Assignment of genetic linkage maps to diploid Solanum tuberosum pachytene chromosomes by BAC-FISH technology

Chromosome Research

Volumn 17, Issue 7, 2009, Pages 899-915

  Tang, Xiaomin ^a   De Boer, Jan M ^a   Van Eck, Herman J ^a   Bachem, Christian ^a   Visser, Richard G F ^a   De Jong, Hans ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

Cytogenetic map; Fluorescence in situ hybridization; Pachytene karyotype; Potato (Solanum tuberosum)

Indexed keywords

4',6 DIAMIDINO 2 PHENYLINDOLE; DNA;

ANGIOSPERM; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; BASE PAIRING; CHROMOSOME 1; CHROMOSOME 11; CHROMOSOME 12; CHROMOSOME 5; CHROMOSOME 8; CHROMOSOME ARM; CHROMOSOME BIVALENT; CHROMOSOME SIZE; CYTOGENETICS; DIPLOIDY; DNA CONTENT; EUCHROMATIN; FLUORESCENCE IN SITU HYBRIDIZATION; GENE LOCUS; GENE MAPPING; GENE SEQUENCE; GENETIC LINKAGE; GENOME; HETEROCHROMATIN; KARYOTYPE; MEASUREMENT; MICROSCOPY; PACHYTENE; POTATO; PRIORITY JOURNAL;

CHROMOSOMES, ARTIFICIAL, BACTERIAL; CHROMOSOMES, PLANT; DIPLOIDY; IN SITU HYBRIDIZATION, FLUORESCENCE; KARYOTYPING; LINKAGE (GENETICS); SOLANUM TUBEROSUM;

BACTERIA (MICROORGANISMS); SOLANACEAE; SOLANUM TUBEROSUM;

EID: 71449119251     PISSN: 09673849     EISSN: 15736849     Source Type: Journal    
DOI: 10.1007/s10577-009-9077-3     Document Type: Article

References (63)

