Construction of SSR-based chromosome map in bunching onion (Allium fistulosum)

Theoretical and Applied Genetics

Volumn 117, Issue 8, 2008, Pages 1213-1223

  Tsukazaki, Hikaru ^a   Yamashita, Ken Ichiro ^a   Yaguchi, Shigenori ^b   Masuzaki, Shinichi ^b,c   Fukuoka, Hiroyuki ^a   Yonemaru, Junichi ^d,e   Kanamori, Hiroyuki ^f   Kono, Izumi ^f   Hang, Tran Thi Minh ^b,g   Shigyo, Masayoshi ^b   Kojima, Akio ^a   Wako, Tadayuki ^a  

^a NATIONAL INSTITUTE OF VEGETABLE AND TEA SCIENCE   (Japan)

^b YAMAGUCHI UNIVERSITY   (Japan)

^c Forensic Science Laboratory   (Japan)

^d NATIONAL AGRICULTURAL RESEARCH CENTER FOR TOHOKU REGION   (Japan)

^e NATIONAL INSTITUTE OF AGROBIOLOGICAL SCIENCES   (Japan)

^f Institute of the Society for Techno innovation of Agriculture   (Japan)

^g VIETNAM NATIONAL UNIVERSITY OF AGRICULTURE   (Viet Nam)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOSOMES; LINGUISTICS; MAPS; PHOTOLITHOGRAPHY;

ANCHOR MARKERS; BULB ONIONS; LINKAGE GROUPS; LINKAGE MAPS; SSR MARKERS;

SEMICONDUCTOR RELAYS;

PLANT DNA;

ARTICLE; CHROMOSOME MAP; DNA SEQUENCE; GARLIC; GENETICS; INDEL MUTATION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PLANT CHROMOSOME; SEQUENCE ALIGNMENT; SINGLE NUCLEOTIDE POLYMORPHISM; VARIABLE NUMBER OF TANDEM REPEAT;

ALLIUM; BASE SEQUENCE; CHROMOSOME MAPPING; CHROMOSOMES, PLANT; DNA, PLANT; INDEL MUTATION; MINISATELLITE REPEATS; MOLECULAR SEQUENCE DATA; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA;

ALLIUM; ALLIUM CEPA; ALLIUM FISTULOSUM; ALLIUM SATIVUM;

EID: 55149103947     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-008-0849-5     Document Type: Article

References (28)

