Genetic Diversity and Population Structure of Coffee Germplasm Collections in China Revealed by ISSR Markers

2019 ◽  
Vol 37 (3) ◽  
pp. 204-213 ◽  
Author(s):  
Lin Yan ◽  
Collins Ogutu ◽  
Lifang Huang ◽  
Xiaoyang Wang ◽  
Hua Zhou ◽  
...  
2015 ◽  
Vol 120 ◽  
pp. 260-267 ◽  
Author(s):  
Satya Narayan Jena ◽  
Sushma Verma ◽  
Kuttan Narayanan Nair ◽  
Awadhesh Kumar Srivastava ◽  
Sujata Misra ◽  
...  

2014 ◽  
Vol 13 (3) ◽  
pp. 6340-6349 ◽  
Author(s):  
D.X. Chen ◽  
L.Y. Li ◽  
X. Zhang ◽  
Y. Wang ◽  
Z. Zhang

2013 ◽  
Vol 26 (3) ◽  
pp. 362-369 ◽  
Author(s):  
Man Jung Kang ◽  
Suresh Sundan ◽  
Gi An Lee ◽  
Ho Cheol Ko ◽  
Jong Wook Chung ◽  
...  

2010 ◽  
Vol 59 (1-6) ◽  
pp. 273-285 ◽  
Author(s):  
P. O. Aikpokpodion ◽  
M. Kolesnikova-Allen ◽  
V. O. Adetimirin ◽  
M. J. Guiltinan ◽  
A. B. Eskes ◽  
...  

Abstract Inadequate knowledge of the population structure and diversity present often hamper the efficient use of germplasm collections. Using a high through-put system, twelve microsatellite loci were used to analyze genetic diversity and population structure in a national field genebank repository of 243 cacao accessions grouped into 11 populations based on their known sources. Based on multi-locus profiles, the Bayesian method was used for individual assignment to verify membership in each population, determine mislabeling and ancestry of some important accessions used in breeding program. A total of 218 alleles was revealed with a mean number of 18.2 alleles per locus. Gene diversity (He = 0.70) and allelic richness (4.34 alleles per locus) were highest in the F1 hybrid population. Differential mating system was suggested as responsible for the observed deficit and excess of heterozygotes observed among the populations. Analysis of molecular variance showed that within-population variance accounted for 63.0% of the total variance while the rest 37% was accounted for by the among-population variance. Cluster dendrogram based on UPGMA revealed two main subsets. The first group was made up of the Amelonado/Trinitario ancestry and the other of Nanay/Parinari ancestry. We found that Nanay and Parinari populations were the major source of Upper Amazon genes utilized while a large proportion of genetic diversity in the field genebank remained under-utilized in development of improved cultivars released to farmers in Nigeria. This study showed that the presence of alleles of the Upper Amazon Forasteros (Nanay, Parinari and Iquitos Mixed Calabacillo) genetic materials in the locally available accessions predated the formal large scale introduction of Upper Amazon materials in 1944. This is the first report of population structure of field genebank collections of cacao in Nigeria since more than seven decades of formal cacao breeding research.


ZooKeys ◽  
2020 ◽  
Vol 941 ◽  
pp. 49-69
Author(s):  
Diana Ortíz-Gamino ◽  
Josefat Gregorio ◽  
Luis Cunha ◽  
Esperanza Martínez-Romero ◽  
Carlos Fragoso ◽  
...  

Pontoscolex corethrurus (Müller, 1857) is an invasive tropical earthworm, globally distributed. It reproduces through parthenogenesis, which theoretically results in low genetic diversity. The analysis of the population structure of P. corethrurus using molecular markers may significantly contribute to understanding the ecology and reproductive system of this earthworm species. This work assessed the genetic diversity and population structure of P. corethrurus with 34 polymorphic inter simple sequence repeat markers, covering four populations in tropical and temperate pastures from Veracruz State. Nuclear markers distinguished two genetic clusters, probably corresponding to two distinct genetic lineages. The number of clones detected in the AC population was lower than expected for a parthenogenetic species. Also, the apparent lack of differences in population structures related to the geographic region among the populations studied may indicate that human-mediated transference is prevalent in these areas. Still, most individuals apparently belong to lineage A, and only a few individuals seem to belong to the lineage B. Thus, the admixture signatures found among the four populations of P. corethrurus may have facilitated a successful invasion by directly increasing fitness. In summary, addressing the genetic variation of P. corethrurus with ISSR markers was a suitable approach, as it evidenced the genetic diversity and relationships in the populations evaluated.


2021 ◽  
pp. 1-9
Author(s):  
Atefeh Nouri ◽  
Maryam Golabadi ◽  
Alireza Etminan ◽  
Abdolmajid Rezaei ◽  
Ali Ashraf Mehrabi

Abstract Aegilops tauschii, the diploid progenitor of the wheat D-genome, is a valuable genetic resource for wheat breeders. In this study, we compared the efficiency of inter-simple sequence repeat (ISSR) (as an arbitrary technique) and start codon targeted (SCoT) (as a gene-targeting technique) markers in determining the genetic diversity and population structure of 90 accessions of Ae. tauschii. SCoT markers indicated the highest values for polymorphism information content, marker index and effective multiplex ratio compared to ISSR markers. The total genetic diversity (Ht) and genetic diversity within populations (Hs) parameters were comparably modest for the two marker systems. The results of the analysis of molecular variance showed that the genetic variation within populations was significantly higher than among them (ISSR: 92 versus 8%; SCoT: 88 versus 12%). Furthermore, SCoT markers discovered a high level of genetic differentiation among populations than ISSRs (0.19 versus 0.05), while the amount of gene flow detected by ISSR was higher than SCoT (2.13 versus 8.62). Cluster analysis and population structure of SCoT and ISSR data divided all investigated accessions into two and four main clusters, respectively. Our results revealed that SCoT and ISSR fingerprinting could be used to further molecular analysis in Ae. tauschii and other wild species. The high-genetic variability found in this study also indicates the valuable genetic potential present in the investigated Ae. tauschii germplasm, which could be utilized for future genetic analysis and linkage mapping in breeding programmes.


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