1. Achenbach UC, Tang X, de Jong H, Gebhardt C (2009) Comparison of the chromosome maps around a resistance hot spot on chromosome V of potato and tomato using BAC-FISH painting. Genome (in press)
2. LK Anderson N Salameh HW Bass, et al. 2004 Integrating genetic linkage maps with pachytene chromosome structure in maize Genetics 166 1923 1933 10.1534/genetics.166.4.1923 1:CAS:528:DC%2BD2cXkvF2gs7k%3D 15126409 (Pubitemid 38621071)
3. DW Barton 1950 Pachytene chromosome morphology of tomato chromosome complement Am J Bot 37 639 643 10.2307/2437875
4. Bennett MD, Cox AV, Leitch IJ (1997) Angiosperm DNA C-values database. http://www.rbgkew.org.uk/cval/databasel.html.
5. MW Bonierbale RL Plaisted SD Tanksley 1988 RFLP maps based on a common set of clones reveal modes of chromosomal evolution in potato and tomato Genetics 120 1095 1103 17246486
6. Borm TJA (2008) Construction and use of a physical map of potato. Ph.D. Thesis, Wageningen UR, The Netherlands
7. JE Bradshaw B Pande GJ Bryan, et al. 2004 Interval mapping of quantitative trait loci for resistance to late blight [Phytophthora infestans (Mont.) de Bary], height and maturity in a tetraploid population of potato (Solanum tuberosum subsp. tuberosum) Genetics 168 983 995 10.1534/genetics.104. 030056 1:CAS:528:DC%2BD2cXhtVKms7vI 15514069 (Pubitemid 39491473)
8. MA Budiman SB Chang S Lee, et al. 2004 Localization of jointless-2 gene in the centromeric region of tomato chromosome 12 based on high resolution genetic and physical mapping Theor Appl Genet 108 90 196 10.1007/s00122-003- 1429-3 (Pubitemid 38162199)
9. SB Chang TJ Yang E Datema, et al. 2008 FISH mapping and molecular organization of the major repetitive sequences of tomato Chromosome Res 16 7 919 933 10.1007/s10577-008-1249-z 1:CAS:528:DC%2BD1cXht12lsLfJ 18688733
10. Z Cheng GG Presting CR Buell RA Wing J Jiang 2001 High resolution pachytene chromosome mapping of bacterial artificial chromosomes anchored by genetic markers reveals the centromere location and the distribution of genetic recombination along chromosome 10 of rice Genetics 157 1749 1757 1:CAS:528:DC%2BD3MXjsFemtb0%3D 11290728
11. Z Cheng CR Buell RA Wing M Gu J Jiang 2001 Toward a cytological characterization of the rice genome Genome Res 11 2133 2141 10.1101/gr.194601 1:CAS:528:DC%2BD3MXovFOgtLc%3D 11731505 (Pubitemid 33138812)
12. JH de Jong P Fransz P Zabel 1999 High resolution FISH in plants-techniques and applications Trends Plant Sci 4 258 263 10.1016/S1360-1385(99)01436-3 (Pubitemid 29319501)
13. F Dong J Song SK Naess JP Helgeson C Gebhardt J Jiang 2000 Development and applications of a set of chromosome-specific cytogenetic DNA markers in potato Theor Appl Genet 101 1001 1007 10.1007/s001220051573 1:CAS:528: DC%2BD3cXovVaksr0%3D (Pubitemid 30949428)
14. F Dong JM McGrath JP Helgeson J Jiang 2001 The genetic identity of alien chromosomes in potato breeding lines revealed by sequential GISH and FISH analyses using chromosome-specific cytogenetic DNA markers Genome 44 729 734 10.1139/gen-44-4-729 1:CAS:528:DC%2BD3MXntVKqtLw%3D 11550910 (Pubitemid 32773650)
15. F Dong AL Tek ABL Frasca, et al. 2005 Development and characterization of potato-Solanum brevidens chromosomal addition/substitution lines Cytogenet Genome Res 109 368 372 10.1159/000082421 1:CAS:528:DC%2BD2MXitFers70%3D 15753598 (Pubitemid 40470343)
16. P Fransz S Armstrong C Alonso-Blanco TC Fischer RA Torres-Ruiz G Jones 1998 Cytogenetics for the model system Arabidopsis thaliana Plant J 13 867 876 10.1046/j.1365-313X.1998.00086.x 1:CAS:528:DyaK1cXislejsb4%3D 9681023 (Pubitemid 28178648)
