A physical map of chromosome 2 of Arabidopsis thaliana.

A series of 130 DNA probes, hybridized to the CIC YAC library, are ordered along the abscissa. A subset of 58 of the probes, mapped to chromosome 2 by RFLP analysis, serve as contact points between the genetic and physical maps. The positions of markers mapped to the recombinant inbred lines (7) are indicated in cM above the marker names. When a set of probes hybridized to the same YACs, their order is listed by their position in the genetic map (7). If no genetic or auxilliary data (e.g. cosmid contig (4)) was available, the exact probe order is indeterminate and is arbitrarily assigned.

A line drawn above a marker indicates a difference in marker order between the physical and genetic maps. Markers designated "RI" have been mapped by us to the recombinant inbred populations and are in correct relative position (with one exception, 15414, marked "RI-?") to the markers on either side (no number is indicated as adding markers and using a different mapping program generates different absolute positions (5)); "F2" indicates a marker mapped on other mapping populations (2), (5), (13) but not the RI lines. Similar types of probes are indicated in the same color, as indicated in the color code which accompanies each image.

The references and/or sources of the various probes used in this study are as follows: cosmid clones (####) (4, 13); bacteriophage lambda clones, m###, (2); EST sequences (ve012-ve019) D. Bouchez & C. Camilleri, unpublished; genomic clones in pUC119 (mi###), R. Whittier, Mitsui Plant Biotechnology Research Institute, Tsukuba, Japan; AGL3 (10); Athb7 (14); B68, E. Wisman Max-Planck-Institut fuer Zuechtungsforschung, Cologne, Germany; GPA1 (9) ; O5841 and O802F, C. Lister, The John Innes Centre, Norwich, UK; pCIT4241 and pCITd100, ABRC, Ohio State University, Columbus, OH; ABL3 (8); PR1 (15); TEn5 (formerly PR21) (1); pTHY-1 (6); pSKF109, J. Polacco, University of Missouri, Columbia; spl3, G. Cardon and P. Huijser, Max-Planck-Institut fuer Zuechtungsforschung, Cologne, Germany; pATC4 (12); AGL20 (formerly SG5), M. Yanofsky and S. Gold, University of California, San Diego and University of Georgia, Athens, respectively; cCA1, E. Tobin and L. Sun, University of California, Los Angeles and Massachusetts General Hospital, Boston, respectively.

The 61 probes generated from the ends of anchored YACS are prefixed by L or R to indicate the left (gray) or right (yellow) end of the Arabidopsis insert of the YAC. YACs that hybridized to a probe are aligned along the ordinate starting with CIC7C11 (at the top) near the telomere of the short chromosomal arm. The minimal set of 34 YACs are indicated by a < next to the bolded YAC size (in Kb indicated adjacent to the YAC). The strings of boxes along the abscissa do not represent the size of the YACs, or the exact overlap between YACs, but do show the number of probes that hybridized to the YAC.

Box color indicates the nature of the hybridization and is the same as the corresponding probe color with the following exceptions: (a) hybridization of a right end probe to its cognate YAC is indicated by a red sloping pattern on yellow and a dark-blue sloping pattern on gray for a left end probe and (b) repetitive sequences: brown, rDNA; green and red, repetitive and/or YAC specific band patterns. YACs CIC9D11 (3) and CIC6G3 (3, E. Zachgo and M.L. Wang, unpublished) contain the 180bp repeat (11). Since the ends of two or more YACs may hybridize to the same YAC clone, the diagram may show one of the YAC ends as internal to the rest of the blocks representing the YAC ("checker board" pattern). Dotted vertical columns indicate the 3 internal gaps in the map; the double column at gap 1 represents the uncertainty in the centromeric region.



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