scholarly journals Development of Simple Sequence Repeat Markers for Chionanthus retusus (Oleaceae) and Effective Discrimination of Closely Related Taxa

HortScience ◽  
2011 ◽  
Vol 46 (1) ◽  
pp. 23-29 ◽  
Author(s):  
Renée S. Arias ◽  
Natascha Techen ◽  
Timothy A. Rinehart ◽  
Richard T. Olsen ◽  
Joseph H. Kirkbride ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Genetic Information ◽  
Simple Sequence Repeat ◽  
Sequence Repeat ◽  
Breeding Programs ◽  
Simple Sequence Repeat Markers ◽  
Tropical Areas ◽  
Garden Plants ◽  
Trees And Shrubs ◽  
Simple Sequence

The genus Chionanthus (Oleaceae Hoffmans. & Link) includes deciduous or evergreen trees and shrubs distributed widely in tropical and sub-tropical areas, including a few temperate species. Although Chionanthus species are planted as ornamental garden plants and commercialized for natural products, genetic information for Chionanthus spp. is lacking. We created microsatellite-enriched libraries of Chionanthus retusus Lindl. & Paxton, assembled 1072 contigs, and detected 1010 repeats. The frequency of the repeats decreased with the increase in repeat length, and the most abundant motifs were: AG, AC, AAG, ACC, AT, and ACTC. We screened 384 markers on 12 accessions of four related taxa that included C. retusus, Chionanthus virginicus L., Chionanthus pygmaeus Small, and Osmanthus americanus (L.) Benth. & Hook. A total of 195 simple sequence repeat (SSR) markers amplified and discriminated six accessions of C. retusus and 57 SSR markers amplified and discriminated across the four Oleaceae species screened. To identify the best markers to use in future experiments, the “Unique Pattern Informative Combination” (UPIC) values were calculated for all the markers and the 100 markers that were most effective are reported here. The percentage of heterozygous loci across the 384 markers was lowest for C. retusus (29.3%) and highest for O. americanus (68.9%). The SSR markers developed here could assist in taxonomy and hybridization investigations for breeding programs and authentication of varieties used as medicinal plants.

scholarly journals Genetic Relationships among 10 Prunus Rootstock Species from China, Based on Simple Sequence Repeat Markers

2016 ◽  
Vol 141 (5) ◽  
pp. 520-526 ◽  
Author(s):  
Qijing Zhang ◽  
Dajun Gu
Keyword(s):  
Phylogenetic Analysis ◽  
Simple Sequence Repeat ◽  
Genetic Relationships ◽  
Sequence Repeat ◽  
Breeding Programs ◽  
Banding Patterns ◽  
Simple Sequence Repeat Markers ◽  
Ssr Primers ◽  
Relationship Of ◽  
Simple Sequence

To improve the efficiency of breeding programs for Prunus rootstock hybrids in China, we analyzed the subgenus status and relationship of 10 Chinese rootstock species, by using 24 sets of simple sequence repeat (SSR) primers. The SSR banding patterns and phylogenetic analysis indicated that subgenus Cerasus is more closely related to subgenus Prunophora than to subgenus Amygdalus, and that subgenus Lithocerasus is more closely related to subgenus Prunophora and subgenus Amygdalus than to subgenus Cerasus. In addition, Prunus triloba was more closely related to Prunus tomentosa than to the members of subgenus Amygdalus. Therefore, we suggest that P. tomentosa and P. triloba should be assigned to the same group, either to subgenus Lithocerasus or Prunophora, and we also propose potential parent combinations for future Prunus rootstock breeding.

scholarly journals Genetic variation in Hydrangea macrophylla (Thunb.) Ser. in Russia based on simple sequence repeat markers

2018 ◽  
Vol 47 (4) ◽  
pp. 937-943
Author(s):  
Natalia Sukhikh ◽  
Valentina Malyarovskaya ◽  
Anastasiya Kamionskaya ◽  
Lidia Samarina ◽  
Svetlana Vinogradova
Keyword(s):  
Simple Sequence Repeat ◽  
Genetic Relationships ◽  
Effective Number ◽  
Sequence Repeat ◽  
Base Pairs ◽  
Breeding Programs ◽  
Simple Sequence Repeat Markers ◽  
Hydrangea Macrophylla ◽  
High Level ◽  
Simple Sequence

Genetic diversity and genetic relationships among 39 accessions of Hydrangea macrophylla (Thunb.) Ser. were analyzed using 38 previously developed simple sequence repeat markers (SSRs). A total of 38 polymorphic primers representing 166 bands with an average of 4.53 polymorphic bands per primer were selected. The number of alleles detected per locus ranged from two to eight with a total of 163 alleles amplified. The size of the amplified fragments ranged from 70 to180 base pairs. The effective multiallelic markers with high level of heterozygosity (more than 0.7) and effective number of alleles (more than 3.5) were identified. In this study nine SSR markers showed clear polymorphisms. The dendrogram grouped all hybrids in three major clusters, and two of these clusters included only mophead cultivars. The lacecap cultivars clustered more closely to each other. The results of this research could be used in breeding programs of H. macrophylla.

scholarly journals Circumscription of the Sibbaldia procumbens complex (Potentilleae: Rosaceae) in China based on evidence from simple sequence repeat markers and morphology

2019 ◽  
Vol 191 (3) ◽  
pp. 305-314 ◽  
Author(s):  
Huajie Zhang ◽  
Tao Feng ◽  
Jacob B Landis ◽  
Xu Zhang ◽  
Aiping Meng ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Species Complex ◽  
Population Level ◽  
Molecular Data ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Stable Variation ◽  
Simple Sequence