17. PF Fransz S Armstrong JH de Jong, et al. 2000 Integrated cytogenetic map of chromosome arm 4 S of A. thaliana: structural organization of heterochromatic knob and centromere region Cell 100 367 376 10.1016/S0092-8674(00)80672-8 1:CAS:528:DC%2BD3cXhtFKjtbo%3D 10676818
18. J Fuchs DU Kloos MW Ganal I Schubert 1996 In situ localization of yeast artificial chromosome sequences on tomato and potato metaphase chromosomes Chromosome Res 4 277 281 10.1007/BF02263677 1:CAS:528:DyaK28XksVCqurY%3D 8817067 (Pubitemid 26234241)
19. C Gebhardt E Ritter A Barone, et al. 1991 RFLP maps of potato and their alignment with the homeologous tomato genome Theor Appl Genet 83 49 57 10.1007/BF00229225
20. LC Harper WZ Cande 2000 Mapping a new frontier; development of integrated cytogenetic maps in plants Funct Integr Genomics 1 89 98 10.1007/s101420000013 1:CAS:528:DC%2BD3MXlvFOntA%3D%3D 11793225
21. JGT Hermsen LM Taylor EWM van Breukelen A Lipski 1978 Inheritance of genetic markers from two potato dihaploids and their respective parent cultivars Euphytica 27 681 688 10.1007/BF00023703
22. M Iovene SM Wielgus PW Simon CR Buell J Jiang 2008 High resolution fluorescence in situ hybridization mapping of chromosome 6 of potato and comparative analyses with tomato Genetics 180 1307 1317 10.1534/genetics.108. 093179 1:CAS:528:DC%2BD1cXhsFSmu7fE 18791232
23. MN Islam-Faridi KL Childs PE Klein, et al. 2002 A molecular cytogenetic map of sorghum chromosome 1: fluorescence in situ hybridization analysis with mapped bacterial artificial chromosomes Genetics 161 345 353 1:CAS:528:DC%2BD38XkslChurs%3D 12019248
24. JS Kim KL Childs MN Islam-Faridi, et al. 2002 Integrated karyotyping of sorghum by in situ hybridization of landed BACs Genome 45 402 412 10.1139/g01-141 1:CAS:528:DC%2BD38XjtlSnsbw%3D 11962637 (Pubitemid 34253914)
25. JS Kim MN Islam-Faridi PE Klein, et al. 2005 Comprehensive molecular cytogenetic analysis of sorghum genome architecture: distribution of euchromatin, heterochromatin, genes and recombination in comparison to rice Genetics 171 1963 1976 10.1534/genetics.105.048215 1:CAS:528: DC%2BD28XovVOqtQ%3D%3D 16143604
26. B Kloosterman D de Koeyer R Griffiths, et al. 2008 Genes driving potato tuber initiation and growth: identification based on transcriptional changes using the POCI array Funct Integr Genomics 8 329 340 10.1007/s10142-008-0083-x 1:CAS:528:DC%2BD1cXhtFansr3E 18504629
27. E Kocsis BL Trus CJ Steer ME Bisher AC Steven 1991 Image averaging of flexible fibrous macromolecules: the clathrin triskelion has an elastic proximal segment J Struct Biol 107 6 14 10.1016/1047-8477(91)90025-R 1:CAS:528:DyaK38XlsFSjtw%3D%3D 1817611
28. DH Koo SH Jo JW Bang HM Park S Lee D Choi 2008 Integration of cytogenetic and genetic linkage maps unveils the physical architecture of tomato chromosome 2 Genetics 179 1211 1220 10.1534/genetics.108.089532 1:CAS:528: DC%2BD1cXhtVCqtrnF 18622034
29. O Kulikova G Gualtieri DJ Kim D Cook T Huguet T Bisseling 2001 Integration of the FISH pachytene and genetic maps of Medicago truncatula Plant J 27 49 58 10.1046/j.1365-313x.2001.01057.x 1:CAS:528:DC%2BD3MXmtlektbg%3D 11489182 (Pubitemid 32704238)
30. JC Lamb T Danilova MJ Bauer, et al. 2007 Single-gene detection and karyotyping using small-target fluorescence in situ hybridization on maize somatic chromosomes Genetics 175 1047 1058 10.1534/genetics.106.065573 1:CAS:528:DC%2BD2sXltFKhsr4%3D 17237520 (Pubitemid 46798211)
31. NLV Lapitan SE Brown W Kennard JL Stephens DL Knudson 1997 FISH physical mapping with barley BAC clones Plant J 11 149 156 10.1046/j.1365-313X.1997. 11010149.x 1:CAS:528:DyaK2sXhtFGjsb4%3D (Pubitemid 27108366)
