scholarly journals High Genetic Diversity and Insignificant Interspecific Differentiation inOpisthopappusShih, an Endangered Cliff Genus Endemic to the Taihang Mountains of China

2013 ◽  
Vol 2013 ◽  
pp. 1-8 ◽  
Author(s):  
Rongmin Guo ◽  
Lihua Zhou ◽  
Hongbo Zhao ◽  
Fadi Chen
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Differentiation ◽  
Species Level ◽  
Endangered Plants ◽  
High Genetic Diversity ◽  
Fragmented Distribution ◽  
Polymorphic Bands ◽  
Genetic Structures ◽  
Different Levels

OpisthopappusShih is endemic to the Taihang Mountains, China. It grows in the crevice of cliffs and is in fragmented distribution. This genus consists of two species, namely,O. taihangensis(Ling) Shih andO. longilobusShih, which are both endangered plants in China. This study adopted intersimple sequence repeat markers (ISSR) to analyze the genetic diversity and genetic structure from different levels (genus, species, and population) in this genus. A total of 253 loci were obtained from 27 primers, 230 of which were polymorphic loci with a proportion of polymorphic bands (PPB) of up to 90.91% at genus level. At species level, bothO. taihangensis(PPB=90.12%,H=0.1842, andI=0.289) andO. longilobus(PPB=95.21%,H=0.2226, andI=0.3542) have high genetic diversity. Their respective genetic variation mostly existed within the population. And genetic variation inO. longilobus(84.95%) was higher than that inO. taihangensis(80.45%). A certain genetic differentiation among populations inO. taihangensiswas found (Gst=0.2740,Φst=0.196) and genetic differentiation inO. longilobuswas very small (Gst=0.1034,Φst=0.151). Gene flow in different degrees (Nm=1.325and 4.336, resp.) and mating system can form the existing genetic structures of these two species. Furthermore, genetic differentiation coefficient (Gst=0.0453) between species and the clustering result based on the genetic distance showed that interspecific differentiation betweenO. taihangensisandO. longilobuswas not significant and could occur lately.

scholarly journals Genetic variation within and among naturally regenerating populations of alder (Alnus glutinosa)

2011 ◽  
Vol 77 (2) ◽  
pp. 105-110 ◽  
Author(s):  
Leon Mejnartowicz
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Differentiation ◽  
Riparian Forest ◽  
Alnus Glutinosa ◽  
Mantel Test ◽  
Population Subdivision ◽  
Long Distance ◽  
Swamp Forest ◽  
High Genetic Diversity

To assess the inter- and intrapopulation genetic variation in the filial generation (F1) of alder (<em>Alnus glutinosa</em> (L.) Gaertn.), 11 naturally regenerated populations were analysed. Their parental populations (P), represent the whole Polish territory and belong to three phytosociological associations with alder: typical alder swamp forest <em>Carici elongatae-Alnetum</em> (Ce-A); alder riparian forest <em>Circaeo-Alnetum</em> (C-A); and ash-elm riparian forest <em>Fraxino-Ulmetum</em> (F-U). F1 populations are grown in a common-garden experiment (provenance trial). Genotyping of individual trees has been carried out by analysis in a bud tissue allele frequency in the 21 isozyme putative loci of 10 enzymes. Differences between populations in respect to the level of genetic diversity were not high. Genetic diversity measured as the number of effective alleles per locus was the highest (Ne = 1.65) in population Wińsko originating from F-U (where also the inbreeding coefficient was the highest, F = 0.429), and the lowest (Ne = 1.48) in population Sławki from Ce-A. In all investigated populations, observed heterozygosity (Ho = 20%) was lower than expected from H-W equilibrium (He = 29%). The highest genetic variation expressed as percentage of polymorphic loci (77.3%) was observed in the offspring populations from Ce-A, and the smallest (69.9%) in the populations originating from F-U. It seems that the low genetic differentiation between populations is probably connected with long-distance seed dispersal via river systems. Alder seed can be transported over long distances thanks to periodical flooding. There is some gene flow between alder populations, with about 2.5 immigrants successfully entering a population per generation (Nm = 2.55). The level of population subdivision within <em>A. glutinosa</em> was low (Fst = 0.089). There was no significant genetic differentiation between populations from different phytosociological associations. Mantel test exhibited no significant correlation (r = 0.077) between genetic and geographic distance. In the dendrogram constructed according to Nei (1972) on the basis of interpopulation genetic distances, many small groups can be observed.

