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

Genetics

Volumn 165, Issue 3, 2003, Pages 1551-1568

  Tani, Naoki ^a   Takahashi, Tomokazu ^b   Iwata, Hiroyoshi ^a,d   Mukai, Yuzuru ^c   Ujino Ihara, Tokuko ^a   Matsumoto, Asako ^a   Yoshimura, Kensuke ^a   Yoshimaru, Hiroshi ^a   Murai, Masafumi ^a   Nagasaka, Kazutoshi ^a   Tsumura, Yoshihiko ^a  

^a FORESTRY AND FOREST PRODUCTS RESEARCH INSTITUTE   (Japan)

^b NIIGATA UNIVERSITY   (Japan)

^c SHIZUOKA UNIVERSITY   (Japan)

^d NATIONAL AGRICULTURAL RESEARCH CENTER   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DNA MARKER; ISOENZYME; MICROSATELLITE DNA;

ARTICLE; CLEAVED AMPLIFIED POLYMORPHIC SEQUENCE; CONSENSUS SEQUENCE; CROSS POLLINATION; EXPRESSED SEQUENCE TAG; GENE MAPPING; GENETIC LINKAGE; GENETIC MARKER; GENOME SIZE; JAPANESE CEDAR; MOLECULAR EVOLUTION; MORPHOLOGICAL TRAIT; NONHUMAN; PEDIGREE; PLANT CHROMOSOME; PRIORITY JOURNAL; PROGENY; QUANTITATIVE TRAIT LOCUS MAPPING; RANDOM AMPLIFIED POLYMORPHIC DNA; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SEGREGATION DISTORTION; SELFING; SINGLE NUCLEOTIDE POLYMORPHISM;

BASE SEQUENCE; CRYPTOMERIA; DNA PRIMERS; EXPRESSED SEQUENCE TAGS; GENETIC MARKERS; LINKAGE (GENETICS); MICROSATELLITE REPEATS; PEDIGREE;

CONIFEROPHYTA; CRYPTOMERIA; CRYPTOMERIA JAPONICA; EMBRYOPHYTA; JAPONICA;

EID: 0346063805     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (61)