32. A Levan K Fredga A Sandberg 1964 Nomenclature for centromeric position on chromosomes Hereditas 52 201 220 10.1111/j.1601-5223.1964.tb01953.x
33. K Nagaki Z Cheng S Ouyang, et al. 2004 Sequencing of a rice centromere uncovers active genes Nature genetics 36 2 138 145 10.1038/ng1289 1:CAS:528:DC%2BD2cXntlCgsA%3D%3D 14716315 (Pubitemid 38174371)
34. KL Nielsen K Gronkjaer KG Welinder J Emmersen 2005 Global transcript profiling of potato tuber using LongSAGE Plant Biotechnol J 3 175 185 10.1111/j.1467-7652.2005.00115.x 1:CAS:528:DC%2BD2MXivVyhurc%3D 17173618 (Pubitemid 41615422)
35. T-H Park J-B Kim RCB Hutten HJ van Eck E Jacobsen RGF Visser 2007 Genetic positioning of centromeres using Half-Tetrad analysis in a 4x-2x cross population of potato Genetics 176 85 94 10.1534/genetics.107.070870 1:CAS:528:DC%2BD2sXntlOhu7g%3D 17339217 (Pubitemid 350021011)
36. DG Peterson HJ Price JS Johnston SM Stack 1996 DNA content of heterochromatin and euchromatin in tomato (Lycopersicon esculentum) pachytene chromosomes Genome 39 77 82 10.1139/g96-011 1:CAS:528:DyaK28XitV2gsLk%3D 18469880
37. LP Pijnacker MA Ferwerda 1984 Giemsa C-banding of potato chromosomes Can J Genet Cytol 26 415 419
38. MS Ramanna M Wagenvoort 1976 Identification of the trisomic series in diploid Solanum tuberosum L., group tuberosum. I. Chromosome identification Euphytica 25 233 240 10.1007/BF00041553
39. WA Rensink Y Lee J Liu S Iobst S Ouyang CR Buell 2005 Comparative analyses of six solanaceous transcriptomes reveal a high degree of sequence conservation and species-specific transcripts BMC Genomics 6 124 10.1186/1471-2164-6-124 16162286 (Pubitemid 41372416)
40. EJ Richards FM Ausubel 1988 Isolation of a higher eukaryotic telomere from Arabidopsis thaliana Cell 53 127 136 10.1016/0092-8674(88)90494-1 1:CAS:528:DyaL1cXhvF2ntb4%3D 3349525
41. JN Rouppe van der Voort P van Zandvoort HJ van Eck, et al. 1997 Use of allele specificity of comigrating AFLP markers to align genetic maps from different potato genotypes Mol Gen Genet 255 438 447 10.1007/s004380050516 1:CAS:528:DyaK2sXlsFemtLc%3D 9267440 (Pubitemid 27385199)
42. JD Sherman SM Stack 1995 Two-dimensional spreads of synaptonemal complexes from solanaceous plants. VI. High-resolution recombination nodule map for tomato (Lycopersicon esculentum) Genetics 141 683 708 1:STN:280: DyaK287gvFKisQ%3D%3D 8647403
43. D Szinay SB Chang L Khrustaleva, et al. 2008 High-resolution chromosome mapping of BACs using multi-colour FISH and pooled-BAC FISH as a backbone for sequencing tomato chromosome 6 Plant J 56 4 627 637 10.1111/j.1365-313X.2008. 03626.x 1:CAS:528:DC%2BD1cXhsFSnsLnL 18643986
44. X Tang W Bao W Zhang Z Cheng 2007 Identification of chromosomes from multiple rice genomes using a universal molecular cytogenetic marker system J Integr Plant Biol 49 6 953 960 10.1111/j.1744-7909.2007.00508.x 1:CAS:528:DC%2BD2sXnt1Gmtb0%3D (Pubitemid 46993143)
45. X Tang D Szinay C Lang, et al. 2008 Cross-species BAC-FISH painting of the tomato and potato chromosome 6 reveals undescribed chromosomal rearrangements Genetics 180 1319 1328 10.1534/genetics.108.093211 1:CAS:528:DC%2BD1cXhsFSmu7fF 18791231
46. SD Tanksley MW Ganal JP Prince, et al. 1992 High density molecular linkage maps of the tomato and potato genomes Genetics 132 1141 1160 1:STN:280:DyaK3s%2FptlCguw%3D%3D 1360934
47. AL Tek WR Stevenson JP Helgeson J Jiang 2004 Transfer of tuber soft rot and early blight resistances from Solanum brevidens into cultivated potato Theor Appl Genet 109 249 254 10.1007/s00122-004-1638-4 1:CAS:528:DC%2BD2cXmtFWltb4%3D 15052402
48. HJ van Eck JR van der Voort J Draaistra, et al. 1995 The inheritance and chromosomal localization of AFLP markers in a non-inbred potato offspring Mol Breeding 1 397 410 10.1007/BF01248417
