ISSR Analysis on Genetic Diversity of Endangered Plant Parrotia subaequalis in Dalonggou of Yixing, Jiangsu

In this study, 25 flower samples of Parrotia subaequalis individuals were collected in Dalonggou of Yixing, Jiangsu. ISSR markers were used to analyze the genetic diversity of the 25 individuals. Six primers were selected and used for PCR amplification. The result showed that 59 discernible DNA fragments were amplified, among them 47 are polymorphic loci and the percentage of polymorphic loci (PPB) is 79.7%. By analysis with POPGENE32, the effective number of alleles (Ne) is 1.4697, Nei's gene diversity (H) is 0.2792, Shannon's Information index (I) is 0.4195, the Ewens-Watterson Neutral value is between 0.02 to 1, and more than half of the neutral test values are above 0.5. Through cluster analysis with NTSYSpc-2.1, genetic similarity coefficients of 25 samples are between 0.25 and 1 with an average of 0.71. From the results of this study we can get a conclusion that the genetic differences among the wild populations of P. subaequalis in Dalonggou of Yixing, Jiangsu were large and rich in diversity. The aim of this study is to reveal the genetic diversity of wild population of P. subaequalis from molecular level and provide a theoretical basis for the protection of this rare and endangered plant.

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Genetic Differentiation of Jack Pine (Pinus banksiana) and Red Pine (P. resinosa) Populations From Metal Contaminated Areas in Northern Ontario (Canada) Using ISSR Markers

Silvae Genetica ◽

10.1515/sg-2008-0049 ◽

2008 ◽

Vol 57 (1-6) ◽

pp. 333-340 ◽

Cited By ~ 1

Author(s):

M. Ranger ◽

K. K. Nkongolo ◽

P. Michael ◽

P. Beckett

Keyword(s):

Genetic Diversity ◽

Pinus Banksiana ◽

Metal Accumulation ◽

Gene Diversity ◽

Jack Pine ◽

Issr Markers ◽

Red Pine ◽

Northern Ontario ◽

Polymorphic Loci ◽

Information Index

Abstract Metal accumulation in soil and plant tissues has caused severe ecological damage in forest ecosystems in the Sudbury region. The main objective of the present study was to determine the levels of genetic diversity in jack and red pine populations growing in metal contaminated and uncontaminated areas. Newly introduced populations were compared to 40 to 60 old populations. For jack pine, the percentage of polymorphic loci (P %) ranged from 14.6% to 45.8% with a mean of 31.6%. Nei’s gene diversity (h) varied from 0.046 to 0.169 with an average of 0.100, and Shannon’s index (I) ranged from 0.070 to 0.250 with an average of 0.153. The level of genetic variation was much lower in the red pine populations. For this species, the level of polymorphic loci varied from 4.55% to 27.27%. The mean for Nei’s gene diversity and Shannon’s information index, were 0.034 and 0.053, respectively. The highest genetic diversity values were observed in new plantations being developed by the Sudbury reforestation program. Overall, the genetic distance among the Pinus banksiana populations revealed that all the populations analyzed were genetically close to each other. There was no association between metal accumulation and genetic diversity for both species.

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ISSR Marker Based Genetic Diversity in Morinda Spp. For Its Enhanced Collection, Conservation and Utilization

10.21203/rs.3.rs-666059/v1 ◽

2021 ◽

Author(s):

Lalit Arya ◽

Ramya Kossery Narayanan ◽

Anjali Kak ◽

Chitra Devi Pandey ◽

Manjusha Verma ◽

...