scholarly journals ISSR Marker Based Population Genetic Study of Melocanna baccifera (Roxb.) Kurz: A Commercially Important Bamboo of Manipur, North-East India

Scientifica ◽  
2017 ◽  
Vol 2017 ◽  
pp. 1-9 ◽  
Author(s):  
Heikrujam Nilkanta ◽  
Thoungamba Amom ◽  
Leimapokpam Tikendra ◽  
Hamidur Rahaman ◽  
Potshangbam Nongdam
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Differentiation ◽  
Diversity Index ◽  
Species Level ◽  
Issr Marker ◽  
Polymorphic Band ◽  
North East India ◽  
North East ◽  
Shannon’S Diversity Index

Melocanna baccifera (Roxb.) Kurz is an economically important bamboo of North-East India experiencing population depletion in its natural habitats. Genetic variation studies were conducted in 7 populations sampled from 5 districts of Manipur using ISSR molecular markers. The investigation was carried out as a primary step towards developing effective conservation strategies for the protection of bamboo germplasm. ISSR marker analysis showed significant level of genetic variation within the populations as revealed by moderately high average values of Nei’s genetic diversity (H 0.1639), Shannon’s diversity index (I 0.2563), percentage of polymorphic bands (PPB 59.18), total genetic variation (Ht 0.1961), and genetic diversity within population (Hs 0.1639). The study also divulged a high genetic variation at species level with Shannon’s diversity index (I), Nei’s genetic diversity (H), and percentage of polymorphic band (PPB%) recorded at 0.3218, 0.1939, and 88.37, respectively. Genetic differentiation among the populations (Gst) was merely 19.42% leaving 80.58% of genetic variation exhibited within the populations. The low genetic diversity between populations was consistent with AMOVA. The low genetic differentiation among populations coupled with existence of significantly high genetic diversity at species level indicated the urgent necessity of preserving and protecting all the existing natural bamboo populations in the region.

scholarly journals Effect of Human Disturbance on Genetic Structure of Rare and Endangered Paphiopedilum micranthum Implied the Habitat Status

2020 ◽  
Vol 13 ◽  
pp. 194008292094201
Author(s):  
Zongyan Li ◽  
Jing Li ◽  
Minyang Li
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Structure ◽  
Human Disturbance ◽  
Natural Populations ◽  
Species Level ◽  
High Genetic Diversity ◽  
Orchid Species ◽  
Southeast China ◽  
Rare And Endangered

Seven populations of Paphiopedilum micranthum from Southeast China were used to assess the influence of human disturbance on genetic structure through analysis with sequence-related amplified polymorphism technology. The results indicated that there was high genetic diversity at species level ( p =  81.25%; I =  0.3709) and a significantly higher differentiation level compared to that those of other outcrossing orchid species, and that moderately disturbed populations sustained higher genetic diversity indexes than the natural populations. This study revealed that human disturbance and population size did not significantly affect the populations’ genetic diversity but aggravated their differentiation. This may suggest that the habitat had a much greater influence on genetic variation.

scholarly journals Genetic diversity and population structure of black cottonwood (Populus deltoides) revealed using simple sequence repeat markers

BMC Genetics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Cun Chen ◽  
Yanguang Chu ◽  
Changjun Ding ◽  
Xiaohua Su ◽  
Qinjun Huang
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Differentiation ◽  
River Basin ◽  
Simple Sequence Repeat ◽  
Populus Deltoides ◽  
Sequence Repeat ◽  
Black Cottonwood ◽  
High Genetic Diversity ◽  
Simple Sequence

