scholarly journals Genetic diversity and population structure of Gerbera delavayi Franch. revealed by newly developed genic-SSR markers

2016 ◽  
Author(s):  
Wei Zheng ◽  
Xiaodan Xu
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Habitat Fragmentation ◽  
Genetic Differentiation ◽  
Ssr Markers ◽  
Southwest China ◽  
Perennial Herb ◽  
Genetic Barrier ◽  
Genic Ssr ◽  
Wild Resources

Background: Gerbera delavayi Franch., a perennial herb native to southwest China, is of important and special value in textile and culture. Its abaxial leaves have a layer of soft fibers, which can be manually peeled, twisted into a yarn, and applied in textiles for hand-made clothes. The particular craftsmanship, unique all over the world, is a part of the intangible cultural heritage in Yunnan and Sichuan Province. To date, the wild species has become endangered because its leaves are excessively harvested for textile applications. Estimating the genetic variation of plant species is crucial for plant conservation and breeding. So, the aim of this study was to (1) provide an accurate outline of the genetic diversity and population structure of G. delavayi and (2) propose targeted conservation strategies for these wild resources. Methods: Simple sequence repeats (SSR) markers were developed from the G. delavayi transcriptome for its genetic analysis. A total of 5,179 genic-SSR markers were identified and 350 primer pairs were selected for PCR validation. After primary screening , 19 polymorphic and neutral primer pairs were used to analyze the genetic diversity and population structure of nine wild fireweed populations (a total of 204 individuals) collected from Southwest China. Results: Moderate genetic diversity (allelic richness (Ar)=3.436, Shannon’s information index (I)=0.789 , observed heterozygosity (Ho)=0.304 , and expected heterozygosity (He)=0.415) and moderate differentiation (FST=0.110, P=0.000) were found among nine populations. The lowest genetic diversity (Ar=2.351, I=0.497, Ho=0.178, and He=0.284) and highest inbreeding (inbreeding coefficient (FIS)=0.365) were both detected within the isolated population PE. Furthermore, high genetic differentiation, limited gene flow, and clear genetic barrier were detected between PE and other populations, showing the significant effects of habitat fragmentation on the genetic differentiation of these G. delavayi populations. Conclusions: Our results showed that human overexploitation has led to moderate genetic diversity in G.delavayi populations. Furthermore, habitat fragmentation has resulted in clear genetic barrier and high differentiation between the isolated and concentrated populations. Upon the genetic features of wild G. delavayi populations, we proposed several strategies for protecting and utilizing the current wild resources.

scholarly journals Molecular Genetic Diversity and Population Structure of Ginseng Germplasm in RDA-Genebank: Implications for Breeding and Conservation

Agronomy ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 68 ◽  
Author(s):  
Kyung Jun Lee ◽  
Jung-Ro Lee ◽  
Raveendar Sebastin ◽  
Gyu-Taek Cho ◽  
Do Yoon Hyun
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Research Effort ◽  
Molecular Genetic ◽  
Allelic Diversity ◽  
Perennial Herb ◽  
Molecular Evidence ◽  
Breeding Lines

Ginseng (Panax ginseng C.A. Meyer), commonly known as Korean or Asian ginseng, is a perennial herb native to Korea and China. There has been limited research effort to analyze the genetic diversity and population structure of ginseng germplasm because of its growth habits. In the present study, genetic diversity and population structure of ginseng germplasm conserved in the National Agrobiodiversity Center (NAC) of South Korea were analyzed to provide basic data for future preservation and breeding of ginseng genetic resources. Seventeen simple sequence repeat (SSR) markers were used to assess the genetic diversity and population structure of 1109 ginseng accessions. Among 1109 ginseng accessions, 1042 (94.0%) accessions were landraces and 66 (6.0%) accessions were breeding lines (61 accessions, 5.5%) or cultivars (5 accessions, 0.5%). SSR markers revealed 56 different alleles with an average of 3.29 alleles per locus. The average gene diversity was 0.49. Analysis of molecular variance showed that 91% of allelic diversity was attributed to individual accessions within clusters while only 9% was distributed among clusters. Using discriminant analysis of principal components, 12 clusters were detected in 1109 ginseng accessions. The results of this study provide molecular evidence for the narrow genetic base of ginseng germplasm in NAC. For the broad understanding and efficient use of ginseng germplasm, it is necessary to analyze functional factors and to evaluate morphological traits.

Analysis of population structure and genetic diversity in an exotic germplasm collection of Eleusine coracana (L.) Gaertn. using genic-SSR markers

Gene ◽  
2018 ◽  
Vol 653 ◽  
pp. 80-90 ◽  
Author(s):  
Subramani Pandian ◽  
Lakkakula Satish ◽  
Ramakrishnan Rameshkumar ◽  
Pandiyan Muthuramalingam ◽  
Arockiam Sagina Rency ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Germplasm Collection ◽  
Eleusine Coracana ◽  
Exotic Germplasm ◽  
Genic Ssr

Genetic diversity and population structure of Populus yunnanensis revealed by SSR markers

2020 ◽  
Vol 52 (6) ◽  
Author(s):  
Anpei Zhou ◽  
Dan Zong ◽  
Peihua Gan ◽  
Yao Zhang ◽  
Dan Li ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers

Genetic Diversity and Population Structure of Germplasm Resources in Sesame (Sesamum indicum L.) by SSR Markers

2013 ◽  
Vol 38 (12) ◽  
pp. 2286-2296 ◽  
Author(s):  
Wen-Di YUE ◽  
Li-Bin WEI ◽  
Ti-De ZHANG ◽  
Chun LI ◽  
Hong-Mei MIAO ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Sesamum Indicum ◽  
Germplasm Resources

scholarly journals Genetic diversity and population structure of rice stripe virus in China

2009 ◽  
Vol 90 (4) ◽  
pp. 1025-1034 ◽  
Author(s):  
Tai-Yun Wei ◽  
Jin-Guang Yang ◽  
Fu-Long Liao ◽  
Fang-Luan Gao ◽  
Lian-Ming Lu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Yunnan Province ◽  
Southwest China ◽  
Eastern China ◽  
Rice Stripe Virus ◽  
Genetic Distances ◽  
Geographical Regions ◽  
Strong Negative Selection ◽  
Recent Outbreak

Rice stripe virus (RSV) is one of the most economically important pathogens of rice and is repeatedly epidemic in China, Japan and Korea. The most recent outbreak of RSV in eastern China in 2000 caused significant losses and raised serious concerns. In this paper, we provide a genotyping profile of RSV field isolates and describe the population structure of RSV in China, based on the nucleotide sequences of isolates collected from different geographical regions during 1997–2004. RSV isolates could be divided into two or three subtypes, depending on which gene was analysed. The genetic distances between subtypes range from 0.050 to 0.067. The population from eastern China is composed only of subtype I/IB isolates. In contrast, the population from Yunnan province (southwest China) is composed mainly of subtype II isolates, but also contains a small proportion of subtype I/IB isolates and subtype IA isolates. However, subpopulations collected from different districts in eastern China or Yunnan province are not genetically differentiated and show frequent gene flow. RSV genes were found to be under strong negative selection. Our data suggest that the most recent outbreak of RSV in eastern China was not due to the invasion of new RSV subtype(s). The evolutionary processes contributing to the observed genetic diversity and population structure are discussed.

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