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Genome-wide detection of genetic loci triggering uneven descending of gametes from a natural hybrid pine

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Abstract

Marker transmission ratio distortion (TRD) revealed in genetic mapping studies on distant crosses can be used to infer the genetic basis relating to reproductive barriers between species. Unlike measuring the degree of TRD by the overall number of segregation distorted markers in the affected genome regions, mapping the segregation distorting loci (SDL) provides reliable statistic parameters that help to confine the target genomic regions for further characterization at molecular level. Using the linkage map constructed for a natural hybrid of Pinus hwangshanensis and Pinus massoniana, we perform SDL analyses and align the established map to the loblolly pine consensus map. Altogether, six SDLs with relatively strong LOD supports are detected on four linkage groups of the established map. Since gametes inheriting different alternate chromatid blocks from the SDL affecting genome regions have uneven chance to descend to the offspring, the corresponding genome regions are supposed to play more significant roles in rendering the reproductive isolations between P. hwangshanensis and P. massoniana. This paper presents a case study on a crucial step for uncovering the hidden genetic factors that trigger the uneven descending of gametes in a natural hybrid pine.

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Acknowledgments

We thank Dr J. Armento in Oak Ridge, Tennessee, USA for his comments and editing for this manuscript, and special thanks go to the editor and anonymous reviewers for their help in formulating the revisions. Funding for this work was provided by 948 project (2012-4-41), 973 project (2012CB114505), and the Natural Science Foundation of China (31125008, 31070543). It is also funded by the Doctorate Fellowship Foundation and PAPD program at Nanjing Forestry University.

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Authors and Affiliations

  1. Key Laboratory of Forest Genetics and Biotechnology, Nanjing Forestry University, 159#, Longpan Road, Nanjing, 210037, China

    Shuxian Li, Defang Zhang, Ning Ye & Tongming Yin

  2. Department of Epidemiology and Biostatistics, School of Public Health, Medical College of Soochow University, Suzhou, China, 215123

    Zaixiang Tang

  3. Jiangsu Provincial Key Laboratory of Crop Genetics and Physiology; Key Laboratory of Plant Functional Genomics of Ministry of Education, Yangzhou University, Yangzhou, China, 225009

    Chenwu Xu

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  1. Shuxian Li
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  2. Zaixiang Tang
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  3. Defang Zhang
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  4. Ning Ye
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  5. Chenwu Xu
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  6. Tongming Yin
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Corresponding author

Correspondence to Tongming Yin.

Additional information

Communicated by P. Ingvarsson

Shuxian Li and Zaixiang Tang contribute equally to this work.

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Supplemental Table 1

Pine EST primer pairs adopted from a paper of Temesgen et al. (2001) for map alignment in this study (DOC 109 kb)

Supplemental Fig. 1

The linkage map integrated with EST markers for a natural hybrid of P. massoniana and P. hwangshanensis. In this figure, the linkage group identity is listed on top of each linkage group. This map is aligned to the pine consensus map by integrating EST markers selected from the loblolly pine consensus map (Temesgen et al. 2001). The linkage group identities started with “chrom” are named after the designations as that reported in the paper of Temesgen et al. (2001), whereas linkage group identities started with “LG” represent groups that were not aligned to the loblolly pine consensus map. EST markers are in italic bold fonts. Marker with name ending with an “r” is in repulsion linkage phase. “+” and “++” following a marker name show that segregation distortion skews to more visible allele of the corresponding marker at significance level of p ≤ 0.05 and p ≤ 0.01. Whereas “−” and “−−” show that segregation distortion skews to more invisible allele of the corresponding marker at significance level of p ≤ 0.05 and p ≤ 0.01 (PPT 255 kb)

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Li, S., Tang, Z., Zhang, D. et al. Genome-wide detection of genetic loci triggering uneven descending of gametes from a natural hybrid pine. Tree Genetics & Genomes 8, 1371–1377 (2012). https://doi.org/10.1007/s11295-012-0524-5

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