Mammalian Genome 10, 949 (1999). Incorporating Mouse Genome © Springer-Verlag New York Inc. 1999 1 2 Shigeharu Wakana, Kenji Imai * Gene Analysis Unit, Central Institute for Experimental Animals, 1430 Nogawa, Miyamae-ward, Kawasaki 216-0001, Japan GSF-National Research Center for Environment and Health, Institute of Mammalian Genetics, Ingolstaedter Landstrasse 1, D-85764 Neuherberg, Germany Submitted: 1 December 1998 Introduction The structure of the Mouse Chromosome 9 Committee Report positions based on a large number of different mapping experi- (CCR9) is based on a common format agreed among the chromo- ments. 2) The Cross Table (Table 2) summarizes the locus order some committee chairpersons at the twelfth International Mouse information that is established by individual mapping studies. Each Genome Conference in Garmisch, held in October 1998. There are column in the table corresponds to an individual genetic cross used two versions of CCR9: a printed version in a special issue of to map three or more loci on Chr 9. For detailed information about Mammalian Genome and an electronic version deposited in the what genes have been mapped with respect to one another in Mouse Genome Database (MGD) at The Jackson Laboratory particular regions, one should consult this table, but not the graphic (http://www.informatics.jax.org). The printed version of CCR9 in- map. Readers can also find some conflicts in locus orders deter- cludes only Table 1/Map (Locus List) and this Narrative. Addi- mined by different mapping studies in Table 2. The table lists tional information is available for the electronic version, including seventy crosses, including three crosses that are widely available a graphical map of mouse chromosome (Chr) 9 (Figure 1) and a interspecific backcrosses; the Jax BSS and BSB crosses, and the cross table (Table 2). EUCIB crosses. The latest mapping data on these crosses as well as data on the crosses of Copeland-Jenkins, Kozak, Seldin, and Chromosome 9 loci MIT are available from MGD. Readers can also view mapping data of a specific locus on other crosses in MGD (Marker Mapping This year’s CCR9 lists a total of 950 valid loci, including 292 of Data). functional genes or pseudogenes, 64 of EST markers, 555 of anonymous DNA segment markers, 13 of QTL loci, and 26 of Other WWW resources chromosomal aberrations. Of those, 65 loci are new since the last CCR9. Forty-eight of the new loci represent new functional genes As designated with “H” in the column “Method” of Table 1/Map, or pseudogenes including 27 EST markers. The remaining new 43 STS markers have been included on the T31 radiation hybrid loci include 10 anonymous DNA segment markers as well as seven (RH) map. Updates for the RH data is available at The Jackson QTL locus. Two loci included in the last CCR9, Arha and Rab7, Laboratory (http://www.jax.org/resources/documents/cmdata/ have been retracted because further mapping data have confirmed rhmap/rh.html). A number of MIT microsatellite loci, marked with that they map to chromosomes 2 and 6, respectively. D9Mit159 “P” in the column “Method” of Table 1/Map, have been located on has also been removed from CCR9 as the locus was retracted from MIT YACs. Updates for the MIT physical map is available via the original MIT map. Some loci are listed as provisional with “S” internet (http://www.genome.wi.mit.edu). RI/RC strain mapping for Map Position (MP) because detailed enough mapping infor- data can be downloaded as a set of MapManager files at some web mation was not available by the submission time of this report. sites including MGD and Roswell Park (http://mcbio.med. Several locus symbols used in the previous CCR9s are withdrawn buffalo.edu). Cytogenetic maps are available from MGD as or changed to valid ones. These locus symbols are marked with graphic files (http://www.informatics.jax.org/cmap.html). “W” and listed separately in Table 1/Map. Synteny between mouse Chr 9 and human chromosomes Map position (MP) changes As of the submission time, 135 human orthologs of mouse Chr 9 A change of MP to Tgfbr2 (from 52 to 69) has been made based genes have been identified and mapped (see Table 1/Map and Fig. on re-evaluation of the existing data. 1). A syntenic relationship between mouse Chr 9 and human chro- mosomes can be best overviewed in Fig. 1. As a rough summary, How to use the CCR9 consensus map mouse Chr 9 segments in an MP range below are homologous to The CCR9 consensus map is made by compiling data from a large following human chromosomes (HSA): MP 1-3 to HSA 11, MP number of individual mapping studies. Details of gene order and 5-7 to HSA 19, MP 8-30 to HSA 11, MP 30-42 to HSA 15, MP positions may be very uncertain on the consensus map, since many 42-48 to HSA 6, MP 50-52 to HSA 15, MP 52-72 to HSA 3. loci have never been mapped with respect to one another in the same genetic cross, or they have been mapped only by methods Acknowledgments. We thank David M. Kingsley for his contributions in with limited resolutions. In the electronic version of CCR9, the generating earlier Mouse Chromosome 9 Committee Reports on which the mapping information is presented in two different formats, which current consensus map is largely based. We also thank Josh Friedman and are meant to be complementary. 1) Graphical maps of Chr 9 (Fig. David Shaw for their comments on Tgfbr2 and D9Mit159, respectively. 1 and a part of Table 1/Map) represent a rough summary of locus We would appreciate the Informatics Group at The Jackson Laboratory for the maintenance of the Mouse Genome Database. Access to MGD was extremely helpful in updating and submitting this report. We apologize for * Committee Chair any omissions or errors, which may exist. We welcome any comments and Correspondence to: K. Imai corrections from users for future editions of CCR9 (firstname.lastname@example.org).
Mammalian Genome – Springer Journals
Published: Oct 1, 1999
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