Keyword(s):

Genetic Diversity ◽

Gene Diversity ◽

Inter Simple Sequence Repeat ◽

Issr Markers ◽

Morinda Citrifolia ◽

Species Differentiation ◽

Information Index ◽

Upgma Cluster Analysis ◽

Simple Sequence

Abstract Morinda (Rubiaceae) is considerably recognized for its multiple uses viz. food, medicine, dyes, firewood, tools, oil, bio-sorbent etc. The molecular characterization of such an important plant would be very useful for its multifarious enhanced utilization. In the present study, 31 Morinda genotypes belonging to two different species Morinda citrifolia and Morinda tomentosa collected from different regions of India were investigated using Inter Simple Sequence Repeat (ISSR) markers. Fifteen ISSR primers generated 176 bands with an average of 11.7 bands per primer, of which (90.34%) were polymorphic. The percentage of polymorphic bands, mean Nei’s gene diversity, mean Shannon’s information index in Morinda tomentosa and Morinda citrifolia was [(69.89%, 30.68%); (0.21 ± 0.19, 0.12 ± 0.20); (0.32 ± 0.27 0.17 ± 0.28)] respectively, revealing higher polymorphism and genetic diversity in Morinda tomentosa compared to Morinda citrifolia. Structure, and UPGMA cluster analysis placed the genotypes into well-defined separate clusters belonging to two species Morinda tomentosa and Morinda citrifolia revealing the utility of ISSR markers in species differentiation. Distinct ecotypes within a particular species could also be inferred emphasizing the collection and conservation of Morinda genotypes from different regions, in order to capture the overall diversity of respective species. Further higher diversity of M. tomentosa must be advanced for its utilization in nutraceutical, nutritional and other nonfood purposes.

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Genetic diversity and population structure of Meretrix petechialis in China revealed by sequence-related amplified polymorphism markers

PeerJ ◽

10.7717/peerj.8723 ◽

2020 ◽

Vol 8 ◽

pp. e8723 ◽

Cited By ~ 1

Author(s):

Qiaoyue Xu ◽

Junhong Zheng ◽

Hongtao Nie ◽

Qingzhi Wang ◽

Xiwu Yan

Keyword(s):

Genetic Diversity ◽

Genetic Differentiation ◽

Genetic Distance ◽

Gene Diversity ◽

Scientific Basis ◽

Germplasm Resources ◽

Polymorphic Loci ◽

Information Index ◽

Geographical Populations ◽

Meretrix Petechialis

Genetic variation in nine stocks of Meretrix petechialis collected from China was analyzed using sequence-related amplified polymorphism (SRAP) markers. Eight primer pairs produced 132 polymorphic loci with an average of 16.5 loci per primer pair. A population from Jiangsu had the highest percentage of polymorphic loci at 27.27%, suggesting that these resources had a rich genetic diversity. The Nei’s gene diversity of the nine populations ranged from 0.0647 to 0.0793; a population from Shandong was the lowest and a population from North Korea the highest. The Shannon’s information index was between 0.1023 and 0.1202, with the lowest in the Shandong population and the highest in the Jiangsu population. The Nei’s unbiased genetic distance between the nine populations was 0.0243–0.0570 and the genetic similarity was 0.9446–0.9760; the genetic distance between Guangxi and Shandong populations was the furthest (0.0570) and the genetic distance between Shandong and Jiangsu populations was the closest (0.0243). Nei’s gene diversity analysis indicated that the genetic variance was mainly found within individual geographical populations, and the analysis of molecular variance revealed low but significant genetic differentiation among local and regional populations. The limited gene flow (Nm = 0.555) was inferred as a major reason for the extent of genetic differentiation in M. petechialis. The results obtained here indicated that M. petechialis have high degree of genetic diversity and the potential of further breeding with excellent germplasm resources. This study provides a scientific basis for the protection of germplasm resources and the breeding of M. petechialis.

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Genetic diversity of wild and cultured swamp eel (Monopterus albus) populations from central China revealed by ISSR markers

Biologia ◽

10.2478/s11756-013-0203-5 ◽

2013 ◽

Vol 68 (4) ◽

Cited By ~ 6

Author(s):

Wei Li ◽

Wen-Xiu Sun ◽

Jun Fan ◽

Chao-Chao Zhang

Keyword(s):

