Population genetics ofAgeratina adenophorausing inter-simple sequence repeat (ISSR) molecular markers in China

An, D., Bykova, N. V. and Debnath, S. C. 2015. EST-PCR, EST-SSR and ISSR markers to identify a set of wild cranberries and evaluate their relationships. Can. J. Plant Sci. 95: 1155–1165. The cranberry (Vaccinium marcrocarpon Ait.) is a woody, evergreen, perennial vine with great potential for economic and health benefits. Selection and use of genetically diverse genotypes are key factors in any crop breeding program to develop cultivars with a broad genetic base. Molecular markers play a major role in selecting diverse genotypes. One hundred and two wild cranberry clones collected from four Canadian provinces and five cultivars were screened with inter simple sequence repeat (ISSR), expressed sequence tag–simple sequence repeat (EST-SSR) and EST–polymerase chain reaction (PCR) markers to validate the genetic diversity and relationships among them. EST-PCRs (0.54) and EST-SSRs (0.35) generated higher frequency of major alleles than ISSRs (0.08), but ISSRs presented a higher level of polymorphism and greater polymorphic information content and expected heterozygosity than EST-SSRs and EST-PCRs. Combined cluster analysis by the unweighted pair-group method with arithmetic averages (UPGMA) separated the wild clones and cultivars into four main clusters, which was in agreement with the principal coordinate (PCo) analysis. Analysis of molecular variation detected sufficient variations among genotypes within communities and among communities within provinces with ISSR (66 and 36%, respectively), EST-PCR (72 and 34%, respectively) and EST-SSR (72 and 34%, respectively) markers. These values were 71 and 35%, respectively, for combined analysis. Combined use of three types of molecular markers, for the first time in Vaccinium species, detected a sufficient degree of variation among cranberry genotypes, allowing for differentiation and rendering these technologies valuable for genotype identification in a diverse cranberry germplasm and for more efficient parental choice in the current cranberry breeding program.

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Assessment of genetic diversity in Fusarium wilt tolerant and susceptible oil palm (Elaeis guineensis Jacq) progenies in Nigeria using inter- simple sequence repeat (ISSR) molecular markers

10.21203/rs.2.12913/v1 ◽

2019 ◽

Author(s):

Nnamdi Ifechukwude Chidi ◽

Adedotun Adeyinka Adekunle ◽

Temitope Oluwaseun Samuel ◽

Emmanuel Ifechukwude Eziashi ◽

David Okeh Igwe

Keyword(s):

Genetic Diversity ◽

Molecular Markers ◽

Oil Palm ◽

Simple Sequence Repeat ◽

Elaeis Guineensis ◽

Gene Diversity ◽

Inter Simple Sequence Repeat ◽

Mean Value ◽

Sequence Repeat ◽

Simple Sequence

Abstract Background Improving oil palm in Nigeria for food security and subsequent export requires a better understanding of the genetic diversity among oil palm progenies tolerant and susceptible to Fusarium wilt disease. In view of the limitations of the orthodox method used in screening this disease, and the advantages of molecular markers, fourteen (14) Inter-simple sequence repeat (ISSR) DNA markers were applied to evaluate the genetic diversity, population structure and cluster resolutions of alleles responsible for tolerance of 560 Elaeis guineensis Jacq palms representing 8 different progenies distributed across NigeriaResults The amplification product revealed a moderately high level of genetic diversity with a total of 46 alleles identified, resulting in an average of 4.9091 alleles per locus detected between the oil palm progenies. Polymorphic information content (PIC) values varied between 0.3706-0.7861, with a mean value of 0.6829. The genetic diversity values ranged from 0.4063-0.8125 with a mean of 0.7216, while the major allele frequency ranged from 0.2500- 0.7500 with a mean value of 0.3750. Shannon's information index (I), Nei's gene diversity (H), and the effective number of alleles (Ne) had values of 0.6931, 0.5000, and 2.000, respectively. The genetic diversity was highest in progeny 3023, and lowest in progeny 4189. Mean values of the total gene diversity (Ht), gene diversity within the population (Hs) of the progenies, coefficient of gene differentiation among the progenies (Gst) and level of gene flow (Nm) were 0.4899, 0.3520, 0.2815 and 1.2764, respectively. The dendrogram clustered the progenies into six major clusters, while Principal Component Analysis (PCA) grouped the progenies into five clusters. PCA further identified the coordinate positions of tolerant and susceptible alleles of oil palm progeniesConclusion This study confirmed the identification of the coordinate positions of tolerant alleles in the gene loci, which could be exploited by breeders to developing tolerant oil palm seedlings.

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Research on Genetic Diversity of Pepper Germplasm Resources by Inter-simple Sequence Repeat Molecular Markers

Proceedings of the 3rd International Conference on Material, Mechanical and Manufacturing Engineering ◽

10.2991/ic3me-15.2015.85 ◽

2015 ◽

Author(s):

Jun Liu ◽

Dong Li

Keyword(s):

Genetic Diversity ◽

Molecular Markers ◽

Simple Sequence Repeat ◽

Inter Simple Sequence Repeat ◽

Germplasm Resources ◽

Sequence Repeat ◽

Simple Sequence

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Inter Simple Sequence Repeat molecular markers to reveal the genetic diversity of superior durian of Gunungpati, Semarang, Indonesia

Biodiversitas Journal of Biological Diversity ◽

10.13057/biodiv/d220954 ◽

2021 ◽

Vol 22 (9) ◽

Author(s):

Evy Nasrika ◽

Amin Retnoningsih

Keyword(s):

Genetic Diversity ◽

Molecular Markers ◽

Simple Sequence Repeat ◽

Relative Size ◽

Inter Simple Sequence Repeat ◽

Sequence Repeat ◽

New Variety ◽

Central Java ◽

Durio Zibethinus ◽

Simple Sequence

Abstract. Nasrika E, Retnonongsih A. 2021. Inter Simple Sequence Repeat molecular markers to reveal the genetic diversity of superior durian of Gunungpati, Semarang, Indonesia. Biodiversitas 22: 4054-4059. Kalimantan is the center of many tropical fruits, including durian. One of the edible durians and favorited by many is Durio zibethinus, which has many superior varieties. Almost all regions in Indonesia have superior durian varieties; for example, superior durian Gunungpati from Gunungpati Sub-district, the center for producing durian in Semarang City, Central Java, Indonesia. ISSR analysis was carried out to reveal the genetic diversity of the superior durian Gunungpati. DNA isolation of 16 superior durians used the modified CTAB method. The genomic DNA was amplified using 10 ISSR primers and then electrophoresed using 2% agarose gel. Data were analyzed using NTSYS PC version 2.02. The resulting allele has a relative size of 220 bp-1800 bp, with 87.9% are polymorphic. The similarity coefficient of 16 varieties was ranged between 0.54-0.88. All the superior durian varieties examined were different accessions so that each variety has the potential to be registered as a new variety of superior Indonesian durian. Specific alleles are found in G1, G3, G7, G8, and G13, which can be an identity of these varieties.

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