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. 2022 Jul 12;13(4):e01454-22. doi: 10.1128/mbio.01454-22

TABLE 1.

List of QTLs mapped with CC011xCC074-F2

QTL iD Chromosome (Mb) Phenotype(s) (days postinfection [dpi]) Haplotype(s)a Phenotypic variation (%)
CC011xCC074-F2, significant loci
    HrS24 chr4: 32.95–114.54 Mortality CC011: G, H, C
CC074: A/H, A/D, D, E, F		 ORb 4.34
    HrS25 chr4: 6.38–17.97 Weight loss in males (4 dpi) CC011: G, B
CC074: A		 12.57%
    HrS26 chr9: 74.94–124.06
chr9: 117.38–124.07
chr9: 116.24–124.07
chr9: 111.54–122.63
chr9: 111.54–122.63		 Mortality
Congestion score (4 dpi)
PenH (2 dpi)
Periph. neutrophils (4 dpi)
Periph. lymphocytes (4 dpi)		 CC011: B, G
CC074: A		 ORb 3.15
10.24%
7.76%
11.8%
12.39%
    HrS27 chr11: 26.44–80.76
chr11: 17.89–80.76		 Periph. neutrophils (4 dpi)
Periph. lymphocytes (4 dpi)		 CC011: H, B, H
CC074: C		 5.5%
5.6%
    HrS28 chr15: 58.66–74.04 PenH (2 dpi) CC011: H 8.48%
CC074: B
CC011xCC074-F2, suggestive loci
    HrS29 chr3: 7.2–159.1 Mortality (4 dpi)
Congestion score (4 dpi)		 CC011: C, C/D, D, A, D, E
CC074: D, H, B, B/F, B/D, B
    HrS30 chr9: 28.2–124.1 Weight loss (4 dpi)
Mortality (4 dpi)
Weight loss females (4 dpi)		 CC011: B, G, B
CC074: A
    HrS31 chr13: 31.9–90.3 Hemorrhage (4 dpi)
Periph. monocytes (4 dpi)		 CC011: B, C
CC074: G, D
    HrS32 chr14: 33.8–114.8 PenH (2 dpi) CC011: C
CC074: E, H, G
    HrS33 chrX: 6.2–93.9 Rpef (2 dpi)
Periph. neutrophils (2 dpi)		 CC011: E, C/E, E, A, G
CC074: G, B
a

Haplotype effects are described for each QTL. For the Pre-CC and CC-RIX, the haplotypes are separated based on the allele effect splits between founder haplotypes (A, A/J; B, C57BL/6J; C, 129S1/SvImJ; D. NOD/ShILtJ; E, NZO/HiLtJ; F, CAST/EiJ; G, PWK/PhJ; H, WSB/EiJ). In CC-F2 crosses, the haplotypes listed are those present in the given parent strains from the proximal to distal ends of each region. Rpef, ratio of time to peak expiratory flow relative to total expiratory time.

b

QTL influencing mortality calculate an odds ratio (OR) for disease rather than a % of variation explained. For both the CC-RIX and the CC-F2, OR for specific loci are calculated with a full model of all mortality loci, to better estimate their independent effects.