Genetic diversity of Aquilaria microcarpa Baill. in Kalimantan using RAPD Markers

Abstract Aquilaria microcarpa is one of the agarwood producers species included in the endangered category based on the IUCN red list. Kalimantan is one of the natural distributions of this species. The high demand for agarwood causes this species to be commonly cultivated in community plantations. This study aimed to assess the genetic diversity of A. microcarpa using the RAPD markers. Forty-four leaf samples of A.microcarpa were collected from the local community in Gumbil (South Kalimantan) and Sanggau (West Kalimantan). The results showed that 9 out of 24 RAPD primers were stable in amplification, and polymorphic totally consisted of 49 polymorphic loci. The values of unbiased expected heterozygosity (uHE) were at a low level; they ranged between 0.152 (Gumbil II) to 0.249 (Gumbil I). The average genetic distance between Gumbil and Sanggau is 0.1733, related to their geographic distance. A private allele was only found at Gumbil at locus G18/540 and Sanggau at locus G18/550, respectively. A great DA value between Gumbil I and II showed that the plantations originated from different seed sources. AMOVA also verified the differences between the two populations. This finding has important implications in managing plantations and seeds transfer.

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Genetic Diversity among Calamus brandisii Becc. (Arecaceae) Populations in Kerala Part of Western Ghats

Indian Journal of Forestry ◽

10.54207/bsmps1000-2021-xm8ipx ◽

2021 ◽

Vol 43 (1) ◽

pp. 38-42

Author(s):

Kavungal Priya ◽

◽

Indira . ◽

Vadakkethil Balakrishnan Sreekumar ◽

Renuka . ◽

...

Keyword(s):

Genetic Diversity ◽

Western Ghats ◽

Rapd Markers ◽

Gene Diversity ◽

Issr Markers ◽

High Genetic Diversity ◽

Western Ghats Of India ◽

The Mean ◽

Two Parameters ◽

Two Populations

Calamus brandisii Becc. is one of the endemic slender rattans found in the Western Ghats of India. The genetic diversity of two main populations available in Kerala was investigated using 20 RAPD and 9 ISSR markers. Two parameters viz., gene diversity and genetic diversity within and among populations were analyzed. ISSR analysis showed quite high genetic diversity in Pandimotta compared to Bonacaud population whereas in RAPD markers both these populations were moderately diverse. The percentage of total genetic differentiation (Gst) among two populations is relatively higher than the mean Gst value indicating high genetic diversity within the populations. The genetic distance between these two populations was 0.1739 with ISSR markers and 0.1971 with RAPD markers. Because of its high genetic diversity, Pandimotta population can be treated as an important population of gene diversity with potentially useful genes. This may be included in the high priority reservoir for genetic conservation also.

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Genetic, morphological and spatial characterization of two populations of Mabea fistulifera Mart. (Euphorbiaceae), in different successional stages

Brazilian Archives of Biology and Technology ◽

10.1590/s1516-89132005000200015 ◽

2005 ◽

Vol 48 (2) ◽

pp. 275-284 ◽

Cited By ~ 7

Author(s):

Maíra Figueiredo Goulart ◽

Sérvio Pontes Ribeiro ◽

Maria Bernadete Lovato

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Genetic Data ◽

Ecological Traits ◽

Spatial Characterization ◽

Shannon’S Index ◽

Successional Stages ◽

Morphologic Data ◽

Two Populations

Two populations of Mabea fistulifera (Euphorbiaceae) located at Rio Doce State Park (Minas Gerais, Brazil) in places characterized as in different successional stages, were investigated through genetic and ecological traits. Twenty randomly chosen individuals from each population had its genetic data assessed by 43 RAPD markers and were also evaluated through five morphologic traits and its spatial distribution. Both Shannon's index and AMOVA reveled that most of the genetic variation was found between individuals within populations and about 9% of variation was located between populations. Moreover, populations differed genetically, but presented similar values of genetic diversity. Morphologic data showed differences between populations. Significant correlations among matrix of genetic, geographic and morphologic distances were obtained considering both populations, and spatially closer individuals were more similar genetically, characterizing genetic substructured populations.

