Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs)

@article{Barkley2006AssessingGD,
  title={Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs)},
  author={Noelle A. Barkley and Mikeal Roose and Robert Krueger and Claire T. Federici},
  journal={Theoretical and Applied Genetics},
  year={2006},
  volume={112},
  pages={1519-1531}
}
Twenty-four simple sequence repeat (SSR) markers were used to detect molecular polymorphisms among 370 mostly sexually derived Citrus accessions from the collection of citrus germplasm maintained at the University of California, Riverside. A total of 275 alleles were detected with an average of 11.5 alleles per locus and an average polymorphism information content of 0.625. Genetic diversity statistics were calculated for each individual SSR marker, the entire population, and for specified… 

Identification of Some Citrus Accessions in a Citrus Germplasm Utilizing Simple Sequence Repeat Markers (SSRs)

In this study 30 Citrus accessions and eight known cultivars from Kotra collection were investigated using 11 pairs of SSR markers, which in total produced 63 alleles with an average of 5.72 alleles per locus.

Assessing genetic variability in male sterile and low fertile citrus cultivars utilizing simple sequence repeat markers (SSRs)

The genetic diversity of 28 accessions of citrus including male sterile, sterile, low fertile and fertile cultivars were investigated using eight pairs of simple sequence repeat markers (SSR) markers, which detected 54 polymorphic alleles with an average of 4.2 alleles per primer.

DETERMINATION OF GENETIC DIVERSITY AND RELATIONSHIPS WITHIN CITRUS AND RELATED GENERA USING DAMD MARKERS

DAMD markers provided useful results to understand genetic basis of the citrus group and revealed different knowledge from the other DNA-based marker system among the accessions, and appeared to be as useful as other for genetic analysis in citrus and its relatives.

Transferability and Level of Heterozygosity of Microsatellite Markers in Citrus Species

Evaluating the transferability of microsatellite primers developed from the genomic library of Pêra sweet orange and the level of heterozygosity between citrus accessions and related genera demonstrated that they can be useful in citrus breeding programs.

Assessment of Genetic Diversity and Population Structure in a Selected Germplasm Collection of 292 Jute Genotypes by Microsatellite (SSR) Markers

In each of the two species, low level of population differentiation was observed between the indigenous and exotic genotypes, which is congruent with the results of AMOVA and Nei’s genetic distance, suggesting incidence of gene flow through germplasm exchange across countries.

Genetic diversity and phylogenetic relationships in Citrus rootstocks using PCR-based RAPD markers

The observed genetic structure might be the result of selection biases in the former breeding patterns or due to hybrid rootstocks which ultimately narrowed the gene pool of the Citrus germplasm in the country, and may be effective in improving the integrity of this genus in Southeast Asia.

Evaluation of Genetic Diversity in Lemons and Some of Their Relatives Based on SRAP and SSR Markers

There was a low level of genetic diversity detected among lemon cultivars and accessions from hybrid origin, and nearly all accessions could be distinguished.

A Database of Simple Sequence Repeat (SSR)Marker-Based DNA Profiles of Citrus and RelatedCultivars and Germplasm

The SSR profile database of Citrus cultivars will be useful as a tool for protection of plant breeders’ intellectual property rights in addition to assessing genetic diversity in Citron cultivars and germplasms.
...

References

SHOWING 1-10 OF 41 REFERENCES

Microsatellite (SSR) markers reveal genetic identities, genetic diversity and relationships in a Malus×domestica borkh. core subset collection

These SSR markers show great promise as tools for managing Malus ex situ germplasm collections as well as for collection and preservation strategies concerning wild Malus populations in situ.

Simple sequence repeat analysis of a clonally propagated species: a tool for managing a grape germplasm collection.

Simple sequence repeat markers with high allelic diversity were used to type 41 grapevines from 40 accessions and known synonyms were confirmed and a previously unknown synonym was discovered.

Phylogenetic relationships within the genus Citrus (Rutaceae) and related genera as revealed by RFLP and RAPD analysis

Relationships among 88 accessions representing 45 Citrus species, three man-made hybrids, and six related genera were examined for restriction fragment length polymorphisms (RFLP) and random amplified polymorphic DNA (RAPD) analysis showed that several accessions were probably assigned to the wrong species.

Fingerprinting trifoliate orange germ plasm accessions with isozymes, RFLPs, and inter-simple sequence repeat markers

Three accessions recently introduced from China have relatively different fingerprints with 3–14 unique ISSR markers, and probably represent a much more divergent germ plasm that may be a valuable breeding resource.

Identification of closely related citrus cultivars with inter-simple sequence repeat markers

Inter-simple sequence repeat (ISSR) markers generated by 22 primers were tested for their ability to distinguish among samples from 94 trees of 68 citrus cultivars; however, most of these cultivars are so closely related that they are difficult to distinguish by other molecular-marker techniques.

Genetic structure and diversity among maize inbred lines as inferred from DNA microsatellites.

Comparison of diversity in equivalent samples of inbreds and open-pollinated landraces revealed that maize in breds capture <80% of the alleles in the landrace, suggesting that landraced animals can provide additional genetic diversity for maize breeding.

Development and Characterization of Microsatellite Markers in Citrus

Since these microsatellite markers were conserved within different Citrus species, they could be used for linkage mapping, evolutionary and taxonomic study in Citrus, and observed that enrichment procedure pulled out more of the (CA)n repeat than (CT)n repeats from the Citrus genome.

DNA Amplified Fingerprinting, A Useful Tool for Determination of Genetic Origin and Diversity Analysis in Citrus

Three short repetitive nucleotide sequences were used either as radiolabeled probes for hybridization with restricted citrus DNA or as single primers in polymerase chain reaction amplification experiments with total genomic DNA for discriminating between nucellar and zygotic seedlings.

Integration of trinucleotide microsatellites into a linkage map of Citrus

The successful integration of microsatellites into the genetic map of Citrus demonstrates the utility of this marker type for genetic analysis within wide intergeneric plant crosses.

A genetic map of citrus based on the segregation of isozymes and RFLPs in an intergeneric cross

SummaryIsozymes and restriction fragment length polymorphisms were used as markers in the construction of a genetic map of the citrus nuclear genome. The map was based on the segregation of 8