Abstract In this study we aimed to delimit the boundaries of the Sibbaldia procumbens species complex, integrating morphological, geographical and molecular data at the population level. In total, 246 individuals were tested with simple sequence repeat (SSR) markers, and individuals were classified into three clusters. Stable variation in the morphology of leaflets, episepal and achenes was found between individuals from eastern and western Tibet, and this corresponds to the observed genetic structure when K = 2. The combined analysis of morphology and SSRs suggests three species should be recognized in the complex in China (S. procumbens, S. cuneata and S. aphanopetala). The ranges of these three species are mostly geographically separate from each other. Sibbaldia aphanopetala has often been treated as a variety of S. procumbens, but here we restore it to species rank.

scholarly journals Characterisation and genetic diversity analysis of selected chickpea cultivars of nine countries using simple sequence repeat (SSR) markers

2011 ◽  
Vol 62 (2) ◽  
pp. 177 ◽  
Author(s):  
Tadesse Sefera ◽  
Bekele Abebie ◽  
Pooran M. Gaur ◽  
Kebebew Assefa ◽  
Rajeev K. Varshney
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Dna Fingerprint ◽  
Pedigree Information ◽  
Sequence Repeat ◽  
Dissimilarity Matrix ◽  
Breeding Programs ◽  
Simple Sequence ◽  
Chickpea Cultivars

The genomic DNA profiles of 48 chickpea cultivars released in nine countries and of historical significance to the chickpea breeding programs at ICRISAT and in Ethiopia were evaluated using 48 simple sequence repeat (SSR) markers. Across the cultivars, a total of 504 alleles representing the 48 SSR loci were detected with frequencies ranging from three to 22 (mean 10.5) alleles per locus. The polymorphism information content (PIC) for the SSR markers varied from 0.37 to 0.91 (mean 0.77). A subset of only three highly informative SSR markers (TA176, TA2, TA180) enabled complete discrimination among all 48 chickpea cultivars tested. Hierarchical neighbour-joining UPGMA cluster analysis based on simple matching dissimilarity matrix resolved the 48 cultivars into two major clusters representing desi and kabuli types. These cluster groupings of the cultivars were consistent with the pedigree information available for the cultivars as to the phenotypic classes of chickpea types. Analysis of the temporal patterns of the SSR diversity by classifying 48 chickpea cultivars into four periods of release revealed increasing tendencies in the overall genetic diversity from 0.42 for the earliest varieties developed in the 1970s to 0.62 for those released in the 1980s, and reached a maximum and equivalent level of 0.72 for the varieties developed in the 1990s and 2000s. Overall, the study ascertained that SSRs provide powerful marker tools in revealing genetic diversity and relationships in chickpeas, thereby proving useful for selection of parents in breeding programs and also for DNA fingerprint identification of cultivars.

scholarly journals Grapevine Non-vinifera Genetic Diversity Assessed by Simple Sequence Repeat Markers as a Starting Point for New Rootstock Breeding Programs

2019 ◽  
Vol 70 (4) ◽  
pp. 390-397 ◽  
Author(s):  
Daniele Migliaro ◽  
Gabriella De Lorenzis ◽  
Giovambattista Simone Di Lorenzo ◽  
Barbara De Nardi ◽  
Massimo Gardiman ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Simple Sequence Repeat ◽  
Sequence Repeat ◽  
Breeding Programs ◽  
Simple Sequence Repeat Markers ◽  
Starting Point ◽  
Simple Sequence ◽  
Rootstock Breeding

Development of simple sequence repeat markers for bermudagrass from its expressed sequence tag sequences and preexisting sorghum SSR markers

2010 ◽  
Vol 29 (1) ◽  
pp. 23-30 ◽  
Author(s):  
Chengcheng Tan ◽  
Yanqi Wu ◽  
Charles M. Taliaferro ◽  
Michael P. Anderson ◽  
Chuck Tauer ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Expressed Sequence Tag ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Expressed Sequence ◽  
Simple Sequence

scholarly journals Parent Identification of Eight Apple Cultivars by S-RNase Analysis and Simple Sequence Repeat Markers

HortScience ◽  
2005 ◽  
Vol 40 (2) ◽  
pp. 314-317 ◽  
Author(s):  
Kentaro Kitahara ◽  
Shogo Matsumoto ◽  
Toshiya Yamamoto ◽  
Junichi Soejima ◽  
Tetsuya Kimura ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Simple Sequence Repeat ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Maternal Parent ◽  
Golden Delicious ◽  
Apple Cultivars ◽  
Paternal Parent ◽  
Simple Sequence

As the parents of the some of the apple cultivars were unknown and others were uncertain, we investigated the parent-offspring relationships of eight apple cultivars by S-RNase analysis and SSR markers. The paternal parent of `Hida' was identified as `Golden Delicious', not the previously mentioned `Orin'. It was indicated that `Ryoka No Kisetsu' and `Korin' showing identical SSR genotype are likely sports of `Fuji'. `Fuji', rather than `Toko', seemed to be a maternal parent of `Kotoku', but was not a paternal parent of `Orei', `Starking Delicious', `Nero 26', `Empire', or `Aori 3'. Previously mentioned `Mutsu', `Indo', and `Shin Indo' were excluded as paternal parents of `Hokuto'. `Tsugaru' and `Jonathan' and were identified as the respective paternal parents of three cultivars described as having unknown paternal parents, i.e., `Aika No Kaori', `Yoko', and `Tsugaru'.

Sign in / Sign up

Export Citation Format

Share Document