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Genetic Diversity Analysis of Elops machnata (Forskal) Populations in South East and West Coasts of India Using RAPD Markers

Notulae Scientia Biologicae ◽

10.15835/nsb649418 ◽

2014 ◽

Vol 6 (4) ◽

pp. 399-406

Author(s):

Vellaichamy RAMANADEVI ◽

Muthusamy THANGARAJ

Keyword(s):

Genetic Diversity ◽

Coastal Waters ◽

Rapd Markers ◽

South India ◽

Rapd Analysis ◽

Random Amplified Polymorphic Dna ◽

Geographic Distance ◽

Eastern Africa ◽

International Union ◽

South Indian

The Random Amplified Polymorphic DNA (RAPD) technique was used to study the genetic diversity of four Elops machnata populations in South India. Elops machnata is considered as a least concern species (LC), categorized by the International Union for Conservation and Nature (IUCN). The population trends are currently stable in Indian Ocean, Eastern Africa, but are unknown throughout the rest of its expansive range, especially in Indian estuaries. Among the ten RAPD primers tested, eight primers got amplified and gave scorable bands. In total, 119 scorable bands were observed in all populations. The overall observed and effective number of alleles was found to be 2.000 ± 0.000 and 1.5307 ± 0.2503 respectively for the entire population. The overall polymorphic loci were 61.00% and the overall gene flow among the four populations was predicted to 0.1032. The genetic distance and geographic distance between the four populations showed a positive correlation. The highest genetic similarity (0.6824) was found between Parangipettai and Muthupettai population, which reflected the geographical relationship between them. Tow main clusters were obtained based on UPGMA dendrogram. This study proves that RAPD analysis has the ability to discriminate E. machnata populations in South Indian coastal waters.

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Genetic Diversity, Population Structure and Marker-Trait Association for 100-Seed Weight in International Safflower Panel Using SilicoDArT Marker Information

Plants ◽

10.3390/plants9050652 ◽

2020 ◽

Vol 9 (5) ◽

pp. 652 ◽

Cited By ~ 1

Author(s):

Fawad Ali ◽

Muhammad Azhar Nadeem ◽

Muzaffer Barut ◽

Ephrem Habyarimana ◽

Hassan Javed Chaudhary ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Seed Weight ◽

Mixed Linear Model ◽

Oilseed Crop ◽

Trait Association ◽

Information Index ◽

Expected Heterozygosity ◽

Two Populations ◽

100 Seed Weight

Safflower is an important oilseed crop mainly grown in the arid and semi-arid regions of the world. The aim of this study was to explore phenotypic and genetic diversity, population structure, and marker-trait association for 100-seed weight in 94 safflower accessions originating from 26 countries using silicoDArT markers. Analysis of variance revealed statistically significant genotypic effects (p < 0.01), while Turkey samples resulted in higher 100-seed weight compared to Pakistan samples. A Constellation plot divided the studied germplasm into two populations on the basis of their 100-seed weight. Various mean genetic diversity parameters including observed number of alleles (1.99), effective number of alleles (1.54), Shannon’s information index (0.48), expected heterozygosity (0.32), and unbiased expected heterozygosity (0.32) for the entire population exhibited sufficient genetic diversity using 12232 silicoDArT markers. Analysis of molecular variance (AMOVA) revealed that most of the variations (91%) in world safflower panel are due to differences within country groups. A model-based structure grouped the 94 safflower accessions into populations A, B, C and an admixture population upon membership coefficient. Neighbor joining analysis grouped the safflower accessions into two populations (A and B). Principal coordinate analysis (PCoA) also clustered the safflower accessions on the basis of geographical origin. Three accessions; Egypt-5, Egypt-2, and India-2 revealed the highest genetic distance and hence might be recommended as candidate parental lines for safflower breeding programs. The mixed linear model i.e., the Q + K model, demonstrated that two DArTseq markers (DArT-45483051 and DArT-15672391) had significant association (p < 0.01) for 100-seed weight. We envisage that identified DArTseq markers associated with 100-seed weight will be helpful to develop high-yielding cultivars of safflower through marker-assisted breeding in the near future.

