Highly polymorphic microsatellite markers in Chamaecyparis obtusa

2001 ◽  
Vol 31 (12) ◽  
pp. 2248-2251 ◽  
Author(s):  
Y Nakao ◽  
H Iwata ◽  
A Matsumoto ◽  
Y Tsumura ◽  
N Tomaru
Keyword(s):  
Microsatellite Loci ◽  
Magnetic Beads ◽  
Genomic Library ◽  
Gene Diversity ◽  
Pcr Amplification ◽  
Chamaecyparis Obtusa ◽  
Mendelian Inheritance ◽  
Average Gene Diversity ◽  
Polymorphic Microsatellite ◽  
Average Gene

Nine microsatellite loci in hinoki, Chamaecyparis obtusa (Sieb. et Zucc.) Endl., were identified and characterized. A genomic library, developed using enrichment with magnetic beads, was screened to identify microsatellite repeats (CT/AG). The microsatellite loci, where the alleles were segregated, displayed codominant Mendelian inheritance. Genetic analysis of 16 plus trees and two unrelated individuals of Chamaecyparis obtusa revealed that all loci were highly polymorphic, with an average of 10.3 alleles per locus, and an average gene diversity of 0.77. The applicability of these microsatellite loci was also tested in other species of the Cupressaceae and in Cryptomeria japonica (L.f.) D. Don (Taxodiaceae, a family closely related to Cupressaceae). Polymerase chain reaction (PCR) amplification was successful for about half of the loci of the species in the genus Chamaecyparis. However, the PCR amplification patterns of the 11 species of Cupressaceae showed no clear correlations with their molecular phylogeny. The highly polymorphic microsatellite loci in Chamaecyparis obtusa, identified here, will be useful in studies of hinoki breeding and population genetics.

Genetic diversity between Italian and Greek buffalo populations

2001 ◽  
Vol 29 ◽  
pp. 31-40 ◽  
Author(s):  
B. Moioli ◽  
A. Georgoudis ◽  
F. Napolitano ◽  
G. Catillo ◽  
S. Lucioli ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Gene Diversity ◽  
Genetic Distances ◽  
Allele Frequency Distribution ◽  
Average Gene Diversity ◽  
Polymorphic Microsatellite ◽  
Average Gene ◽  
Degree Of Differentiation ◽  
Two Populations ◽  
Global Project

SummaryThe present study is a first step of a global project aiming at the estimation of the genetic distances and relationships among buffalo breeds and sub-populations and the investigation of the production potential and adaptability of different buffalo genotypes in various environments.Genetic diversity of Italian and Greek buffalo populations was estimated on the basis of allele frequencies at nine polymorphic microsatellite loci: CSSM43, CSSM38, DRB3, D21S4, CYP21, CSSM47, CSSM60, CSSM36 and CSSM33. The number of detected alleles per locus varied from two (D21S4) to thirteen (CSSM47). Allele frequency distribution was similar in the two populations, which have the same alleles at the highest frequency at all loci, except loci CSSM47 and CSSM60. Average gene diversity over all loci was 0.60. Across-loci average gene diversity increased with the number of alleles. Observed average heterozygosity was 0.167 and 0.177 in the Italian and Greek populations, respectively. The degree of differentiation between Italian and Greek buffalo was moderate and estimated at 0.021 ± 0.009.

scholarly journals Isolation and characterization of polymorphic microsatellite loci for Pistacia chinensis Bunge (Anacardiaceae)

2019 ◽  
Vol 68 (1) ◽  
pp. 26-28 ◽  
Author(s):  
Zhaohong Ding ◽  
Jianbo Lu
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Microsatellite Loci ◽  
Population Genetic ◽  
Magnetic Beads ◽  
Genomic Library ◽  
Landscape Fragmentation ◽  
Isolation And Characterization ◽  
Bioenergy Plant ◽  
Polymorphic Microsatellite

Abstract Pistacia chinensis Bunge (Anacardiaceae) is a native, dioecious, perennial arbor, and an important bioenergy plant. Twelve microsatellite markers were developed for P. chinensis to evaluate genetic diversity and population genetic structure when this species was subject to landscape fragmentation. Twelve polymorphic microsatellite loci were developed in P. chinensis using a microsatellite-enriched genomic library based on magnetic beads. These loci were characterized in 24 individuals from three populations located on Thousand Island Lake, Zhejiang Province, China. The number of alleles per locus varied from three to sixteen. The observed and expected heterozygosity ranged from 0.1250 to 0.8750 and 0.2333 to 0.8917, respectively. These microsatellite loci will be applied in further studies on the population genetic diversity and genetic structure of P. chinensis. This study will improve understanding of the effects of landscape fragmentation, and help conserve and manage the species.

scholarly journals Development of Microsatellite Markers from Crape Myrtle (Lagerstroemia L.)