Genetic Diversity ◽

Diversity Index ◽

Gene Diversity ◽

Issr Markers ◽

Central China ◽

Commercial Fish ◽

Monopterus Albus ◽

Information Index ◽

Asian Swamp Eel ◽

Swamp Eel

AbstractAsian swamp eel is a highly commercial fish, primarily for China and other Asian countries. The aim of this paper is to evaluate the genetic diversity of wild and cultured samples of Asian swamp eel Monopterus albus using ISSR markers. A total of 129 individuals belonging to three wild samples, Xiantao (XT), Huanggang (HG), Xinyang (XY) and three cultured samples, Wuhan (WH), Jingzhou (JZ) and Nanjing (NJ) were randomly selected for genetic analysis. Twelve ISSR primers were used for screening the six populations and 110 loci were obtained. The polymorphic loci were estimated to be 54%, 56.3%, 58.2%, 60.6%, 69.5% and 71% in NJ,WH, JZ, XT, HG and XY samples, respectively. Average heterozygosity value varied from 0.1956 to 0.2449. The three wild samples showed higher genetic diversity than the cultured samples (P < 0.05), including polymorphic bands (PPB), observed number of alleles per locus (to), effective number of alleles per locus (Ne), Nei’s gene diversity index (H) and Shannon’s information index (I).

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Genetic Diversity of Stephanie kwangsiensis H. S. Lo and Salvia prionitis Hance after Transplanted and Micropropagated

Advanced Materials Research ◽

10.4028/www.scientific.net/amr.518-523.5460 ◽

2012 ◽

Vol 518-523 ◽

pp. 5460-5467

Author(s):

Chuan Ming Fu ◽

Yan Qin ◽

Feng Luan Tang ◽

Yun Ping Shi ◽

Zhi Guo Zhao ◽

...

Keyword(s):

Genetic Diversity ◽

Tissue Culture ◽

Gene Diversity ◽

Random Amplified Polymorphic Dna ◽

Inter Simple Sequence Repeat ◽

Issr Markers ◽

Chinese Herbs ◽

High Genetic Diversity ◽

Information Index ◽

Rapd Pcr

Stephanie Kwangsiensis H. S. Lo and Salvia prionitis Hance were two rare and valuable Chinese herbs. Genetic diversity of the two plants were studied by using random amplified polymorphic DNA (RAPD) and inter simple sequence repeat (ISSR) markers after they were transplantation and tissue culture. Results indicated that Nei’s gene diversity (H), Shannon’s information index (I), the percentage of polymorphic loci (PPL) of source / transplantation / tissue culture materials of S. Kwangsiensis H. S. Lo were H=0.282 / 0.195/ 0.056, I=0.415 / 0.290 / 0.087, PPL=75.6% / 56.1% /19.5% based on RAPDs and H=0.295 / 0.292 / 0.111, I=0.445 / 0.435 / 0.166, PPL=85.3% / 85.3% / 32.8% based ISSRs. And the same parameters of source / transplantation / tissue culture materials of S. prionitis Hance were H=0.193 / 0.192 / 0.231, I=0.291 / 0.289 /0.347, PPL=57.8% / 57.2% / 68.6% based on RAPDs and H=0.217 / 0.217 / 0.155, I=0.327 / 0.326 /0.235, and PPL=64.2% / 64.2% / 49.1% based on ISSRs instead. For the transplanted materials, genetic diversity was slightly declining with the disappearance of adversity. And for the tissue culture materials, more genets sampled for tissue culture, less reduction of genetic diversity; and fewer genets sampled, more reduction of genetic diversity. In addition, high genetic diversity appearing in tissue culture materials of S. prionitis Hance partially generate from somatic mutations. And these mutations maybe related to RAPD-PCR regions and just had been checked out by RAPDs.

