Recent developments have for the first time allowed the determination of three-dimensional structures of individual chromosomes and genomes in nuclei of single haploid mouse embryonic stem (ES) cells based on Hi⁻C chromosome conformation contact data. Although these first structures have a relatively low resolution, they provide the first experimental data that can be used to study chromosome and intact genome folding. Here we further analyze these structures and provide the first evidence that G1 phase chromosomes are knotted, consistent with the fact that plots of contact probability vs sequence separation show a power law dependence that is intermediate between that of a fractal globule and an equilibrium structure.
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http://dx.doi.org/10.3390/polym9080317 | DOI Listing |
BMC Plant Biol
December 2024
The Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, 430000, China.
Background: The three-amino-acid-loop-extension (TALE) superfamily genes are broadly present in plants and play important roles in plant growth, development, and abiotic stress responses. So far, the TALE family in B.napus have not been systematically studied, especially their potential roles in response to abiotic stress.
View Article and Find Full Text PDFTheor Appl Genet
September 2024
Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/Northeast, Agricultural University, Harbin, 150030, China.
Bioessays
May 2024
Department of Biology, University of Crete, Vassilika Vouton, Heraklion, Greece.
How chromatin bridges are detected by the abscission checkpoint during mammalian cell division is unknown. Here, we discuss recent findings from our lab showing that the DNA topoisomerase IIα (Top2α) enzyme binds to catenated ("knotted") DNA next to the midbody and forms abortive Top2-DNA cleavage complexes (Top2ccs) on chromatin bridges. Top2ccs are then processed by the proteasome to promote localization of the DNA damage sensor protein Rad17 to Top2-generated double-strand DNA ends on DNA knots.
View Article and Find Full Text PDFJ Cell Biol
November 2023
Department of Biology, University of Crete, Heraklion, Greece.
In response to chromatin bridges, the abscission checkpoint delays completion of cytokinesis to prevent chromosome breakage or tetraploidization. Here, we show that spontaneous or replication stress-induced chromatin bridges exhibit "knots" of catenated and overtwisted DNA next to the midbody. Topoisomerase IIα (Top2α) forms abortive Top2-DNA cleavage complexes (Top2ccs) on DNA knots; furthermore, impaired Top2α-DNA cleavage activity correlates with chromatin bridge breakage in cytokinesis.
View Article and Find Full Text PDFInt J Mol Sci
February 2023
Institute for Biological Systems, National Research Council (CNR), Monterotondo, 00015 Rome, Italy.
-like homeobox (KNOX) transcription factors are involved in plant development, playing complex roles in aerial organs. As species include important fruit tree crops of Italy, an exhaustive investigation of genes was performed using genomic and RNA-seq meta-analyses. Micropropagation is an essential technology for rootstock multiplication; hence, we investigated transcriptional behavior upon increasing 6-benzylaminopurine (BA) doses and the effects on GF677 propagules.
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