Table 2

Expected and simulated tetrasomic recombination frequencies with chiasma interference according to the Kosambi map function
a. Two bivalents; expected recombination frequencies according to Kosambi map function
Chrom. length 50 cM 100 cM 200 cM 400 cM
Interval (cM) Expected recomb. Top Center Bottom Top Center Bottom Top Center Bottom Top Center Bottom
1 0.0100 0.0100 0.0100 0.0100 0.0099 0.0100 0.0099 0.0101 0.0100 0.0100 0.0100 0.0101 0.0100
2 0.0200 0.0199 0.0199 0.0198 0.0200 0.0198* 0.0199 0.0201 0.0200 0.0200 0.0200 0.0201 0.0200
5 0.0498 0.0497 0.0501 0.0496 0.0500 0.0496 0.0497 0.0498 0.0499 0.0500 0.0498 0.0499 0.0500
10 0.0987 0.0988 0.0988 0.0986 0.0993* 0.0989 0.0989 0.0990 0.0991 0.0990 0.0990 0.0988 0.0991
20 0.1900 0.1905* 0.1907** 0.1906* 0.1910** 0.1904 0.1904 0.1907** 0.1907* 0.1906* 0.1908** 0.1906* 0.1909**
50 0.3808 0.3801* 0.3809 0.3807 0.3808 0.3808 0.3806 0.3805 0.3811 0.3803 0.3809
100 0.4820 0.4829* 0.4833** 0.4833*** 0.4826 0.4824 0.4825 0.4831**
200 0.4997 0.5000 0.5002 0.5000 0.4995
400 0.5000 0.4997
b. Cross-type quadrivalents; expected recombination frequencies derived from Sved (1964) formula 3 applied to diploid recombination according to Kosambi
Chrom. length 50 cM 100 cM 200 cM 400 cM
Interval (cM) Expected recomb.1,2 Top Center Bottom Top Center Bottom Top Center Bottom Top Center Bottom
1 0.0100 0.0094*** 0.0091*** 0.0092*** 0.0096*** 0.0093*** 0.0096*** 0.0100 0.0094*** 0.0099 0.0100 0.0095*** 0.0099
2 0.0201 0.0186*** 0.0182*** 0.0184*** 0.0191*** 0.0185*** 0.0193*** 0.0199 0.0188*** 0.0200 0.0200 0.0192*** 0.0199
5 0.0503 0.0460*** 0.0453*** 0.0460*** 0.0480*** 0.0461*** 0.0479*** 0.0494*** 0.0470*** 0.0496*** 0.0497** 0.0478*** 0.0496***
10 0.1005 0.0913*** 0.0902*** 0.0912*** 0.0951*** 0.0916*** 0.0950*** 0.0982*** 0.0935*** 0.0984*** 0.0987*** 0.0949*** 0.0987***
20 0.1975 0.1764*** 0.1751*** 0.1761*** 0.1833*** 0.1776*** 0.1829*** 0.1892*** 0.1815*** 0.1894*** 0.1909*** 0.1837*** 0.1905***
50 0.4248 0.3736*** 0.3794*** 0.3782*** 0.3790*** 0.3825*** 0.3800*** 0.3824*** 0.3806*** 0.3798*** 0.3813***
100 0.5960 0.5668*** 0.5303*** 0.5504*** 0.5308*** 0.4881*** 0.5326*** 0.4888***
200 0.6815 0.7062*** 0.5798*** 0.6647*** 0.5798***
400 0.7173 0.7480***
c. Parallel quadrivalents; expected recombination frequencies derived from Sved (1964) formula 2 applied to diploid recombination according to Kosambi
Chrom. length 50 cM 100 cM 200 cM 400 cM
Interval (cM) Expected recomb.2 Top Center Bottom Top Center Bottom Top Center Bottom Top Center Bottom
1 0.0100 0.0099 0.0101 0.0100 0.0099 0.0100 0.0100 0.0101 0.0101 0.0099 0.0102 0.0101 0.0100
2 0.0201 0.0200 0.0199* 0.0200 0.0200 0.0200 0.0201 0.0201 0.0201 0.0200 0.0201 0.0200 0.0200
5 0.0507 0.0497*** 0.0500*** 0.0497*** 0.0501*** 0.0498*** 0.0499*** 0.0499*** 0.0501*** 0.0496*** 0.0498*** 0.0501*** 0.0501***
10 0.1023 0.0983*** 0.0986*** 0.0982*** 0.0988*** 0.0983*** 0.0986*** 0.0984*** 0.0988*** 0.0984*** 0.0981*** 0.0984*** 0.0987***
50 0.4616 0.3918*** 0.3923*** 0.3921*** 0.3920*** 0.3918*** 0.3921*** 0.3914*** 0.3916*** 0.3915*** 0.3925***
100 0.6683 0.5814*** 0.5804*** 0.5807*** 0.5806*** 0.5808*** 0.5811*** 0.5814***
200 0.7443 0.7128*** 0.7127*** 0.7124*** 0.7120***
400 0.7500 0.7479***

*, **, ***: Deviation from expected recombination frequency significant at P < 0.05, P < 0.01 or P < 0.001.

1: For cross-type quadrivalents the formula of Sved (1964) assumes a uniform distribution of the chromosome exchange point, whereas our simulations produce a unimodal distribution.

2: The formulas of Sved (1964) assume no chiasma interference. They express the tetrasomic recombination frequencies as a function of the corresponding disomic recombination on the same interval. Here we use the disomic recombination according to Kosambi map function as input in these formula's.

Voorrips and Maliepaard

Voorrips and Maliepaard BMC Bioinformatics 2012 13:248   doi:10.1186/1471-2105-13-248

Open Data