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Population Genomics of Infectious and Integrated Wolbachia pipientis Genomes in Drosophila ananassae.

Choi JY, Bubnell JE, Aquadro CF - Genome Biol Evol (2015)

Bottom Line: Coevolution between Drosophila and its endosymbiont Wolbachia pipientis has many intriguing aspects.Further analysis revealed that for all D. ananassae we examined with the integrated wAna genomes, the majority of the integrated wAna genomic regions is represented in at least two copies suggesting a double integration or single integration followed by an integrated genome duplication.The possible evolutionary mechanism underlying the widespread geographical presence of the duplicate integration of the wAna genome is an intriguing question remaining to be answered.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology and Genetics, Cornell University jc2439@cornell.edu.

No MeSH data available.


Related in: MedlinePlus

Computational and qPCR estimates of copy number for the LOW and HIGH regions of the wAnaITG genome. Relative copy number of LOW and HIGH region is compared with D. ananassae rp49. The x axis represents read depth of LOW and HIGH region divided by read depth of rp49. The y axis represents relative concentration of LOW and HIGH region divided by relative concentration of rp49.
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evv158-F4: Computational and qPCR estimates of copy number for the LOW and HIGH regions of the wAnaITG genome. Relative copy number of LOW and HIGH region is compared with D. ananassae rp49. The x axis represents read depth of LOW and HIGH region divided by read depth of rp49. The y axis represents relative concentration of LOW and HIGH region divided by relative concentration of rp49.

Mentions: We verified that the high and low coverage regions of the wAnaITG segments represented actual differences in the genome sequence copy number using qPCR. A candidate high copy region (HIGH) at coordinate 998,610–1,000,511 and candidate low copy region (LOW) at coordinate 40,653–41,915 were each compared with the D. ananassae nuclear gene rp49 in three representative strains (BKK13, D38, and TI8). Based on genome coverage results compared with the D. ananassae rp49 gene, LOW was expected to have a 1.5-fold increase whereas HIGH was expected to have a 3.5-fold increase in copy number (fig. 4). Qualitatively, the qPCR results were concordant with the genome coverage results: For all three strains, copy number for LOW was 0.8-fold that of the rp49 gene, whereas HIGH was estimated to be 2.6-fold higher than rp49. Thus, the difference in read coverage across the wAnaITG genome was due to differences in the copy number of wAnaITG integrated into the D. ananassae nuclear genome.Fig. 4.—


Population Genomics of Infectious and Integrated Wolbachia pipientis Genomes in Drosophila ananassae.

Choi JY, Bubnell JE, Aquadro CF - Genome Biol Evol (2015)

Computational and qPCR estimates of copy number for the LOW and HIGH regions of the wAnaITG genome. Relative copy number of LOW and HIGH region is compared with D. ananassae rp49. The x axis represents read depth of LOW and HIGH region divided by read depth of rp49. The y axis represents relative concentration of LOW and HIGH region divided by relative concentration of rp49.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
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getmorefigures.php?uid=PMC4558871&req=5

evv158-F4: Computational and qPCR estimates of copy number for the LOW and HIGH regions of the wAnaITG genome. Relative copy number of LOW and HIGH region is compared with D. ananassae rp49. The x axis represents read depth of LOW and HIGH region divided by read depth of rp49. The y axis represents relative concentration of LOW and HIGH region divided by relative concentration of rp49.
Mentions: We verified that the high and low coverage regions of the wAnaITG segments represented actual differences in the genome sequence copy number using qPCR. A candidate high copy region (HIGH) at coordinate 998,610–1,000,511 and candidate low copy region (LOW) at coordinate 40,653–41,915 were each compared with the D. ananassae nuclear gene rp49 in three representative strains (BKK13, D38, and TI8). Based on genome coverage results compared with the D. ananassae rp49 gene, LOW was expected to have a 1.5-fold increase whereas HIGH was expected to have a 3.5-fold increase in copy number (fig. 4). Qualitatively, the qPCR results were concordant with the genome coverage results: For all three strains, copy number for LOW was 0.8-fold that of the rp49 gene, whereas HIGH was estimated to be 2.6-fold higher than rp49. Thus, the difference in read coverage across the wAnaITG genome was due to differences in the copy number of wAnaITG integrated into the D. ananassae nuclear genome.Fig. 4.—

Bottom Line: Coevolution between Drosophila and its endosymbiont Wolbachia pipientis has many intriguing aspects.Further analysis revealed that for all D. ananassae we examined with the integrated wAna genomes, the majority of the integrated wAna genomic regions is represented in at least two copies suggesting a double integration or single integration followed by an integrated genome duplication.The possible evolutionary mechanism underlying the widespread geographical presence of the duplicate integration of the wAna genome is an intriguing question remaining to be answered.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology and Genetics, Cornell University jc2439@cornell.edu.

No MeSH data available.


Related in: MedlinePlus