1. BARRENECHE, T., C. BODENES, G. LEXER, J.-F TRONTIN, S. FLUCH et al, 1998 A genetic linkage map of Quercus robur L. (pedunculate oak) based on RAPD, SCAR, microsatellite, minisatellite, isozyme and 5S rDNA markers. Theor. Appl. Genet. 97: 1091-1103.
2. 2 populations of maize (Zea mays L.). Theor. Appl. Genet. 82: 636-644.
3. BERNATZKY, R., and S. D. TANKSLEY, 1986 Majority of random cDNA clones correspond to single loci in the tomato genome. Mol. Gen. Genet 203: 8-14.
4. BRADSHAW, H. D., and R. F. STETTLER, 1994 Molecular genetics of growth and development in Populus. 11. Segregation distortion due to genetics load. Theor. Appl. Genet. 89: 551-558.
5. BROWN, G. R., E. E. KADEL, III, D. L. BASSONI, K. L. KIEHNE, TEMESGEN B. et al., 2001 Anchored reference loci in loblolly pine (Pinus laeda L.) for integrating pine genomics. Genetics 159: 799-809.
6. BUTCHER, P. A., E. R. WILLIAMS, D. WHITAKER, S. LING, T. P. SPEED et al., 2002 Improving linkage analysis in outcrossed forest trees-an example from Acacia mangium. Theor. Appl. Genet. 104: 1185-1191.
7. CEVERA, M.-T., V. STORME, B. IVENS, J. GUSMAO, B. H. LIU et al., 2001 Dense genetic linkage maps of three. Popululus species (Populus deltoides, P. nigra and P. trichocarpa) based on AFLP and microsatellite markers. Genetics 158: 787-809.
8. CHAKRAVARTI, A., L. K. LASHER and J. E. REEFER, 1991 A maximum-likelihood method for estimating genome length using genetic linkage data, Genetics 128: 175-182.
9. DENVEY, M. E., T. A. FIDDLER, B. H. LIU and S. J. KNAPP, 1994 Ah RFLP linkage map for loblolly pine based on a three-generation outbred pedigree. Theor. Appl. Genet. 88: 273-278.
10. DENVEY, M. E., J. C. BELL, D. N. SMITH, D. B. NEALE and G. F. MORAN 1996 A genetic linkage map for Pinus radiata based on RFLP, RAPD, and microsatellite markers. Theor. Appl. Genet. 92: 673-679.
11. DENVEY, M. E., M. M. SEWELL., T. L. UREN and D. B. NEALE, 1999 Comparative mapping in loblolly and radiata pine using RFLP and microsatellite markers. Theor. Appl. Genet. 99: 656-662.
12. ECHT, C. S., and C. D. NELSON, 1997 Linkage mapping and genome length in eastern white pine (Pinus strobes L.). Theor. Appl. Genet. 94: 1031-1037.
13. GOSSELIN, I., Y. ZHOU, J. BOUSQUET and N. ISABEL, 2002 Megagametophyte-derived linkage maps of white spruce (Picea glauca) based on RAPD, SCAR and ESTP markers. Theor. Appl. Genet. 104: 987-997.
14. GRATTAPAGLIA, D., and R. SEDEROFF, 1994 Genetic linkage maps of Eucalyptus grandis and Eucalyptus urophylla using a pseudo-test-cross: mapping strategy and RAPD markers. Genetics 137: 1121-1137.
15. HAMRICK, J. L., M. J. W. GODT and S. L. SHERMAN-BROYLERS 1992 Factors innfluencing levels of genetic diversity in woody plant species. New For. 6: 95-124.
16. HANLEY, S., J. H. A. BARKER, J. W. VAN OOIJEN, C. ADAMS, S. L. HARRIS et al., 2002 A genetic linkage map of willow (Salix viminalis) based on AFLP and microsatellite markers. Theor. Appl. Genet. 105: 1087-1096.
17. HELENTJARIS, T., D. WEBBER and S. WRIGHT, 1998 Identification of the genomic locations of duplicate nucleotide sequences in maize by analysis of restriction fragment length polymorphisms. Genetics 118: 353-363.
18. HENDRICK, P. W., O. MUONA. 1990 Linkage of varaibality genes to marker loci in selfing organisms. Heredity 64: 67-72.
19. HIZUME, M., T. KONDO, F. SHIBATA and R. ISHIZUKA, 2001 Flow cytometric determination of genome size in the Taxodiaceae, Cupressaceae sensu stricto and Sciadopityaceae. Cytologia 66: 307-311.
20. HULBERT, S., T. ILOTT, E. J. LEGG, S. LINCOLN, E. LANDER et al., 1988 Genetic analysis of the fugus, Bremia lactucae, using restriction length polymorphism. Genetics 120: 947-958.
