A Consensus Linkage Map for Sugi (Cryptomeria japonica) From Two Pedigrees, Based on Microsatellites and Expressed Sequence Tags

A Consensus Linkage Map for Sugi (Cryptomeria japonica) From Two Pedigrees, Based on Microsatellites and Expressed Sequence Tags

Naoki Tani^a, Tomokazu Takahashi^b, Hiroyoshi Iwata^a, Yuzuru Mukai^c, Tokuko Ujino-Ihara^a, Asako Matsumoto^a, Kensuke Yoshimura^a, Hiroshi Yoshimaru^a, Masafumi Murai^a, Kazutoshi Nagasaka^a, and Yoshihiko Tsumura^a
^a Department of Forest Genetics, Forestry and Forest Products Research Institute, Tsukuba, Ibaraki 305-8687, Japan,
^b Graduate School of Science and Technology, Niigata University, Igarashi, Niigata 950-2181, Japan
^c Faculty of Agriculture, Shizuoka University, Ohya, Shizuoka 422-8529, Japan

Corresponding author: Yoshihiko Tsumura, Forestry and Forest Products Research Institute, Tsukuba, Ibaraki 305-8687, Japan., ytsumu{at}ffpri.affrc.go.jp (E-mail)

Communicating editor: S. MCCOUCH

A consensus map for sugi (Cryptomeria japonica) was constructedby integrating linkage data from two unrelated third-generationpedigrees, one derived from a full-sib cross and the other byself-pollination of F₁ individuals. The progeny segregationdata of the first pedigree were derived from cleaved amplifiedpolymorphic sequences, microsatellites, restriction fragmentlength polymorphisms, and single nucleotide polymorphisms. Thedata of the second pedigree were derived from cleaved amplifiedpolymorphic sequences, isozyme markers, morphological traits,random amplified polymorphic DNA markers, and restriction fragmentlength polymorphisms. Linkage analyses were done for the firstpedigree with JoinMap 3.0, using its parameter set for progenyderived by cross-pollination, and for the second pedigree withthe parameter set for progeny derived from selfing of F₁ individuals.The 11 chromosomes of C. japonica are represented in the consensusmap. A total of 438 markers were assigned to 11 large linkagegroups, 1 small linkage group, and 1 nonintegrated linkage groupfrom the second pedigree; their total length was 1372.2 cM.On average, the consensus map showed 1 marker every 3.0 cM.PCR-based codominant DNA markers such as cleaved amplified polymorphicsequences and microsatellite markers were distributed in alllinkage groups and occupied about half of mapped loci. Thesemarkers are very useful for integration of different linkagemaps, QTL mapping, and comparative mapping for evolutional study,especially for species with a large genome size such as conifers.

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