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Genetic Diversity of Groundnut (Arachis hypogaea L.) Accessions using Inter Simple Sequence Repeats (ISSRs) Marker

10.21203/rs.3.rs-125057/v1 ◽

2020 ◽

Author(s):

Mohammed Abdela ◽

Mulugeta Kebede ◽

Tiliye Feyissa

Keyword(s):

Genetic Diversity ◽

Genetic Variability ◽

Arachis Hypogaea ◽

Gene Diversity ◽

Polymorphic Information Content ◽

Issr Markers ◽

Similarity Coefficients ◽

Average Value ◽

Band Size ◽

Arachis Hypogaea L

Abstract Background: Groundnut (Arachis hypogaea L.) belongs to the family Leguminoseae. It is the world’s most important source of edible oil and vegetable protein. To our knowledge, little is known about the genetic variability of cultivated Ethiopian A. hypogaea at a molecular level. It is important to understand the genetic diversity of the crop to collect, conserve and use the germplasm for variety development. In the present study, ISSR markers were used to determine the genetic variability and diversity of 43 accessions of A. hypogaea collected from different regions of Ethiopia.Results: Four ISSR primers were used to generate 56 reproducible bands of which 29 (51.8%) were polymorphic. The band size ranges from 120 bp to 1100 bp. The number of amplified bands varied from 12 in primer UBC841 to 18 in primer UBC 881. The polymorphic bands percentage ranges from 27.8 % of Primer UBC 881 to 84.6 % of primer UBC 857. The polymorphic information content (PIC) value ranges from 0.29 to 0.76 with the average value 0.49. The mean Nei’s gene diversity and Shannon’s information index were 0.25 and 0.33, respectively. Genetic relationship between A. hypogaea accessions based on Jaccard’s pair wise similarity coefficients varies from 44% to 83% with an average value of 63.5%. The UPGMA dendrogram based on cluster analysis grouped A. hypogaea accessions into five distinct clusters at 63.5% similarity coefficient, and the principal coordinate analysis revealed similar grouping. Conclusions: Even though in both UPGMA and PCoA most of the accessions were grouped in separate clusters irrespective of their geographic origins, the ISSR marker-based analysis shows the presence of genetic variability among the accessions. Moreover, the current study demonstrated the potential informativeness of ISSR markers in estimating the extent of genetic variation in A. hypogaea accessions.

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Inter-Simple Sequence Repeat (ISSR) Markers Revealed Genetic Diversity and Population Structure Among 9 Wild Species of Clematis L.

Journal of Biobased Materials and Bioenergy ◽

10.1166/jbmb.2021.2099 ◽

2021 ◽

Vol 15 (5) ◽

pp. 580-588

Author(s):

Yonghui Li ◽

Shipeng Li ◽

Jingjing Li ◽

Xiangli Yu ◽

Fawei Zhang ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Differentiation ◽

Diversity Index ◽

Gene Diversity ◽

Inter Simple Sequence Repeat ◽

Issr Markers ◽

Mantel Test ◽

Information Index ◽

Ctab Method ◽

Different Populations

To analyze the genetic diversity of 9 species of Clematis from 31 different populations, we extracted DNA by the improved CTAB method, used ISSR-PCR for amplification, and then selected 9 primers with clear amplified bands from amongst 220 primers. A total of 127 clear bands were amplified, of which 126 were polymorphic bands, yielding a ratio of 99.2%. The polymorphism information index (PIC) of the primers ranged from 0.9326 to 0.9649. The Nei’s genetic diversity index (H) was 0.2750, the total gene diversity (Ht) was 0.2845, and the genetic differentiation coefficient (Gst) was 0.6696, indicating high genetic differentiation among populations of Clematis. After cluster analysis, the 31 Clematis populations were divided into 3 categories. Principal coordination analysis (PCoA) of 9 Clematis species then showed that the genetic relationship between samples of the same Clematis germplasms was closer than that of samples from the same region. The mantel test revealed a significant positive correlation between genetic distance and geographical distance among the populations. The population clustering results are broadly consistent with the clustering graphs of UPGMA and PCoA. We can conclude the polymorphism of the 9 primers is good, and that the genetic diversity of 31 Clematis populations is rich. Individual Clematis germplasms are closely related and will gather together preferentially.

