PMID- 37990938
OWN - NLM
STAT- MEDLINE
DCOM- 20240214
LR  - 20240214
IS  - 1439-0388 (Electronic)
IS  - 0931-2668 (Linking)
VI  - 141
IP  - 2
DP  - 2024 Mar
TI  - Differential patterns in runs of homozygosity in two mice lines under divergent 
      selection for environmental variability for birth weight.
PG  - 193-206
LID - 10.1111/jbg.12835 [doi]
AB  - Runs of homozygosity (ROH) are defined as long continuous homozygous stretches in 
      the genome which are assumed to originate from a common ancestor. It has been 
      demonstrated that divergent selection for variability in mice is possible and 
      that low variability in birth weight is associated with robustness. To analyse 
      ROH patterns and ROH-based genomic inbreeding, two mouse lines that were 
      divergently selected for birth weight variability for 26 generations were used, 
      with: 752 individuals for the high variability line (H-Line), 766 individuals for 
      the low variability line (L-Line) and 74 individuals as a reference population. 
      Individuals were genotyped using the high density Affymetrix Mouse Diversity 
      Genotyping Array. ROH were identified using both the sliding windows (SW) and the 
      consecutive runs (CR) methods. Inbreeding coefficients were calculated based on 
      pedigree (F(PED) ) information, on ROH identified using the SW method (F(ROHSW) ) 
      and on ROH identified using the CR method (F(ROHCR) ). Differences in genomic 
      inbreeding were not consistent across generations and these parameters did not 
      show clear differences between lines. Correlations between F(PED) and F(ROH) were 
      high, particularly for F(ROHSW) . Moreover, correlations between F(ROHSW) and 
      F(PED) were even higher when ROH were identified with no restrictions in the 
      number of heterozygotes per ROH. The comparison of F(ROH) estimates between 
      either of the selected lines were based on significant differences at the 
      chromosome level, mainly in chromosomes 3, 4, 6, 8, 11, 15 and 19. ROH-based 
      inbreeding estimates that were computed using longer homozygous segments had a 
      higher relationship with F(PED) . Differences in robustness between lines were 
      not attributable to a higher homozygosis in the L-Line, but maybe to the 
      different distribution of ROH at the chromosome level between lines. The analysis 
      identified a set of genomic regions for future research to establish the genomic 
      basis of robustness.
CI  - (c) 2023 The Authors. Journal of Animal Breeding and Genetics published by John 
      Wiley & Sons Ltd.
FAU - Ojeda-Marin, Candela
AU  - Ojeda-Marin C
AUID- ORCID: 0000-0002-7213-4089
AD  - Departamento de Produccion Animal, Facultad de Veterinaria, Universidad 
      Complutense de Madrid, Madrid, Spain.
FAU - Gutierrez, Juan Pablo
AU  - Gutierrez JP
AUID- ORCID: 0000-0003-3142-2356
AD  - Departamento de Produccion Animal, Facultad de Veterinaria, Universidad 
      Complutense de Madrid, Madrid, Spain.
FAU - Formoso-Rafferty, Nora
AU  - Formoso-Rafferty N
AUID- ORCID: 0000-0003-2319-3485
AD  - SERIDA-Deva, Gijon, Spain.
FAU - Goyache, Felix
AU  - Goyache F
AUID- ORCID: 0000-0002-6872-1045
AD  - Departamento de Produccion Agraria, E.T.S. Ingenieria Agronomica, Alimentaria y 
      de Biosistemas, Universidad Politecnica de Madrid, Madrid, Spain.
FAU - Cervantes, Isabel
AU  - Cervantes I
AUID- ORCID: 0000-0002-0750-6480
AD  - Departamento de Produccion Animal, Facultad de Veterinaria, Universidad 
      Complutense de Madrid, Madrid, Spain.
LA  - eng
GR  - PGC2018-096198-A-I00/Ministry of Science, Innovation, and Universities/
PT  - Journal Article
DEP - 20231122
PL  - Germany
TA  - J Anim Breed Genet
JT  - Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und 
      Zuchtungsbiologie
JID - 100955807
SB  - IM
MH  - Animals
MH  - Mice
MH  - Birth Weight
MH  - Homozygote
MH  - Genotype
MH  - *Genome/genetics
MH  - *Inbreeding
MH  - Polymorphism, Single Nucleotide
OTO - NOTNLM
OT  - divergent selection
OT  - environmental birth weight variability
OT  - molecular inbreeding
OT  - runs of homozygosity
EDAT- 2023/11/22 06:43
MHDA- 2024/02/12 15:42
CRDT- 2023/11/22 05:32
PHST- 2023/09/11 00:00 [revised]
PHST- 2023/05/24 00:00 [received]
PHST- 2023/11/09 00:00 [accepted]
PHST- 2024/02/12 15:42 [medline]
PHST- 2023/11/22 06:43 [pubmed]
PHST- 2023/11/22 05:32 [entrez]
AID - 10.1111/jbg.12835 [doi]
PST - ppublish
SO  - J Anim Breed Genet. 2024 Mar;141(2):193-206. doi: 10.1111/jbg.12835. Epub 2023 
      Nov 22.