1. D Fischer K Bachmann 2000 Onion microsatellites for germplasm analysis and their use in assessing intra- and interspecific relatedness within the subgenus Rhizirideum Theor Appl Genet 101 153 164
2. Ford-Lloyd BV, Armstrong SJ (1993) Welsh onion Allium fistulosum L. In: Kalloo G, Bergh BO (eds) Genetic improvement of vegetable crops, Pergamon Press, pp 51-58
3. Fritsch RM, Friesen N (2002) Evolution, domestication and taxonomy. In: Rabinowitch HD, Currah L (eds) Allium crop science: Recent advances, CABI Publishing, pp 5-30
4. H Fukuoka T Nunome Y Minamiyama I Kono N Namiki A Kojima 2005 read2Marker: a data processing tool for microsatellite marker development from a large data set BioTechniques 39 472 476
5. AF Gökçe J McCallum Y Sato MJ Havey 2002 Molecular tagging of the Ms locus in onion J Amer Soc Hort Sci 127 576 582
6. TTM Hang M Shigyo N Yamauchi Y Tashiro 2004 Production and characterization of alien chromosome additions in shallot (Allium cepa L. Aggregatum group) carrying extra chromosome(s) of Japanese bunching onion (A. fistulosum L.) Genes Genet Syst 79 263 269
7. CJ Jones KJ Edwards S Castaglione MO Winfield F Sala C van de Wiel G Bredemeijer B Vosman M Matthes A Daly R Brettschneider P Bettini M Buiatti E Maestri A Malcevschi N Marmiroli R Aert G Volckaert J Rueda R Linacero A Vazquez A Karp 1997 Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories Mol Breed 3 381 390
8. JJ King JM Bradeen O Bark JA McCallum MJ Havey 1998 A low-density map of onion reveals a role for tandem duplication in the evolution of an extremely large diploid genome Theor Appl Genet 96 52 62
9. D Kosambi 1944 The estimation of map distance from recombination values Ann Eugen 12 172 175
10. JC Kuhl F Cheung Q Yuan W Martin Y Zewdie J MaCallum A Catanach P Rutherford KC Sink M Jenderk JP Prince CD Town MJ Havey 2004 A unique set of 11,008 onion expressed sequence tags reveals expressed sequence and genomic differences between the monocot orders Asparagales and Poales Plant Cell 16 114 125
11. Kumazawa S, Katsumata H (1965) Negi (Japanese bunching onion). In: Kumazawa S (ed) Sosai-engei kakuron (vegetable crops), Yokendo Press, Tokyo, pp 280-289 (in Japanese)
12. E Lander P Green J Abrahamson A Barlow M Daly S Lincoln L Newburg 1987 MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations Genomics 1 174 181
13. MAFF (2005) Nousanbutsu-Sanshutsugaku no Jun-I (The ranking of vegetables for annual output in Japan). In: Pocket nourinsuisan toukei, 2005 (in Japanese). http://www.tdb.maff.go.jp/toukei/toukei
14. WJ Martin J McCallum M Shigyo J Jakše JC Kuhl N Yamane M Pither-Joyce AF Gökçe KC Sink CD Town MJ Havey 2005 Genetic mapping of expressed sequences in onion and in silico comparisons with rice show scant colinearity Mol Gen Genomics 274 197 204
15. S Masuzaki N Araki N Yamane N Yamauchi T Wako A Kojima M Shigyo 2006 Chromosomal locations of microsatellites in onion Hort Sci 41 315 318
16. J McCallum D Leite M Pither-Joyce MJ Havey 2001 Expressed sequence markers for genetic analysis of bulb onion (Allium cepa L.) Theor Appl Genet 103 979 991
17. MM Neff E Turk M Kalishman 2002 Web-based primer design for single nucleotide polymorphism analysis Trends Genet 18 613 615
18. T Ohara YS Song H Tsukazaki T Wako T Nunome A Kojima 2005 Construction of a genetic linkage map of Japanese bunching onion (Allium fistulosum) based on AFLP and SSR markers Euphytica 144 255 263
19. EB Peffley 1986 Evidence for chromosomal differentiation of Allium fistulosum and A cepa. J Amer Soc Hort Sci 111 126 129
20. A Ricroch R Yockteng SC Brown S Nadot 2005 Evolution of genome size across some cultivated Allium species Genome 48 511 520
21. Rozen S, Skaletsky HJ (2000) Primer 3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana Press, Totowa, pp 365-386
22. M Shigyo Y Tashiro S Issiki S Miyazaki 1996 Establishments of a series of alien monosomic addition lines of Japanese bunching onion (Allium fistulosum L.) with extra chromosomes from shallot (A. cepa L. Aggregatum group) Genes Genet Syst 71 363 371
23. YS Song K Suwabe T Wako T Ohara T Nunome A Kojima 2004 Development of microsatellite markers in Japanese bunching onion (Allium fistulosum L.) Breed Sci 54 361 365
24. 1 varieties of bunching onion (Allium fistulosum) and the proposal of a breeding scheme for conferring genetic traceability using SSR markers Breed Sci 56 321 326
25. H Tsukazaki T Nunome H Fukuoka H Kanamori I Kono K Yamashita T Wako A Kojima 2007 Isolation of 1,796 SSR clones from SSR-enriched DNA libraries of bunching onion (Allium fistulosum) Euphytica 157 83 94
26. Wako T, Ohara T, Song YS, Kojima A (2002a) Development of SSR markers in bunching onion. Breed Sci 4(suppl 1):83 (in Japanese)
27. Wako T, Shigyo M, Tashiro Y, Kataoka S, Ohara T, Kojima A (2002b) Development of chromosome-specific CAPS markers in shallot. J Jpn Soc Hort Sci 71(suppl 1):348 (in Japanese)
28. Yaguchi S, Hang TTM, Tsukazaki H, Vu QH, Masuzaki S, Wako T, Masamura N, Onodera S, Shiomi N, Yamauchi N, Shigyo M (2008) Molecular and biochemical identification of alien chromosome additions in shallot (Allium cepa L. Aggregatum group) carrying extra chromosome(s) of bunching onion (A. fistulosum L.). Genes Genet Syst (submitted)