Construction of a high-resolution linkage map of Rfd1, a restorer-of-fertility locus for cytoplasmic male sterility conferred by DCGMS cytoplasm in radish (Raphanus sativus L.) using synteny between radish and Arabidopsis genomes

Theoretical and Applied Genetics

Volumn 125, Issue 3, 2012, Pages 467-477

  Cho, Youngcho ^a   Lee, Young Pyo ^b   Park, Beom Seok ^c   Han, Tae Ho ^a   Kim, Sunggil ^a  

^a Chonnam National University   (South Korea)

^b Dongbu Hannong Co Ltd   (South Korea)

^c National Academy of Agricultural Science   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMARKERS; CELL PROLIFERATION; CYTOLOGY; DNA SEQUENCES; PLANTS (BOTANY); POLYMORPHISM;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM MARKERS; BULKED SEGREGANT ANALYSIS; CLEAVED AMPLIFIED POLYMORPHIC SEQUENCES; CYTOPLASMIC MALE STERILITY; EXPRESSED SEQUENCE TAGS; LENGTH POLYMORPHISM; SIMPLE SEQUENCE REPEATS; SINGLE-NUCLEOTIDE POLYMORPHISM MARKERS;

GENES;

ARABIDOPSIS; RAPHANUS SATIVUS;

EID: 84866901057     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-012-1846-2     Document Type: Article

References (61)

