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Three-Dimensional Maps of All Chromosomes in Human Male Fibroblast Nuclei and Prometaphase Rosettes

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Radial Chromosome Positions Correlate with Chromosome Size in Quiescent Human Fibroblasts (G0)

(A) Two-dimensional projections of the IGCs of CTs 1, 7, 11, 18, 19, and Y studied in 54 nuclei are represented by dots. Ellipses represent the 2D shape of a fibroblast nucleus normalized for shape and size and rotated so that the long axis of each nucleus evaluated lies on the abscissa. Projections of IGCs for all CTs are shown in Figure S2. Note that we were not able to distinguish in nuclei between a “north” and “south” pole of the short axis or a “west” and “east” pole of the long axis. Either fibroblast nuclei do not possess such compass polarizations or we lack markers to recognize them. Accordingly, distance comparisons between IGCs located in different quadrants of the ellipse are not meaningful.

(B) Cumulative 3D distance graphs of the CT distribution within a normalized nucleus taken from the data (A). The abscissa represents the normalized radial 3D distances of CTs 1, 7, 11, 18, 19, and Y from the center of the nucleus (CN; IGC of the DAPI-stained nucleus) to the IGC of a specific CT. The origin represents the CN, and “1” represents the nuclear periphery. The Ordinate represents the cumulative percentage of normalized 3D CN–CT distances. Cumulative graphs for the entire set of chromosomes are shown in Figure S4.

(C) Cumulative 3D distance graphs of PC distribution within a normalized prometaphase rosette. Abscissa and ordinate are as in (B), with PC being the IGC of a prometaphase chromosome and CR the center of the prometaphase rosette. IGC projections and cumulative graphs for all PCs are shown in Figures S3 and S6, respectively.

Figure 2

doi: https://doi.org/10.1371/journal.pbio.0030157.g002