XPEHH/AOM.GWA/2/6

This page describes a signal of selection found in the Angola An. coluzzii population when compared with the Guinea Bissau population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 2L between positions 25,254,895 and 25,414,895. The evidence supporting this signal is weak (\Delta_{i} < 50 on one or both flanks).

This signal overlaps the Rdl locus, a genome region with prior evidence of an association with insecticide resistance and/or recent positive selection in Anopheles mosquitoes.

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 2 genes overlap the focal region: AGAP0060272 (glutamate receptor, ionotropic , AMPA), AGAP0060282 (Rdl - GABA-gated chloride channel subunit).

The following 4 genes are within 50 kbp of the focal region: AGAP006029, AGAP006030 (mfrn - mitoferrin), AGAP006031 (nuclear pore complex protein Nup54), AGAP006032.

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/AOM/2/3 H12 Angola An. coluzzii 2L:25,214,895-25,334,895 398 95.7% Rdl
IHS/BFM/2/3 IHS Burkina Faso An. coluzzii 2L:24,754,895-25,434,895 304 99.9% Rdl
XPEHH/CMS.UGS/2/2 XPEHH Cameroon An. gambiae 2L:25,414,895-25,454,895 291 90.3% Rdl

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_exponential_peak)
[[Fit Statistics]]
    # function evals   = 60
    # data points      = 142
    # variables        = 4
    chi-square         = 16.603
    reduced chi-square = 0.120
    Akaike info crit   = -296.762
    Bayesian info crit = -284.939
[[Variables]]
    center:      0 (fixed)
    amplitude:   1.23747441 +/- 0.112154 (9.06%) (init= 3)
    decay:       0.95216575 +/- 0.210834 (22.14%) (init= 0.5)
    skew:       -1          +/- 6.04e-06 (0.00%) (init= 0)
    baseline:    1.27441424 +/- 0.051260 (4.02%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(decay, baseline)           = -0.589
    C(decay, skew)               = -0.457
    C(amplitude, decay)          = -0.380
    C(amplitude, baseline)       = -0.192

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 141
    # variables        = 1
    chi-square         = 32.686
    reduced chi-square = 0.233
    Akaike info crit   = -204.117
    Bayesian info crit = -201.168
[[Variables]]
    c:   1.59693008 +/- 0.040691 (2.55%) (init= 1)

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