TABLE 2

Patterns of variability and local rates of crossing over for 29 loci in African populations of D. melanogaster

Gene regionnSaIndelsbNo. of
silent
sitesc
π (%)r
(cM/Mb)
Tajima’s
D
Fu and
Li’s D*
Reference
or GenBank
accession nos.
X chromosome
    Yellow (y)
13105180.030.04-1.15-1.37This study
    suppressor of sable [su(s)]5046732130.200.07-1.25-1.78Langley et al.
    (2000)
    suppressor of white-apricot
        [su(wa)]
50501119550.420.17-0.92-2.02Langley et al.
    (2000)
    SNF1A13915270.650.240.730.51This study
    broad (br)13925720.290.27-1.71-1.72This study
    Armadillo (arm)13315700.330.36-1.65-2.03This study
    Actinin (Actn)13725460.330.43-0.78-1.40This study
    Phospogluconate-dehydrogenase
        (Pgd)
131425400.580.47-1.27-1.56This study
    Vinculin (Vinc)131115450.670.500.14-0.06This study
    Zeste (z)132415811.110.63-0.73-0.49This study
    Period (per)131915790.750.67-1.23-1.25This study
    White (w)13703930.310.69-1.77-1.95This study
    Vermilion (v)1179213812.012.270.140.31Begun and
    Aquadro
    (1995)
    Glucose-6-phosphate
        dehydrogenase (Zw)
123214902.101.36-0.140.08U42765-67
U42738-49
U44721
    Runt (run)73307921.641.36-0.220.08AF077074-80
Chromosome 2
    Acp26Aab101005260.722.350.330.34AF053250-57
AF053270-71
    Acp29AB1352211831.462.350.150.01AJ240539-51
    Fat-body protein 2 (Fbp2)1067615301.692.350.440.89AF045787-96
    In(2L)t-34A breakpoint72236841.191.45-0.53-0.39AF217947-49
AF275826-29
    Vacuolar H+-ATPase 68
        (Vha68)
20904740.301.41-1.52-1.20Depaulis et al. (2000)
    Alcohol dehydrogenase (Adh)1033214340.691.19-0.76-0.75S.-C. Tsaur
    (unpublished
    results)
    Suppressor of Hairless [Su(H)]204778032.161.161.241.22AF088255-74
Chromosome 3
    Roughened (R)4301271.321.850.170.17Gasperini and
    Gibson (1999)
    Ras oncogene at 64B (Dras2)41303871.851.850.110.11Gasperini and
    Gibson (1999)
    Glucose dehydrogenase (Gld)10103850.050.15-1.11-1.24Hamblin and
    Aquadro
    (1997)
    Relish (Rel)61108410.490.28-0.86-0.91AF204284-89
    Ras oncogene at 85D (Dras1)47114060.250.33-0.81-0.82Gasperini and
    Gibson (1999)
    Triose-phosphate isomerase
        (Tpi)
52305052.061.04-0.43-0.43U60837, -39, -49,
    -59-60
    Cecropin-C (CecC)5911992.381.040.710.46AF019014-18
  • For each locus, we list the sample size (n), the number of segregating mutations (S), the number of insertion-deletion mutations, the number of silent sites, the average pairwise difference at silent sites (π%, Tajima 1989c), the sex-averaged rate of crossing over in centimorgans per million bases per generation (r), the value of Tajima’s D (Tajima 1989c), and the value of Fu and Li’s D* (Fu and Li 1993).

  • a Including single nucleotide substitutions and two-state insertion-deletion polymorphisms.

  • b Number of two-state insertion-deletion polymorphisms.

  • c Including 5′ or 3′ untranslated, intron, and synonymous sites.