21. IWATA, H., T. UJINO-IHARA, K. YOSHIMURA, K. NAGASAKA, Y. MUKAI et al., 2001 Cleaved amplified polymorphic sequence markers in sugi, Cryptomeria japonica D. Don, and their locations on a linkage map. Theor. Appl. Genet. 103: 881-895.
22. JERMSTAD, K. D., A. M. REEM, J. R. HENIFIN, N. C. WHEELER. and D. B. NEALE, 1994 Inheritance of restriction-fragment-length-polymorphisms and random amplified polymorphic DNAs in coastal Douglas-fir. Theor. Appl. Genet. 89: 758-766.
23. JERMSTAD, K. D., D. L. BASSONI, N. C. WHEELER and D. B. NEALE, 1998 A sex-averaged genetic linkage map in coastal Douglas-fir (Pseudolsuga mensiesii [Mirb.] Franco var. menziesii) based on RFLP and RAPD markers. Theor. Appl. Genet. 97: 762-770.
24. 2 populations. Theor. Appl. Genet. 103: 638-647.
25. KASHA, K. J., and K. N. KAO, 1970 High frequency haploid production in barley (Hordeum vulgare L.). Nature 225: 874-876.
26. 2 families for genetic studies on heartwood color of sugi, Cyptomeria: Transactions of the 95th Meeting of the Japanese Forestry Society The Japanese Forestry Society, Tokyo, pp. 293-294 (in Japanese).
27. KINLAW, C. S., and D. B. NEALE, 1997 Complex gene families in pine genomes. Trends Plant Sci. 2: 356-359.
28. KOSAMBI, D. D., 1944 The estimation of map distances from recombination values. Ann. Eugen. 12: 172-175.
29. KUANG, H., T. RICHARDSON, S. CARSON, P. WILCOX and B. BONGARTEN, 1999 Genetic analysis of inbreeding depression in plus tree 850.50 of Pinus radiata D. Don. I. Genetic map with distorted markers. Theor. Appl. Genet. 98: 697-703.
30. KURAMOTO, N., T. KONDO, Y. FUJISAWA, R. NAKATA, E. HAVASI et al, 2000 Detection of quantilative trait loci for wood strength in Crytomeria japonica. Can. J. For. Res. 30: 1525-1533.
31. LANDER, E. S., P, GREEN, J. ABRAHAMSON, A. BARLOW, M. J. DALY et al., 1987 MAPMAKER: an interactive computer package for constructing primary genetic linkage map of experimental and natural populations. Genomics 1: 174-181.
32. LANGE, K., and M. BOEHNKE, 1982 How many polymorphic marker genes will it take to span the human genome? Am. J. Hum. Genet. 34: 842-845.
33. LESPINASSE, D., M. RODIER-GOUD, L. GRIVET, A. LECONTE, H. LEGNATE et al., 2000 A saturated genetic linkage map of rubber tree (Hevea spp.) based on RFLP, AFLP, microsatellite, and isozyme markers. Theor. Appl. Genet. 100: 127-138.
34. LIEDL, B., and N. O. ANDERSON, 1993 Reproductive barries: identification of an intraspecific integrated linkage map of pepper using molecular markers and double-haploid progenies. Genome 38: 112-121.
35. LIU, B. H., 1998 Statistical Genomics: Linkage, Mapping, and QTL Analysis. CRC Press, Boca Raton, FL.
36. LOMBARD, V., and R. DELOUROME, 2001 A consensus linkage map for rapeseed (Brassica napus L.): construction and integration of three individual maps from DH populations. Theor. Appl. Genet. 103: 491-507.
37. MALIEPAARD, C., J. JANSEN and J. W. VAN OOIJEN, 1997 Linkage analysis in a full-sib family of an outbreeding plant species: overview and consequences for applications. Genet. Res. 70: 237-250.
38. MORIGUCHI, Y., H. IWATA, T. UJINO-IHARA, K. YOSHIMURA, H. TAIRA et al., 2003 Development and characterization of microsatellite markers for Cryptomeria japonica D. Don. Theor. Appl. Genet. 106: 751-758.
39. MUKAI, Y., Y. SUYAMA, Y. TSUMURA, T. KAWAHARA H. YOSHIMARU et al., 1995 A linkage map for sugi (Cryptomeria japonica) based on RFLP, RAPD, and isozyme loci. Theor. Appl. Genet. 90: 835-840.
40. NELSON, C. D., T. L. KUBISIAK, M. STINE and W. L. NANCE, 1994 A genetic linkage of longleaf pine (Pinus palustris Mili.) based on random amplified polymorphic DNAs. J. Hered. 85: 433-439.