49. H van Os S Andrzejewski E Bakker, et al. 2006 Construction of a 10, 000-marker ultra-dense genetic recombination map of potato: providing a framework for accelerated gene isolation and a genome wide physical map Genetics 173 1075 1087 10.1534/genetics.106.055871 16582432 (Pubitemid 43945920)
50. RGF Visser R Hoekstra L Vander LP Pijnacker B Witholt WJ Feenstra 1988 In situ hybridization to somatic metaphase chromosomes of potato Theor Appl Genet 76 420 424 10.1007/BF00265343
51. Visser RGF, Bachem CWB, de Boer JM et al (2009) Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop. Am J Potato Res (in press). doi: 10.1007/s12230-009-9097-8
52. M Wagenvoort 1988 Spontaneous structural rearrangements in Solanum tuberosum L group Tuberosum II Identification at pachytene stage Euphytica 39 159 167 10.1007/BF00043379
53. M Wagenvoort GJA Rouwendal G Kuiper-Groenwold HPJ de Vries-van Hulten 1994 Chromosome identification in potato trisomics (2n∈= ∈2x∈+∈1∈=∈25) by conventional staining, Giemsa C-banding and non-radioactive in situ hybridization Cytologia 59 405 417
54. C-JR Wang L Harper WZ Cande 2006 High-resolution single-copy gene fluorescence in situ hybridization and its use in the construction of a cytogenetic map of maize chromosome 9 The Plant Cell 18 529 544 10.1105/tpc.105.037838 1:CAS:528:DC%2BD28XisFahtbw%3D 16461583 (Pubitemid 43956159)
55. Y Wang X Tang Z Cheng L Mueller J Giovannoni SD Tanksley 2006 Euchromatin and pericentromeric heterochromatin: comparative composition in the tomato genome Genetics 172 2529 2540 10.1534/genetics.106.055772 1:CAS:528: DC%2BD28XkvFOgtL8%3D 16489216
56. J Wu H Yamagata M Hayashi-Tsugane, et al. 2004 Composition and structure of the centromeric region of rice chromosome 8 The Plant Cell 16 967 976 10.1105/tpc.019273 1:CAS:528:DC%2BD2cXjt1ynsbw%3D 15037733 (Pubitemid 38459216)
57. F Wu NT Eannetta Y Xu SD Tanksley 2009 A detailed synteny map of the eggplant genome based on conserved ortholog set II (COSII) markers Theor Appl Genet 118 927 935 10.1007/s00122-008-0950-9 1:CAS:528:DC%2BD1MXis12gs7k%3D 19132336
58. H Yan W Jin K Nagaki, et al. 2005 Transcription and histone modifications in the recombination-free region spanning a rice centromere The Plant Cell 17 3227 3238 10.1105/tpc.105.037945 1:CAS:528:DC%2BD2MXhtlersL%2FK 16272428
59. BP Yeh SJ Peloquin 1965 Pachytene chromosomes of the potato (Solanum tuberosum, Group Andigena) Am J Bot 52 1014 1020 10.2307/2440131
60. Q Zhao Y Zhang Z Cheng, et al. 2002 A fine physical map of the rice chromosome 4 Genome Res 12 817 823 10.1101/gr.48902 1:CAS:528: DC%2BD38XjvFSgtLY%3D 11997348 (Pubitemid 34546469)
61. XB Zhong JH de Jong P Zabel 1996 Preparation of tomato meiotic pachytene and mitotic metaphase chromosomes suitable for fluorescence in situ hybridisation (FISH) Chromosome Res 4 24 28 10.1007/BF02254940 1:CAS:528:DyaK28XhvFClsw%3D%3D 8653264 (Pubitemid 26009589)
62. XB Zhong PF Fransz JW van Eden P Zabel A van Kammen JH de Jong 1996 High resolution mapping by fluorescence in situ hybridisation to pachytene chromosomes and extended DNA fibres Plant Mol Biol Rep 14 232 242 10.1007/BF02671658 1:CAS:528:DyaK28XmvFKitb0%3D
63. XB Zhong J Bodeau PF Fransz, et al. 1999 FISH to meiotic pachytene chromosomes of tomato locates the root knot nematode resistance gene Mi-1 and the acid phosphatase gene Aps-1 near the junction of euchromatin and pericentromeric heterochromatin of chromosome arms 6 S and 6 L, respectively Theor Appl Genet 98 365 370 10.1007/s001220051081 1:CAS:528:DyaK1MXivVCls7c%3D (Pubitemid 29172796)