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GrainGenes Reference Report: GEN-134-1249

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Reference	GEN-134-1249
Title	A genetic linkage map of Saccharum spontaneum L. 'SES 208'.
Journal	Genetics
Year	1993
Volume	134
Pages	1249-1260
Author	Al-Janabi SM Honeycutt RJ McClelland M Sobral BWS
Language	English
Abstract	The arbitrarily primed polymerase chain reaction was used to detect single-dose polymorphisms that, in turn, were used to generate a linkage map of a polyploid relative of cultivated sugarcane, Saccharum spontaneum 'SES 208' (2n = 64). The mapping population was composed of 88 progeny from a cross between SES 208 and a diploidized haploid derived from SES 208 by anther culture, ADP 85-0068. This cross allowed direct analysis of meiosis in SES 208 and gametic segregation ratios to be observed. One hundred twenty-seven 10-mer oligonucleotide primers of arbitrary sequence were selected from a pool of 420 primers used to screen the mapping parents. Three hundred thirty-six of the 420 primers amplified 4,540 loci or 13.5 loci per primer. The selected 127 primers revealed 2,160 loci of which 279 were present in SES 208 and absent in ADP 85-0068 and easily scored. Two hundred and eight (74.6%) of these 279 polymorphisms were single-dose polymorphisms (i.e., they displayed 1:1 segregation, chi-square at 98% confidence level). Linkage analysis (theta = 0.25, LOD = 9.0 for two-point analysis, then theta = 0.25, LOD = 6.0 for multipoint analysis) of single-dose polymorphisms placed them into 42 linkage groups containing at least 2 markers. These single-dose markers span 1,500 contiguous centimorgans (cM) with 32 markers remaining unlinked (15.4%). From this 208 marker map we estimated the genome size of SES 208 to be 2,550 cM. The map has a predicted coverage of 85.1% at 30 cM, meaning that any new marker placed has an 85.1% chance of being within 30 cM of an existing marker. Furthermore, we show that SES 208 behaves like an autopolyploid because (i) the ratio of single-dose markers to higher dose markers fit the assumption of autooctaploidy and (ii) the absence of repulsion phase linkages. This is the first genetic map constructed directly on a polyploid species for which no diploid relatives are known.
Locus	A1.1s [ Show all 204 ]
Polymorphism	[ Hide all but 1 of 114 ] A12 AmpliTaq C4 AmpliTaq A1 AmpliTaq C9 Stoffel C7 Stoffel C10 Stoffel A10 Stoffel A7 Stoffel A8 Stoffel A12 Stoffel A14 Stoffel A15 Stoffel C13 Stoffel A1 Stoffel A5 Stoffel D16 Stoffel D5 Stoffel E20 Stoffel E16 Stoffel D11 Stoffel E18 Stoffel F1 Stoffel F4 Stoffel F6 Stoffel F8 Stoffel F20 Stoffel G5 Stoffel G12 Stoffel G16 Stoffel G17 Stoffel A19 Stoffel H2 Stoffel B2 Stoffel B15 Stoffel H13 Stoffel H14 Stoffel H9 Stoffel H11 Stoffel J5 Stoffel I5 Stoffel I7 Stoffel I8 Stoffel I10 Stoffel I11 Stoffel I19 Stoffel J10 Stoffel J13 Stoffel J17 Stoffel B1 Stoffel B5 Stoffel B8 Stoffel B11 Stoffel B13 Stoffel B10 Stoffel K10 Stoffel K11 Stoffel K12 Stoffel K20 Stoffel L1 Stoffel L9 Stoffel L13 Stoffel B20 Stoffel H4 Stoffel O4 Stoffel L19 Stoffel L20 Stoffel M16 Stoffel M18 Stoffel N5 Stoffel N11 Stoffel N15 Stoffel M2 Stoffel N2 Stoffel N4 Stoffel N12 Stoffel M10 Stoffel M20 Stoffel G4 Stoffel N10 Stoffel O1 Stoffel E9 Stoffel N3 Stoffel K16 Stoffel J4 Stoffel O5 Stoffel O7 Stoffel O12 Stoffel O16 Stoffel O15 Stoffel O18 Stoffel P9 Stoffel P6 Stoffel P2 Stoffel P14 Stoffel Q14 Stoffel R2 Stoffel R3 Stoffel R14 Stoffel Q11 Stoffel R16 Stoffel S5 Stoffel S9 Stoffel R19 Stoffel T9 Stoffel T14 Stoffel T18 Stoffel T20 Stoffel U3 Stoffel U12 Stoffel Q15 Stoffel U14 Stoffel Q5 Stoffel Q8 Stoffel T16 Stoffel
Keyword	molecular sequence data nucleotide sequence

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