41. NIKAIDO, A., H. YOSHIMARU, Y. TSUMURA, Y. SUYAMA, M. MURAI et al., 1999 Segregation distortion for AFLP markers in Cryptomeria japonica. Genes Genet. Syst. 74: 55-59.
42. NIRAIDO, A. M., T. UJINO, H. IWATA, K. YOSHIMURA, H. YOSHIMARU et al., 2000 AFLP and CAPS linkage maps of Cryptomeria japonica. Theor. Appl. Genet. 100: 825-831.
43. OHIBA, K, L.-Q. HUNG, H. KAWASAKI and M. MURAI, 1988 Estimation of genetic parameters using three-generafion materials derived from Kumotooshi and Okinoyama-sugi parents. J. Jpn. For. Soc. 71: 405-409.
44. PLOMION, C., D. M. O'MALLEY and C.-E. DUREL, 1995 Genomic analysis in maritime pine (Pinus pinaster). Comparison of two RAPD maps using selfed and open pollinated seeds of the same individual. Theor. Appl. Genet. 90: 1028-1034.
45. QI, X., P. STAM and P. LINDHOUT, 1996 Comparison and integration of four barley genetic maps. Genome 39: 379-394.
46. REMINGTON, D. L., and D. M. O'MALLEY, 2000 Whole-genome characterization of embryonic stage inbreeding depression in selfed loblolly pine family. Genetics 155: 337-348.
47. RITTER, E., C. GEBHARDT and F. SALAMINI, 1990 Estimation of recombination frequencies and construction of RFLP linkage maps in plants from crosses between heterozygons parents. Genetics 25: 645-654.
48. SEBASTIAN, R. L., E. C. HOWELI., G. J. KING, D. F. MARSHALL and M.J. KEARSEY, 2000 An integrated AFLP and RFLP Brassica olerace linkage map from two morphologically distinct double-haploid mapping populations. Theor. Appl. Genet. 100: 75-81.
49. SEWELI, M. M., B. K. SHERMAN and D. B. NEALE, 1999 A consensus map for loblolly pine (Pinus taeda L.). 1. Construction and integration of individual linkage maps from two outbred three-generation pedigrees. Genetics 151: 321-330.
50. STAM, P., 1993 Constrnction of integrated genetic linkage maps by means of a new computer package: Join Map. Plant J. 3: 739-744.
51. STRAUB, J. E., F. C. SERQUEN and M. GUPTA, 1996 Genetic markers, map construction, and their application in plant breeding. Hort. Sci. 31: 729-740.
52. TEMESGEN, B., G. R. BROWN, D. E. HARRY, C. S. KINLAW, M. M. SEWAI, I, et al., 2001 Genetic mapping of expressed sequence tag polymorphism (ESTP) markers in loblolly pine (Pinus taeda L.). Theor. Appl. Genet. 102: 664-675.
53. TSUMURA, Y., K. UCHIDA and K. OHIBA, 1989 Genetic control of isozyme variation in needle tissues of Cryptomeria japonica. J. Hered. 80: 291-297.
54. TSUMURA, Y., Y. SUYAMA, K. YOSHIMURA, N. SHIRATO and Y. MUKAI, 1997 Sequence-tagged-sites (STSs) of cDNA clones in Cryptomeria japonica and their evaluation as molecular markers in conifers. Theor. Appl. Genet. 94: 764-772.
55. UJINO-IHARA, T., K. YOSHIMURA, Y. UGAWA, H. YOSHIMARu, K. NAGASAKA et al., 2000 Expression analysis of ESTs derived from the inner bark of Cryptomeria japonica. Plant Mol. Biol. 43: 451-457.
56. VAN OOIJEN, J. W., and R. E. VOORRIPS, 2001 JoinMap Version 3.0, software for the Calculation of Genetic Linkage Maps. Plant Research International, Wageningen, The Netherlands.
57. VOORRIPS, R. E., 2002 MapChart: software for the graphical presentation of linkage maps and QTLs. J. Hered. 93: 77-78.
58. WAKAMIYA, I., R. J. NEWTON, J. S. JOHNSTON and H. J. PRICE, 1993 Genome size and environmental factors in the genus Pinus. Am. J. Bot. 80: 1235-1241.
59. 2, backcross, double haploid, and recombinant inbred populations in rice (Oryza sativa L.). Mol. Gen. Genet. 253: 535-545.
60. YOSHIMARU, H., K. OHBA, K. TSURUMI, N. TOMARU, M. MURAI et al., 1998 Detection of quantitative trait loci for juvenile growth, flower bearing and root ability based on a linkage map of sugi (Cryptomeria japonica D. Don). Theor. Appl. Genet. 97: 45-50.
61. ZAMIRM, D., and Y. TADMOR, 1986 Unequal segregation of nuclear genes in plants. Bot. Gaz. 147: 355-358.