Abstract Background Black cottonwood (Populus deltoides) is one of the keystone forest tree species, and has become the main breeding parents in poplar hybrid breeding. However, the genetic diversity and population structure of the introduced resources are not fully understood. Results In the present study, five loci containing null alleles were excluded and 15 pairs of SSR (simple sequence repeat) primers were used to analyze the genetic diversity and population structure of 384 individuals from six provenances (Missouri, Iowa, Washington, Louisiana, and Tennessee (USA), and Quebec in Canada) of P. deltoides. Ultimately, 108 alleles (Na) were detected; the expected heterozygosity (He) per locus ranged from 0.070 to 0.905, and the average polymorphic information content (PIC) was 0.535. The provenance ‘Was’ had a relatively low genetic diversity, while ‘Que’, ‘Lou’, and ‘Ten’ provenances had high genetic diversity, with Shannon’s information index (I) above 1.0. The mean coefficient of genetic differentiation (Fst) and gene flow (Nm) were 0.129 and 1.931, respectively. Analysis of molecular variance (AMOVA) showed that 84.88% of the genetic variation originated from individuals. Based on principal coordinate analysis (PCoA) and STRUCTURE cluster analysis, individuals distributed in the Mississippi River Basin were roughly classified as one group, while those distributed in the St. Lawrence River Basin and Columbia River Basin were classified as another group. The cluster analysis based on the population level showed that provenance ‘Iow’ had a small gene flow and high degree of genetic differentiation compared with the other provenances, and was classified into one group. There was a significant relationship between genetic distance and geographical distance. Conclusions P. deltoides resources have high genetic diversity and there is a moderate level of genetic differentiation among provenances. Geographical isolation and natural conditions may be the main factors causing genetic differences among individuals. Individuals reflecting population genetic information can be selected to build a core germplasm bank. Meanwhile, the results could provide theoretical support for the scientific management and efficient utilization of P. deltoides genetic resources, and promote the development of molecular marker-assisted breeding of poplar.

Short Communication: Genetic variation of Coelogyne pandurate, C. rumphii and their hybrids based on RAPD markers

2020 ◽  
Vol 21 (10) ◽  
Author(s):  
Sri Hartati ◽  
ENDANG S. MULIAWATI
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Rapd Markers ◽  
Short Communication ◽  
F1 Hybrids ◽  
Polymorphic Bands ◽  
Large Clusters

Abstract. Hartati S, Muliawati ES. 2020. Short Communication: Genetic variation of Coelogyne pandurata, C. rumphii and their hybrids based on RAPD markers. Biodiversitas 21: 4709-4713. One effort to increase the genetic diversity of orchids is by crossing. This research aims to assess the genetic variation of a hybrid orchid obtained by crossing Coelogyne pandurata and C. rumphii and their hybrids based on RAPD markers. In this research, both parents were analyzed in three replications, while the hybrid was done in 10 replications. The study was conducted by analyzing DNA bands using RAPD markers with six primers, i.e. OPA 02, OPA 07, OPA 13, OPB 12, OPB 17, and OPD 08. Identification of the parents and their F1 hybrids showed 95.83% polymorphic bands with 43 bands measuring 200-2100 bp. The parents of C. rumphii, C. pandurata, and their hybrids showed similarity range of 0.16-1.00. The crossing of C. rumphii and C. pandurata resulted in a similarity of 0.5, shown in two large clusters. The first cluster consisted only of C. pandurata males and the second cluster consisted of C. rumphii females, together with all hybrid individuals. This study succeeded in creating new hybrids of orchids that have different characters from their parents, having a genetic variation of 23%.

Genetic Diversity of Rice vampireweed (Rhamphicarpa fistulosa) Populations in Rainfed Lowland Rice in West Africa

Weed Science ◽  
2016 ◽  
Vol 64 (3) ◽  
pp. 430-440
Author(s):  
Norliette Zossou ◽  
Hubert Adoukonèou-Sagbadja ◽  
Daniel Fonceka ◽  
Lamine Baba-Moussa ◽  
Mbaye Sall ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Differentiation ◽  
Lowland Rice ◽  
Rice Grain ◽  
High Genetic Diversity ◽  
Genetic Groups ◽  
Rainfed Lowland ◽  
Rice Genotypes ◽  
The Relationship ◽  
Aflp Technique

Rice vampireweed belongs to the Orobanchaceae and is found in Africa and Australia. It is a hemiparasitic weed of lowland rice genotypes and causes losses of 40 to 100% of rice grain yield. Our study addressed the genetic diversity of rice vampireweed in Benin and Senegal. The specific objectives of this research were to study the genetic diversity of rice vampireweed accessions in Benin and Senegal and the relationship between the different genotypes of rice vampireweed through agroecological areas. To achieve these objectives, the genetic diversity of rice vampireweed accessions using the AFLP technique was studied. Based on our results, dendrogram classification has distinguished four different genetic groups. The populations of Benin and Senegal are genetically diverse. Substantial genetic differentiation (GST) exists among agroecological areas within Benin and Senegal (GST = 0.17). The high genetic diversity of rice vampireweed in Benin and Senegal presents a challenge for the development of resistant rice germplasm.