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Eficiența unor marcheri moleculari în discriminarea populațiilor de lupoaie originare din China

10.53040/gppb7.2021.35 ◽

2021 ◽

Author(s):

Maria Duca ◽

◽

Ana Mutu ◽

Ina Bivol ◽

Steliana Clapco ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Gene Diversity ◽

Issr Markers ◽

Resolving Power ◽

Information Index ◽

Combined Use ◽

Different Types ◽

High Level ◽

Different Levels

In this study, the effectiveness of different types of molecular markers in assessing genetic diversity of populations of O. cumana from China was determined. ISSR and SSR markers detected different levels of genetic variability among and within broomrape populations. SSR markers analysis showed high level of genetic variation within the populations as revealed by high average values of Nei's gene diversity (H=0,75) and Shannon's information index (I=1,44), while genotyping with ISSR markers showed greater ability to discriminate genotypes according to Resolving power (Rp=7,24). Thus, the combined use of ISSR and SSR markers allowed the detection of higher polymorphism than either set of marker alone.

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Genetic Diversity Of Plukenetia Volubilis L. Assessed By ISSR Markers

Scientia Agriculturae Bohemica ◽

10.1515/sab-2015-0029 ◽

2015 ◽

Vol 46 (4) ◽

pp. 145-153 ◽

Cited By ~ 3

Author(s):

M. Ocelák ◽

P. Hlásná Čepková ◽

I. Viehmannová ◽

Z. Dvořáková ◽

D.C. Huansi ◽

...

Keyword(s):

Genetic Diversity ◽

Diversity Index ◽

Gene Diversity ◽

Genetic Relationships ◽

Diversity Indices ◽

Issr Markers ◽

Information Index ◽

Geographical Distances ◽

Plukenetia Volubilis ◽

Polymorphic Bands

Abstract The diversity and genetic relationships in 173 sacha inchi samples were analyzed using ISSR markers. Thirty ISSR primers were used, only 8 showed variability in tested samples. ISSR fragments ranged from 200 to 2500 bp. The mean number of bands per primer was 12 and the average number of polymorphic bands per primer was 11. The lowest percentages of polymorphic bands (27%), gene diversity (0.103), and Shannon’s information index (0.15) were exhibited by the Santa Lucia population, which was also geographically most distant. This fact may be attributed to a very small size of this group. In contrast, the Dos de Mayo population exhibited the highest percentage of polymorphic bands (78%), and the Santa Cruz population the highest Nei’s gene diversity index (0.238) and Shannon’s information index (0.357). The obtained level of genetic variability was 36% among tested populations and 64% within populations. Although the diversity indices were low, a cluster analysis revealed 8 clusters containing mainly samples belonging to individual populations. Principal coordinate analysis clearly distinguished Chumbaquihui, Pucallpa, Dos de Mayo, and Aguas de Oro populations, the others were intermixed. The obtained results indicated the level of genetic diversity present in this location of Peru, although it is influenced by anthropological aspects and independent on the geographical distances.

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Genetic Divergence among Populations of Invasive Alien Species Lantana camara L. from Selected Areas of Bangladesh

Plants and Ecosystem ◽

10.54479/pae.v1i01.6664 ◽

2021 ◽

Vol 1 (01) ◽

pp. 9-14

Author(s):

SAILA KABIR ◽

MD ABUL KASHEM ◽

MOHAMMAD ZABED HOSSAIN

Keyword(s):

Genetic Diversity ◽

Alien Species ◽

Invasive Alien Species ◽

Gene Diversity ◽

Lantana Camara ◽

Native Plant ◽

High Genetic Diversity ◽

Native Plant Species ◽

Information Index ◽

Genetic Clustering

Lantana camara L., a well-known invasive alien species causing invasion and posing threat to native plant species community in different regions of Bangladesh. The present study aimed to investigate the genetic diversity of L. camara populations in different regions of Bangladesh. Eight RAPD markers were used in order to probe into its genetic variability. Total number of bands (202), polymorphic loci (104), per-centage of polymorphism (97.20%), average Shanon’s information index (0.3051±0.115), Nei’s gene diversity (0.4733±0.144) was found and in different populations and multiple divergent genetic clustering along with presence of unique alleles (4) for RAPD revealed high genetic diversity among the populations of L. camara in different regions of Bangladesh.

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