HortScience ◽  
2010 ◽  
Vol 45 (5) ◽  
pp. 842-844 ◽  
Author(s):  
Xinwang Wang ◽  
Deborah Dean ◽  
Phillip Wadl ◽  
Denita Hadziabdic ◽  
Brian Scheffler ◽  
...  
Keyword(s):  
Allelic Richness ◽  
Genomic Library ◽  
Gene Diversity ◽  
High Genetic Diversity ◽  
Average Gene Diversity ◽  
Wide Range ◽  
Growth Habits ◽  
Average Gene ◽  
Breeding And Genetics ◽  
Ornamental Species

Lagerstroemia L. (crape myrtle) is an economically important woody plant genus with several deciduous flowering ornamental species. A wide range of flower colors, long flowering periods, growth habits ranging from miniature to tree sizes, and exfoliating bark characteristics provide horticulturists and nursery growers with a great deal of interest in the breeding and genetics of this genus. We report microsatellite marker development from a GT-enriched genomic library of the interspecific hybrid ‘Natchez’ (L. indica L. × L. fauriei Koehne). Twelve of 43 novel microsatellite loci were characterized on a collection of 33 Lagerstroemia cultivars and accessions. Four to eight alleles per locus (mean = 5.6 alleles) were detected. Allelic richness ranged from 3.9 to 7.2 with a mean of 5.3. The level of polymorphism detected (average gene diversity of 0.68) indicates moderately high genetic diversity within the selections of crape myrtle cultivars and accessions. The examined markers also exhibited high cross-species transferability to L. fauriei, L. limii Merr., and L. subcostata Koehne.

The development of RAPD and microsatellite markers in lodgepole pine (Pinus contorta var. latifolia)

Genome ◽  
1998 ◽  
Vol 41 (6) ◽  
pp. 797-805 ◽  
Author(s):  
Mark Hicks ◽  
Denise Adams ◽  
Sandra O'Keefe ◽  
Ellen Macdonald ◽  
Ross Hodgetts
Keyword(s):  
Dna Markers ◽  
Rocky Mountains ◽  
Microsatellite Loci ◽  
Genomic Dna ◽  
Pinus Contorta ◽  
Genomic Library ◽  
Lodgepole Pine ◽  
Ecological Studies ◽  
Polymorphic Microsatellite ◽  
Genome Analyses

Two types of polymorphic DNA markers suitable for genome analyses, population genetic and ecological studies on lodgepole pine (Pinus contorta var. latifolia) have been developed. We detected 52 decameric oligonucleotides, within a set of 200, that could be used to amplify the pine DNA. From these, 4 that allowed unambiguous amplification of 10 random polymorphic (RAPD) loci, have been chosen for use in this species. Five polymorphic microsatellite loci were found following the screening of a genomic library and all contained the AGn motif. Such loci were present at a frequency of 1 in every 345 kb pairs of genomic DNA. Three loci were comprised of a simple dinucleotide repeat, one locus was of the form TAn - GAm and one was ATn - AGm. The number of alleles at the 5 microsatellite loci ranged from 3 to 8 in a sample of 6 trees from the eastern foothills of the Rocky Mountains in Alberta and the alleles at all loci exhibited Mendelian segregation.Key words: DNA polymorphism, RAPD, microsatellite, SSR, Pinus contorta var. latifolia.

Ten polymorphic microsatellite loci identified from a small insert genomic library forPeronospora tabacina

Mycologia ◽  
2012 ◽  
Vol 104 (3) ◽  
pp. 633-640 ◽  
Author(s):  
Robert N. Trigiano ◽  
Phillip A. Wadl ◽  
Deborah Dean ◽  
Denita Hadziabdic ◽  
Brian E. Scheffler ◽  
...  
Keyword(s):  
Microsatellite Loci ◽  
Genomic Library ◽  
Polymorphic Microsatellite

scholarly journals Microsatellite Polymorphism in Natural Populations of the Wild Plant Arabidopsis thaliana

Genetics ◽  
1997 ◽  
Vol 146 (4) ◽  
pp. 1441-1452 ◽  
Author(s):  
Hideki Innan ◽  
Ryohei Terauchi ◽  
Naohiko T Miyashita
Keyword(s):  
Arabidopsis Thaliana ◽  
Microsatellite Loci ◽  
Gene Diversity ◽  
Repetitive Sequences ◽  
Geographic Origin ◽  
Natural Populations ◽  
Wild Plant ◽  
Sign Test ◽  
Repeat Number ◽  
Average Gene

Variation in repeat number at 20 microsatellite loci of Arabidopsis thaliana was studied in a worldwide sample of 42 ecotypes to investigate the pattern and level of polymorphism in repetitive sequences in natural plant populations. There is a substantial amount of variation at microsatellite loci despite the selfing nature of this plant species. The average gene diversity was 0.794 and the average number of alleles per locus was 10.6. The distribution of alleles was centered around the mean of repeat number at most loci, but could not be regarded as normal. There was a significantly positive correlation between the number of repeats and the amount of variation. For most loci, the observed number of alleles was between the expected values of the infinite allele and stepwise mutation models. The two models were rejected by the sign test. Linkage disequilibrium was detected in 12.1% of the pairwise comparisons between loci. In phylogenetic tree, there was no association between ecotype and geographic origin. This result is consistent with the recent expansion of A. thaliana throughout the world.

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