Genetic diversity and differentiation in populations of Japanese stone pine (Pinuspumila) in Japan

1996 ◽  
Vol 26 (8) ◽  
pp. 1454-1462 ◽  
Author(s):  
Naoki Tani ◽  
Nobuhiro Tomaru ◽  
Masayuki Araki ◽  
Kihachiro Ohba
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Differentiation ◽  
Phylogenetic Trees ◽  
Genetic Relationships ◽  
Natural Populations ◽  
Group Method ◽  
Stone Pine ◽  
Arithmetic Means ◽  
Pair Group

Japanese stone pine (Pinuspumila Regel) is a dominant species characteristic of alpine zones of high mountains. Eighteen natural populations of P. pumila were studied in an effort to determine the extent and distribution of genetic diversity. The extent of genetic diversity within this species was high (HT = 0.271), and the genetic differentiation among populations was also high (GST = 0.170) compared with those of other conifers. In previous studies of P. pumila in Russia, the genetic variation within the species was also high, but the genetic differentiation among populations was low. We infer that this difference originates from differences in geographic distribution and ecological differences between the two countries. The genetic variation within each population tended, as a whole, to be smaller within marginal southern populations than within northern populations. Genetic relationships among populations reflect the geographic locations, as shown by unweighted pair-group method with arithmetic means and neighbor-joining phylogenetic trees.

scholarly journals Keanekaragaman Genetik Nyamuk Vektor Filariasis Culex quinquefasciatus Say, 1823 (Diptera: Culicidae) di Kota dan Kabupaten Pekalongan Dengan Metode PCR-RAPD

2018 ◽  
Vol 1 (2) ◽  
pp. 42
Author(s):  
Anindita Riesti Retno Arimurti
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Culex Quinquefasciatus ◽  
Genetic Characterization ◽  
Wuchereria Bancrofti ◽  
High Genetic Diversity ◽  
Simple Matching Coefficient

Mosquito Culex quinquefasciatus is a vector of nematode worms, namely Wuchereria bancrofti which is the cause of filariasis in tropical and subtropical countries. Distributed of Cx. quinquefasciatus is widely in Indonesia with differences the geographical, resulting in the adaptation to the environment and may  results in a high variation, both phenotypic (morphology) and genotypic (genetic) variation. This study aims was to determine the genetic diversity of mosquitoes Cx.quinquefasciatus as vector filariasis in Pekalongan City and Regent. Genetic characterization performed by PCR-RAPD using three primers, ie OPA-11, OPA-12, and OPA-15. Data were analyzed by using UPGMA algorithm and Simple Matching Coefficient and presented as dendrogram. The results showed a high genetic diversity with the polymorphisms up to 100%.  Keywords: Culex quinquefasciatus, vector, filariasis, PCR-RAPD 

scholarly journals Assessment of Genetic Diversity and Population Genetic Structure of Santalum album L. in India by Genic and Genomic SSR markers

2021 ◽  
Author(s):  
Tanzeem Fatima ◽  
Ashutosh Srivastava ◽  
Vageeshbabu S Hanur ◽  
M. Srinivasa Rao
Keyword(s):  
Genetic Diversity ◽  
Genetic Differentiation ◽  
Ssr Markers ◽  
Germplasm Conservation ◽  
Principal Component ◽  
Santalum Album ◽  
High Genetic Diversity ◽  
Information Index ◽  
Genomic Ssr ◽  
Santalum Album L

Sandalwood (Santalum album L.) is highly valued aromatic tropical tree. It is known for its high quality heartwood and oil. In this study 39 genic and genomic SSR markers were used to analyze the genetic diversity and population structure of 177 S. album accessions from 14 populations of three states in India. High genetic diversity was observed in terms of number of alleles 127 expected heterozygosity (He) ranged from 0.63-0.87 and the average PIC was 0.85. The selected population had relatively high genetic diversity with Shannons information index (I) >1.0. 0.02 mean coefficient of genetic differentiation (FST) and 10.55 gene flow were observed. AMOVA revealed that 92% of the variation observed within individuals. Based on cluster and Structure result individuals were not clustered as per their geographical origin. Furthermore the clusters were clearly distinguished by principal component analysis analysis and the result revealed that PC1 reflected the moderate contribution in genetic variation (6%) followed by PC2 (5.5%). From this study, high genetic diversity and genetic differentiation was found in S. album populations. The genetic diversity information of S. album populations can be used for selection of superior genotypes and germplasm conservation to promote the tree improvement of S. album populations.

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