Elucidating genetic relationships, diversity and population structure among the Turkish female figs

Yazan: admin Tarih: Oca 21st, 2010 | Kategori:: Gene polymorphisms

Ikten H (Ikten, Hatice)2, Mutlu N (Mutlu, Nedim)3, Gulsen O (Gulsen, Osman)1, Kocatas H (Kocatas, Hilmi)4, Aksoy U (Aksoy, Uygun)5

Source: GENETICA Volume: 138 Issue: 2 Pages: 169-177 Published: FEB 2010

Abstract: A collection of 96 female Turkish fig (Ficus carica L.) accessions was studied to elucidate genetic structure and estimate diversity and genetic similarity distribution among the female figs present in Turkish genetic resources, using 157 molecular genome markers including 129 sequence-related amplified polymorphisms, 21 random amplified polymorphic DNAs, and 7 simple-sequence repeats. The plant samples mainly included Turkish fig collections selected throughout the country over the course of a half-century. Neighbor-joining analysis revealed continuous dissimilarity range, and it was difficult to classify figs into distinct groups. The principle component analysis produced similar results. The analysis of molecular variance indicated that 95 and 93% of genetic variation were explained by within geographic origins and similar fruit rind color, respectively. Sub-structuring Bayesian analysis assigned the 96 female figs into four sub-populations, and indicated that they were highly related. The corrected allelic pairwise distances among the six geographic origins were less than 5%. This study suggests that geography- and color-based groups were not genetically distinct among the Turkish figs.
Document Type: Article
Language: English
Author Keywords: Ficus carica; SRAP; Neighbor-joining; PCA; AMOVA; Population structure
KeyWords Plus: FICUS-CARICA L.; GERMPLASM COLLECTION; COMMON FIG; MARKERS; RAPD; RELATEDNESS; GENOTYPES; RFLP; AFLP
Reprint Address: Gulsen, O (reprint author), Erciyes Univ, Dept Hort, Fac Agr, TR-38039 Kayseri, Turkey
Addresses:
1. Erciyes Univ, Dept Hort, Fac Agr, TR-38039 Kayseri, Turkey
2. Minist Agr & Rural Affairs, W Mediterranean Res Inst, TR-07100 Antalya, Turkey
3. Univ Nebraska, George W Beadle Ctr, Dept Biochem, Lincoln, NE 68503 USA
4. Fig Res Inst, TR-09600 Erbeyli, Aydin Turkey
5. Aegean Univ, Fac Agr, Dept Hort, TR-35100 Izmir, Turkey
E-mail Addresses: o_gulsen@yahoo.com


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Comparison of SLCO1B1 sequence variability among German, Turkish, and African populations.

Yazan: admin Tarih: Eyl 5th, 2008 | Kategori:: polymorphisms

Eur J Clin Pharmacol. 2008 Mar;64(3):257-66. Epub 2008 Jan 6.

Mwinyi J, Köpke K, Schaefer M, Roots I, Gerloff T.

Institute of Clinical Pharmacology, Charité-Universitätsmedizin Berlin, Humboldt University of Berlin, Schumannstrasse 20/21, 10098 Berlin, Germany.

BACKGROUND: OATP1B1 is one of the key hepatocellular uptake transporters providing extraction of diverse compounds, including bile acids, xenobiotics, and a variety of drugs, from portal venous blood into the liver. Polymorphisms of the SLCO1B1 gene have been demonstrated to influence in vitro transport function and the pharmacokinetic profile of compounds. OBJECTIVE: The goal of our study was the comparison of SLCO1B1 gene sequence variability in three ethnic groups as a basis for future genetic association studies. METHODS: Eighteen exonic SLCO1B1 single nucleotide polymorphisms (SNPs) were genotyped by PCR and RFLP analysis in 300 German, 94 Turkish, and 115 African subjects. Calculation of pairwise linkage disequilibrium and estimation of population haplotype frequencies were carried out, and haplotype block structure was determined. RESULTS: Only eight genotyped SNPs (c.388A>G, c.411G>A, c.463C>A, c.521T>C, c.571C>T, c.597C>T, c.1463G>>C, c.1929A>C) were found in at least one of our German, Turkish, or African samples. A total of 12 haplotypes with a frequency >or=1% in at least one of the three populations could be inferred. Between the Caucasian and African samples, significant differences in sequence variability were observed leading to a different haplotype profile in these populations. CONCLUSION: Our results demonstrate a high sequence variability of OATP1B1 within different popuations. In the future, distinct haplotypes should be taken into account when studying the effect of OATP1B1 on drugs in different populations.


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