1. Abdelnoor RV, Christensen AC, Mohammed S, Munoz-Castillo B, Moriyama H, Mackenzie SA (2006) Mitochondrial genome dynamics in plants and animals: convergent gene fusions of a MutS homologue. J Mol Evol 63: 165-173.
2. Allen JO, Fauron CM, Mink P, Roark L, Oddiraju S, Lin GN, Meyer L, Sun H, Kim K, Wang C, Du F, Xu D, Gibson M, Cifrese J, Clifton SW, Newton KJ (2007) Comparisons among two fertile and three male-sterile mitochondrial genomes of maize. Genetics 177: 1173-1192.
3. Backert S, Neilsen BL, Börner T (1997) The mystery of the rings: structure and replication of mitochondrial genomes from higher plants. Trend Plant Sci 2: 477-483.
4. Bailey CD, Koch MA, Mayer M, Mummenhoff K, O'Kane SL Jr, Warwick SI, Windham MD, Al-Shehbaz IA (2006) Toward a global phylogeny of the Brassicaceae. Mol Biol Evol 23: 2142-2160.
5. Bannerot H, Loulidard L, Cauderon MY, Tempe J (1974) Transfer of cytoplasmic male sterility from Raphanus sativus to Brassica oleracea. Proc Eucarpia Meeting Cruciferae. pp 52-54.
6. Bellaoui M, Martin-Canadell A, Pelletier G, Budar F (1998) Low-copy-number molecules are produced by recombination, actively maintained and can be amplified in the mitochondrial genome of Brassicaceae: relationship to reversion of the male sterile phenotype in some cybrids. Mol Gen Genet 257: 177-185.
7. Bentolila S, Alfonso AA, Hanson MR (2002) A pentatricopeptide repeat-containing gene restores fertility to cytoplasmic male-sterile plants. Proc Natl Acad Sci 99: 10887-10892.
8. Bett KE, Lydiate DJ (2003) Genetic analysis and genome mapping in Raphanus. Genome 46: 423-430.
9. Bonhomme S, Budar F, Ferault M, Pelletier G (1991) A 2. 5 kb Nco I fragment of Ogura radish mitochondrial DNA is correlated with cytoplasmic male-sterility in Brassica cybrids. Curr Genet 19: 121-127.
10. Brown GG, Formanova N, Jin H, Wargachuk R, Dendy C, Patil P, Laforest M, Zhang J, Cheung WY, Landry BS (2003) The radish Rfo restorer gene of Ogura cytoplasmic male sterility encodes a protein with multiple pentatricopeptide repeats. Plant J 35: 262-272.
11. Budahn H, Peterka H, Mousa MAA, Ding Y, Zhang S, Li J (2009) Molecular mapping in oil radish (Raphanus sativus L.) and QTL analysis of resistance against beet cyst nematode (Heterodera schachtii). Theor Appl Genet 118: 775-782.
12. Budar F, Touzet P, de Paepe R (2003) The nucleo-mitochondrial conflict in cytoplasmic male sterilities revised. Genetica 117: 3-16.
13. Cui X, Wise RP, Schnable PS (1996) The rf2 nuclear restorer gene of male-sterile T-cytoplasm maize. Science 272: 1334-1336.
14. Desloire S, Gherbi H, Laloui W, Marhadour S, Clouet V, Cattolico L, Falentin C, Giancola S, Renard M, Budar F, Small I, Caboche M, Delourme R, Bendahmane A (2003) Identification of the fertility restoration locus, Rfo, in radish, as a member of the pentatricopeptide-repeat protein family. EMBO Rep 4: 588-594.
15. Dickson MH (1985) Male sterile persistent white curd cauliflower NY 7642A and its maintainer NY 7642B. HortScience 20: 957.
16. Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem Bull 19: 11-15.
17. Fujii S, Toriyama K (2009) Suppressed expression of RETROGRADE-REGULATED MALE STERILITY restores pollen fertility in cytoplasmic male sterile rice plants. Proc Natl Acad Sci 106: 9513-9518.
18. Fujii S, Bond CS, Small ID (2011) Selection patterns on restorer-like genes reveal a conflict between nuclear and mitochondrial genomes throughout angiosperm evolution. Proc Natl Acad Sci 108: 1723-1728.
19. Gillman JD, Bentolila S, Hanson M (2007) The petunia restorer of fertility protein is part of a large mitochondrial complex that interacts with transcripts of the CMS-associated locus. Plant J 49: 217-227.
20. Grelon M, Budar F, Bonhomme S, Pelletier G (1994) Ogura cytoplasmic male-sterility (CMS)-associated orf138 is translated into a mitochondrial membrane polypeptide in male-sterile Brassica cybrids. Mol Gen Genet 243: 540-547.
21. Hanson MR (1991) Plant mitochondrial mutations and male sterility. Annu Rev Genet 25: 461-486.