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461 PB 292 MAPPING RAPD MARKER DIVERSITY IN PHASEOLUS VULGARIS

HortScience ◽

10.21273/hortsci.29.5.497c ◽

1994 ◽

Vol 29 (5) ◽

pp. 497c-497

Author(s):

Paul Skroth ◽

Jim Nienhuis ◽

Geunhwa Jung ◽

Dermont Coyne

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Genetic Relationships ◽

Rapd Marker ◽

Plant Genetic Resources ◽

Ex Situ ◽

Good Tool ◽

Germplasm Collections ◽

Efficient Construction ◽

Two Populations

Knowledge of genetic relationships and genetic diversity among accessions is essential for the efficient construction, maintainance and utilization of large ex-situ germplasm collections. Furthermore, streamlining of large collections into care collections necessitates validation of germplasm sampling techniques. DNA molecular markers provide potentially unbiased estimators of genome diversity end may facilitate organization, maintainance, and sampling of plant genetic resources. Our data suggests that RAPD markers will be o good tool for testing tore collection concepts and organizing genetic diversity in common bean. However, the genomic distribution of markers is unknown. Currently we are using recombinant inbred (RI) populations to place RAPD markers in the context of the bean genetic map. We hove evaluated the the distribution of RAPD markers in three RI populations: Bat93 × Jalo EEP558, PC50 × Xan159, and BAC6 × HT7719. Cultivated P.vulgaris has two primary renters of diversity Mesoamerican and Andean, the RI populations used for mapping RAPD markers ore Meso × Andean, Andean × Andean, and Meso × Meso crosses respectively. In the Bat93 × Jalo EEP558 population 383 markers have been mapped for a map length of 735 cM. However, approximately 150 of these markers ore members of 9 dusters which span only 90 cM. This inter gone pool mop is being integrated with linkage mops constructed in the other two populations to compare within and between gene pool marker distributions and to evaluate clustering of markers on the different mops. Implications for the application of RAPD markers will be discussed.

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Studies on Genetic Diversity of Selected Population of Hybrid Scallop Chlamys farreri（♀）× Patinopecten yessoensis（♂） by Microsatellites Markers

Journal of Molecular Biology Research ◽

10.5539/jmbr.v5n1p39 ◽

2015 ◽

Vol 5 (1) ◽

pp. 39 ◽

Cited By ~ 1

Author(s):

Biao Wu ◽

Aiguo Yang ◽

Ningning Cheng ◽

Xiujun Sun ◽

Zhihong Liu ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Structure ◽

Selective Breeding ◽

Chlamys Farreri ◽

Patinopecten Yessoensis ◽

Microsatellites Markers ◽

Expected Heterozygosity ◽

Ssr Primers ◽

Two Populations ◽

Simple Sequence

The growth superiority of hybrid scallop Chlamys farreri (♀) × Patinopecten yessoensis (♂), as the following successive generation selection have been reported. However, the data about the genetic diversity in those population remains unexplored. In this study, the genetic structure analysis of F1, F2 and F3 were conducted by PCR with 10 Simple Sequence Repeats (SSR) primers. It showed that a total of 68 alleles were detected, and the number of alleles per locus ranged from 3 to 11, Polymorphism Information Content (PIC) per locus ranged from 0.4729 to 0.8429. And, the average observed heterozygosity (Ho) of the three populations were 0.6100, 0.6975 and 0.7750, while the average expected heterozygosity (He) were 0.7607, 0.7751 and 0.7379 respectively. Fst values among the three populations were also low (Fst<0.05) which suggested low genetic differentiation between each two populations. In all, those data indicated the genetic structure challenge caused by hybridization and selection, supplying a new angle to understand artificial selective breeding.

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Genetic diversity of Amorphophallus titanum in Bengkulu, Indonesia based on RAPD markers

Biodiversitas Journal of Biological Diversity ◽

10.13057/biodiv/d190528 ◽

2018 ◽

Vol 19 (5) ◽

pp. 1783-1790

Author(s):

