XPEHH/UGS.CMS/2/3

This page describes a signal of selection found in the Uganda An. gambiae population when compared with the Cameroon An. gambiae population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 2L between positions 34,134,895 and 34,234,895. The evidence supporting this signal is strong (\Delta_{i} >= 100 on both flanks).

Signal location. Blue markers show the values of the selection statistic. The dashed black line shows the fitted peak model. The shaded red area shows the focus of the selection signal. The shaded blue area shows the genomic region in linkage with the selection event. Use the mouse wheel or the controls at the top right of the plot to zoom in, and hover over genes to see gene names and descriptions.

Genes

The following 21 genes overlap the focal region: AGAP006559, AGAP006560, AGAP006561, AGAP006562, AGAP006563, AGAP006564, AGAP028429, AGAP006566, AGAP028428, AGAP006567, AGAP006568, AGAP006569 (acetyl-CoA synthetase), AGAP006570 (myo-inositol-1(or 4)-monophosphatase), AGAP006571 (nuclear receptor subfamily 1 group D member 3), AGAP0065721 (ubiquinone biosynthesis protein COQ7 homolog), AGAP006573 (integrin-linked kinase), AGAP006574, AGAP006575 (multifunctional methyltransferase subunit TRM112), AGAP0065761 (malate/L-lactate dehydrogenase), AGAP006577, AGAP006578.

The following 29 genes are within 50 kbp of the focal region: AGAP006543, AGAP028608, AGAP006546, AGAP006547, AGAP006548 (glycine cleavage system H protein), AGAP006549, AGAP006550, AGAP006551, AGAP006552, AGAP006553, AGAP006554, AGAP006555, AGAP006556, AGAP006557, AGAP006558, AGAP006579, AGAP006580 (parkin), AGAP006581 (Cysteine-rich venom protein), AGAP006582 (Cysteine-rich venom protein), AGAP006583 (Cysteine-rich venom protein), AGAP028458, AGAP006584 (Cysteine-rich venom protein), AGAP028459, AGAP006585 (Cysteine-rich venom protein), AGAP006586, AGAP006587 (Cysteine-rich venom protein), AGAP006588, AGAP028666, AGAP028665.

Key to insecticide resistance candidate gene types: 1 metabolic; 2 target-site; 3 behavioural; 4 cuticular.

Overlapping selection signals

The following selection signals have a focus which overlaps with the focus of this signal.

Signal Statistic Population Focus Peak model \Delta_{i} Max. percentile Known locus
H12/UGS/2/3 H12 Uganda An. gambiae 2L:34,074,895-34,134,895 1,193 98.1% nan
IHS/UGS/2/2 IHS Uganda An. gambiae 2L:33,934,895-34,194,895 860 100.0% nan
XPEHH/UGS.BFS/2/2 XPEHH Uganda An. gambiae 2L:34,134,895-34,234,895 487 98.3% nan
XPEHH/UGS.GWA/2/2 XPEHH Uganda An. gambiae 2L:34,114,895-34,214,895 422 95.2% nan

Diagnostics

The information below provides some diagnostics from the Peak modelling algorithm.

Selection signal in context. @@TODO

Peak targetting. @@TODO

Peak fitting diagnostics. @@TODO

Model fit reports

Peak model:

[[Model]]
    Model(skewed_gaussian)
[[Fit Statistics]]
    # function evals   = 43
    # data points      = 137
    # variables        = 4
    chi-square         = 38.973
    reduced chi-square = 0.293
    Akaike info crit   = -164.223
    Bayesian info crit = -152.543
[[Variables]]
    center:      0 (fixed)
    amplitude:   5.31718365 +/- 0.132409 (2.49%) (init= 3)
    sigma:       0.41104168 +/- 0.013612 (3.31%) (init= 0.5)
    skew:        0.64276701 +/- 0.029891 (4.65%) (init= 0)
    baseline:    0.86616528 +/- 0.098579 (11.38%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(sigma, baseline)           = -0.668
    C(amplitude, baseline)       = -0.598
    C(sigma, skew)               = -0.285

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 136
    # variables        = 1
    chi-square         = 495.353
    reduced chi-square = 3.669
    Akaike info crit   = 177.796
    Bayesian info crit = 180.708
[[Variables]]
    c:   3.02694147 +/- 0.164248 (5.43%) (init= 1)

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