22. Hanson MR, Bentolila S (2004) Interactions of mitochondrial and nuclear genes that affect male gametophyte development. Plant Cell 16: 154-169.
23. Itabashi E, Iwata N, Fujii S, Kazama T, Toriyama K (2011) The fertility restorer gene, Rf2, for Lead Rice-type cytoplasmic male sterility of rice encodes a mitochondrial glycine-rice protein. Plant J 65: 359-367.
24. Janska H, Sarria R, Woloszynska M, Arrieta-Montiel M, Mackenzie SA (1998) Stoichiometric shifts in the common bean mitochondrial genome leading to male sterility and spontaneous reversion to fertility. Plant Cell 10: 1163-1180.
25. Jarl CI, van Grinsven M, van den Mark F (1989) Correction of chlorophyll-defective male-sterile winter oilseed rape (Brassica napus) through organelle exchange: molecular analysis of the cytoplasm of parental lines and corrected progeny. Theor Appl Genet 77: 135-141.
26. Johnston JS, Pepper AE, Hall AE, Chen ZJ, Hodnett G, Drabek J, Lopez R, Price HJ (2005) Evolution of genome size in Brassicaceae. Ann Bot 95: 229-235.
27. Kamei A, Tsuro M, Kubo N, Hayashi T, Wang N, Fujimura T, Hirai M (2010) QTL mapping of clubroot resistance in radish (Raphanus sativus L.). Theor Appl Genet 120: 1021-1027.
28. Kim S, Lim H, Park S, Cho K, Sung S, Oh D, Kim K (2007) Identification of a novel mitochondrial genome type and development of molecular makers for cytoplasm classification in radish (Raphanus sativus L.). Theor Appl Genet 115: 1137-1145.
29. Kim S, Lee Y, Lim H, Ahn Y, Sung S (2009) Identification of highly variable chloroplast sequences and development of cpDNA-based molecular markers that distinguish four cytoplasm types in radish (Raphanus sativus L.). Theor Appl Genet 119: 189-198.
30. Kim K, Lee Y, Lim H, Han T, Sung S, Kim S (2010) Identification of Rfd1, a novel restorer-of-fertility locus for cytoplasmic male-sterility caused by DCGMS cytoplasm and development of simple PCR markers linked to the Rfd1 locus in radish (Raphanus sativus L.). Euphytica 175: 79-90.
31. Klein RR, Klein PE, Mullet JE, Minx P, Rooney WL, Schertz KF (2005) Fertility restorer locus Rf1 of sorghum (Sorghum bicolor L.) encodes a pentatricopeptide repeat protein not present in the collinear region of rice chromosome 12. Theor Appl Genet 111: 994-1012.
32. Kmiec B, Woloszynska M, Janska H (2006) Heteroplasmy as a common state of mitochondrial genetic information in plants and animals. Curr Genet 50: 149-159.
33. Knoop V (2004) The mitochondrial DNA of land plants: peculiarities in phylogenetic perspective. Curr Genet 46: 123-139.
34. Koizuka N, Imai R, Fujimoto H, Hayakawa T, Kimura Y, Kohno-Murase J, Sakai T, Kawasaki S, Imamura J (2003) Genetic characterization of a pentatricopeptide repeat protein gene, orf687, that restores fertility in the cytoplasmic male-sterile Kosena radish. Plant J 34: 407-415.
35. Komori T, Ohta S, Murai N, Takakura Y, Kuraya Y, Suzuki S, Hiei Y, Imaseki H, Nitta N (2004) Map-based cloning of a fertility restorer gene, Rf-1, in rice (Oryza sativa L.). Plant J 37: 315-325.
36. Kosambi DD (1944) The estimation of map distance from recombination values. Ann Eugen 12: 172-175.
37. Kubo T, Newton KJ (2008) Angiosperm mitochondrial genomes and mutations. Mitochondrion 8: 5-14.
38. Lagercrantz U (1998) Comparative mapping between Arabidopsis thaliana and Brassica nigra indicates that Brassica genomes have evolved through extensive genome replication accompanied by chromosome fusions and frequent rearrangements. Genetics 150: 1217-1228.
39. Lee Y, Park S, Lim C, Kim H, Lim H, Ahn Y, Sung S, Yoon M, Kim S (2008) Discovery of a novel cytoplasmic male-sterility and its restorer lines in radish (Raphanus sativus L.). Theor Appl Genet 117: 905-913.
40. Lee Y, Kim S, Lim H, Ahn Y, Sung S (2009) Identification of mitochondrial genome rearrangements unique to novel cytoplasmic male sterility in radish (Raphanus sativus L.). Theor Appl Genet 118: 718-728.
