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Plant genetic archaeology: whole-genome sequencing reveals the pedigree of a classical trisomic line.

Salomé PA, Weigel D - G3 (Bethesda) (2014)

Bottom Line: The circadian oscillator is astonishingly robust to changes in the environment but also to genomic changes that alter the copy number of its components through genome duplication, gene duplication, and homeologous gene loss.While studying the potential effect of aneuploidy on the Arabidopsis thaliana circadian clock, we discovered that a line thought to be trisomic for chromosome 3 also bears the gi-1 mutation, resulting in a short period and late flowering.With the help of whole-genome sequencing, we uncovered the unexpected complexity of this trisomic stock's history, as its genome shows evidence of past outcrossing with another A. thaliana accession.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology, Max Planck Institute for Developmental Biology, D-72076 Tübingen, Germany salome@chem.ucla.edu.

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Comparison of CS3227 with other gi alleles for circadian amplitude. Mean TOC1:LUC amplitude for Col-2 and several gi alleles. Data are shown as box and whiskers plot from at least 24 seedlings.
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fig4: Comparison of CS3227 with other gi alleles for circadian amplitude. Mean TOC1:LUC amplitude for Col-2 and several gi alleles. Data are shown as box and whiskers plot from at least 24 seedlings.

Mentions: In light of the molecular lesion found in CS3227, we re-examined the circadian defects present in CS3227 alongside the weak gi allele gi-1 and the strong alleles gi-2 and gi-201. Both CS3227 and gi-1 displayed a similar short period, while the strong gi alleles did not affect period length significantly (Figure 3). Circadian amplitude of the reporter was markedly decreased in all gi mutants and in CS3227, with strong gi alleles having a stronger effect (with values about 10–14% of wild type, Figure 4. The same reporter was introgressed from Col-2 into all mutant backgrounds, allowing direct comparison of amplitudes). Again, gi-1 and CS3227 behaved in a similar fashion regarding circadian amplitude, which reached about 40% of wild-type values. The CS3227 genetic stock therefore exhibited all circadian defects known to occur in the gi-1 allele.


Plant genetic archaeology: whole-genome sequencing reveals the pedigree of a classical trisomic line.

Salomé PA, Weigel D - G3 (Bethesda) (2014)

Comparison of CS3227 with other gi alleles for circadian amplitude. Mean TOC1:LUC amplitude for Col-2 and several gi alleles. Data are shown as box and whiskers plot from at least 24 seedlings.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4321033&req=5

fig4: Comparison of CS3227 with other gi alleles for circadian amplitude. Mean TOC1:LUC amplitude for Col-2 and several gi alleles. Data are shown as box and whiskers plot from at least 24 seedlings.
Mentions: In light of the molecular lesion found in CS3227, we re-examined the circadian defects present in CS3227 alongside the weak gi allele gi-1 and the strong alleles gi-2 and gi-201. Both CS3227 and gi-1 displayed a similar short period, while the strong gi alleles did not affect period length significantly (Figure 3). Circadian amplitude of the reporter was markedly decreased in all gi mutants and in CS3227, with strong gi alleles having a stronger effect (with values about 10–14% of wild type, Figure 4. The same reporter was introgressed from Col-2 into all mutant backgrounds, allowing direct comparison of amplitudes). Again, gi-1 and CS3227 behaved in a similar fashion regarding circadian amplitude, which reached about 40% of wild-type values. The CS3227 genetic stock therefore exhibited all circadian defects known to occur in the gi-1 allele.

Bottom Line: The circadian oscillator is astonishingly robust to changes in the environment but also to genomic changes that alter the copy number of its components through genome duplication, gene duplication, and homeologous gene loss.While studying the potential effect of aneuploidy on the Arabidopsis thaliana circadian clock, we discovered that a line thought to be trisomic for chromosome 3 also bears the gi-1 mutation, resulting in a short period and late flowering.With the help of whole-genome sequencing, we uncovered the unexpected complexity of this trisomic stock's history, as its genome shows evidence of past outcrossing with another A. thaliana accession.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology, Max Planck Institute for Developmental Biology, D-72076 Tübingen, Germany salome@chem.ucla.edu.

Show MeSH