XPEHH/CMS.GAS/2/3

This page describes a signal of selection found in the Cameroon An. gambiae population when compared with the Gabon An. gambiae population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 28,560,000 and 28,800,000. The evidence supporting this signal is moderate (\Delta_{i} >= 50 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 12 genes overlap the focal region: AGAP002875 (protein HEXIM1/2), AGAP013244 (adenosine deaminase, tRNA-specific 2, TAD2 homolog), AGAP002876 (single-strand selective monofunctional uracil DNA glycosylase), AGAP002877 (Tetratricopeptide repeat protein 30 homolog), AGAP002878 (Cystatin-like protein), AGAP002879 (cathepsin F), AGAP002880 (COP9 signalosome complex subunit 5), AGAP002881 (GPRNPR1 - putative neuropeptide receptor 1), AGAP0028831, AGAP013115, AGAP002884 (V-type H -transporting ATPase subunit B), AGAP002885.

The following 9 genes are within 50 kbp of the focal region: AGAP002859 (solute carrier family 8 (sodium/calcium exchanger)), AGAP013202, AGAP000586, AGAP002872 (lipase), AGAP002873, AGAP013069, AGAP002874, AGAP002886 (GPRNNA2 - putative GPCR class a orphan receptor 2), AGAP002888 (GPRNNA3 - putative GPCR class a orphan receptor 3).

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
IHS/UGS/2/1 IHS Uganda An. gambiae 2R:28,280,000-28,700,000 1,661 100.0% Cyp6p
IHS/CMS/2/1 IHS Cameroon An. gambiae 2R:28,240,000-28,560,000 1,249 100.0% Cyp6p
IHS/GNS/2/1 IHS Guinea An. gambiae 2R:28,440,000-28,700,000 1,134 99.8% Cyp6p
H12/CMS/2/1 H12 Cameroon An. gambiae 2R:28,460,000-28,560,000 1,124 100.0% Cyp6p
XPEHH/UGS.GWA/2/1 XPEHH Uganda An. gambiae 2R:28,460,000-28,600,000 758 99.7% Cyp6p
XPEHH/CMS.GWA/2/2 XPEHH Cameroon An. gambiae 2R:28,420,000-28,620,000 578 98.7% Cyp6p
IHS/BFM/2/1 IHS Burkina Faso An. coluzzii 2R:28,700,000-29,020,000 468 99.8% 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   = 48
    # data points      = 518
    # variables        = 4
    chi-square         = 187.839
    reduced chi-square = 0.365
    Akaike info crit   = -517.455
    Bayesian info crit = -500.455
[[Variables]]
    center:      0 (fixed)
    amplitude:   2.03391137 +/- 0.146743 (7.21%) (init= 3)
    sigma:       0.23282177 +/- 0.021241 (9.12%) (init= 0.5)
    skew:       -0.58081249 +/- 0.107541 (18.52%) (init= 0)
    baseline:    1.62486893 +/- 0.028543 (1.76%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, sigma)          = -0.505
    C(sigma, skew)               =  0.289
    C(sigma, baseline)           = -0.198
    C(amplitude, baseline)       = -0.152

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 517
    # variables        = 1
    chi-square         = 274.163
    reduced chi-square = 0.531
    Akaike info crit   = -325.943
    Bayesian info crit = -321.695
[[Variables]]
    c:   1.76148225 +/- 0.032057 (1.82%) (init= 1)

Comments