41. Menczel L, Morgan A, Brown S, Maliga P (1987) Fusion-mediated combination of Ogura-type cytoplasmic male sterility with Brassica napus plastids using X-irradiated CMS protoplasts. Plant Cell Rep 6: 98-101.
42. Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations. Proc Natl Acad Sci 88: 9828-9832.
43. Ogura H (1968) Studies on the new male sterility in Japanese radish, with special reference to the utilization of this sterility towards the practical raising of hybrid seeds. Mem Fac Agr Kagoshima Univ 6: 39-78.
44. Oldenburg DJ, Bendich AJ (2001) Mitochondrial DNA from the Liverwort Marchantia polymorpha: circularly permuted linear molecules, head-to-tail concatemers, and a 5′ protein. J Mol Biol 310: 549-562.
45. Palmer JD (1988) Intraspecific variation and multicircularity in Brassica mitochondrial DNAs. Genetics 118: 341-351.
46. Pelletier G, Primard C, Vedel F, Chetrit P, Remy R, Rousselle P, Renard M (1983) Intergeneric cytoplasmic hybridization in Cruciferae by protoplast fusion. Mol Gen Genet 191: 244-250.
47. Sakai T, Imamura J (1993) Evidence for a mitochondrial sub-genome containing radish AtpA in a Brassica napus cybrid. Plant Sci 90: 95-103.
48. Shedge V, Arrieta-Montiel M, Christensen AC, Mackenzie SA (2007) Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs. Plant Cell 19: 1251-1264.
49. Shirasawa K, Oyama M, Hirakawa H, Sato S, Tabata S, Fujioka T, Kimizuka-Takagi C, Sasamoto S, Watanabe A, Kato M, Kishida Y, Kohara M, Takahashi C, Tsuruoka H, Wada T, Sakai T, Isobe S (2011) An EST-SSR linkage map of Raphanus sativus and comparative genomics of the Brassicaceae. DNA Res 18: 221-232.
50. Small I, Suffolk R, Leaver CJ (1989) Evolution of plant mitochondrial genomes via substoichiometric intermediates. Cell 58: 69-76.
51. Song KM, Osborn TC, Williams PH (1990) Brassica taxonomy based on nuclear restriction fragment length polymorphisms (RFLPs) 3. Genome relationships in Brassica and related genera and the origin of B. oleracea and B. rapa (syn. campestris). Theor Appl Genet 79: 497-506.
52. Stam P (1993) Construction of integrated genetic linkage maps by means of a new computer package: JoinMap. Plant J 3: 739-744.
53. The Brassica rapa genome sequencing project consortium (2011) The genome of the mesopolyploid crop species Brassica rapa. Nat Genet 43: 1035-1039.
54. Thormann CE, Ferreira ME, Camargo LEA, Tivang JG, Osborn TC (1994) Comaprison of RFLP and RAPD markers to estimating genetic relationships within and among cruciferous species. Theor Appl Genet 88: 973-980.
55. Tsuro M, Suwabe K, Kubo N, Matsumoto S, Hirai M (2008) Mapping of QTLs controlling root shape and red pigmentation in radish, Raphanus sativus L. Breed Sci 58: 55-61.
56. Vos P, Hogers R, Bleeker M, Reijans M, van Der Lee T, Hornes M, Friiters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23: 4407-4414.
57. Wang Z, Zou Y, Li X, Zhang Q, Chen L, Wu H, Su D, Chen Y, Guo J, Luo D, Long Y, Zhong Y, Liu Y (2006) Cytoplasmic male sterility of rice with Boro II cytoplasm is caused by a cytotoxic peptide and is restored by two related PPR motif genes via distinct modes of mRNA silencing. Plant Cell 18: 676-687.
58. Warwick SI, Black LD (1997) Phylogenetic implications of chloroplast DNA restriction site variation in subtribes Raphninae and Cakilinae (Brassicaceae, tribe Brassiceae). Can J Bot 75: 960-973.
59. Yang Y, Lai K, Tai P, Ma D, Li W (1999) Molecular phylogenetic studies of Brassica, Rorippa, Arabidopsis and allied genera based on the internal transcribed spacer region of 18S-25S rDNA. Mol Phylogenet Evol 13: 455-462.
60. Yang Y, Tai P, Chen Y, Li W (2002) A study of the phylogeny of Brassica rapa, B. nigra, Raphanus sativus, and their related genera using noncoding regions of chloroplast DNA. Mol Phylogenet Evol 23: 268-275.
61. Zaegel V, Guermann B, Le Ret M, Andrés C, Meyer D, Erhardt M, Canaday J, Gualberto JM, Imbault P (2006) The plant-specific ssDNA binding protein OSB1 is involved in the stoichiometric transmission of mitochondrial DNA in Arabidopsis. Plant Cell 18: 3548-3563.