand antlers’ morphological characters on each species to become diagnostic characters. Specimens analysed were collections of LIPI and were analysed with Principal Component Analysis (PCA) using PAST3 software. The results showed each species of deer having their own unique antlers’ character, and so it can be used to determine the species of Indonesian deer. The important structures for identification are relief, pedicle, brow, bez, and main beam.

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