WAHYUDI ARIANTO ◽

ERVIZAL A.M. ZUHUD ◽

AGUS HIKMAT ◽

TUTUT SUNARMINTO ◽

ISKANDAR Z. SIREGAR

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Rapd Marker ◽

Natural Habitat ◽

Land Uses ◽

Forest Land ◽

Protected Forests ◽

The Family ◽

Center Of Diversity ◽

Two Populations

Arianto W, Zuhud EAM, Hikmat A, Sunarminto T, Siregar IZ. 2018. Genetic diversity of Amorphophallus titanum in Bengkulu, Indonesia based on RAPD markers. Biodiversitas 19: 1783-1790. Titan Arum [Amorphophallus titanum (Becc.) Becc. Ex Arcang], a plant species belonging to the family of Araceae is known for its gigantic floral size and elicited rotten fragrance when the flower bloom. Since it remains only found in Sumatran island, many authors categorized the plant as endemic species. The population of the species in the natural habitat has significantly declined because of the conversion of forest land mainly into plantations or other land uses. Considering the importance of conservation attempts to A. titanum, a sufficient data on genetic diversity of the species is necessary. The research was aimed to determine the genetic diversity within and among populations of A. titanum in some area of protected forests in Bengkulu Province, comprising the population of Palak Siring, Tebat Monok, and Air Selimang. RAPD genetic DNA fingerprinting approach was used to assess the genetic diversity of A. titanum using 13 preselected DNA primer: OPA 11, OPA 19, OPC 04, OPN 14, OPN 19, OPU 03, OPU 06, OPU 07, OPB 17, OPC 07, OPO 04, OPU03-1, OPNI 18E. The result revealed that the method has successfully produced several DNA fragments with varied length ranging from 250 bp to 2000 bp with 4-16 variation in polymorphic bands. Based on RAPD marker analysis, the population of Air Selimang was considered as a potential center of diversity of A. titanum because of the others two populations had a lower genetic diversity. In general, the genetic diversity among populations was lower than within population. The cluster analysis of the genetic similarity of 22 individuals of the three populations resulted in the separation into two main groups with the first group consisting of 17 individuals (Population Air Selimang and Tebat Monok) and the second group of 5 individuals (Palak Siring population).

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Assessing temporal changes in genetic diversity of maize hybrids using RAPD markers

Cereal Research Communications ◽

10.1556/crc.35.2007.4.3 ◽

2007 ◽

Vol 35 (4) ◽

pp. 1563-1571 ◽

Cited By ~ 7

Author(s):

I. Bauer ◽

S. Mladenovic Drinic ◽

G. Drinić ◽

D. Ignjatović Micić

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Temporal Changes ◽

Maize Hybrids

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Paepalanthus fabianeae (Eriocaulaceae): A New Microendemic Species from a Morphologically Coherent Clade

Systematic Botany ◽

10.1600/036364420x16033963649318 ◽

2020 ◽

Vol 45 (4) ◽

pp. 794-801

Author(s):

Caroline Oliveira Andrino ◽

Marcelo Fragomeni Simon ◽

Jair Eustáquio Quintino Faria ◽

André Luiz da Costa Moreira ◽

Paulo Takeo Sano

Keyword(s):

New Species ◽

Iucn Red List ◽

Phylogenetic Position ◽

Similar Species ◽

Infrageneric Classification ◽

Espinhaço Range ◽

Nuclear Its ◽

Two Populations

Abstract—We describe and illustrate Paepalanthus fabianeae, a new species of Eriocaulaceae from the central portion of the Espinhaço Range in Minas Gerais, Brazil. Previous phylogenetic evidence based on analyses of nuclear (ITS and ETS) and plastid (trnL-trnF and psba-trnH) sequences revealed P. fabianeae as belonging to a strongly supported and morphologically coherent clade containing five other species, all of them microendemic, restricted to the Espinhaço range. Due to the infrageneric classification of Paepalanthus being highly artificial, we preferred not assigning P. fabianeae to any infrageneric group. Paepalanthus fabianeae is known from two populations growing in campos rupestres (highland rocky fields) in the meridional Espinhaço Range. The species is characterized by pseudodichotomously branched stems, small, linear, recurved, and reflexed leaves, urceolate capitula, and bifid stigmas. Illustrations, photos, the phylogenetic position, and a detailed description, as well as comments on habitat, morphology, and affinities with similar species are provided. The restricted area of occurrence allied with threats to the quality of the habitat, mainly due to quartzite mining, justifies the preliminary classification of the new species in the Critically Endangered (CR) category using the guidelines and criteria of the IUCN Red List.

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