PMID- 26732326
OWN - NLM
STAT- PubMed-not-MEDLINE
DCOM- 20160106
LR  - 20201001
IS  - 1011-2367 (Print)
IS  - 1976-5517 (Electronic)
IS  - 1011-2367 (Linking)
VI  - 29
IP  - 1
DP  - 2016 Jan
TI  - The Prediction of the Expected Current Selection Coefficient of Single Nucleotide 
      Polymorphism Associated with Holstein Milk Yield, Fat and Protein Contents.
PG  - 36-42
LID - 10.5713/ajas.15.0476 [doi]
AB  - Milk-related traits (milk yield, fat and protein) have been crucial to selection 
      of Holstein. It is essential to find the current selection trends of Holstein. 
      Despite this, uncovering the current trends of selection have been ignored in 
      previous studies. We suggest a new formula to detect the current selection trends 
      based on single nucleotide polymorphisms (SNP). This suggestion is based on the 
      best linear unbiased prediction (BLUP) and the Fisher's fundamental theorem of 
      natural selection both of which are trait-dependent. Fisher's theorem links the 
      additive genetic variance to the selection coefficient. For Holstein milk 
      production traits, we estimated the additive genetic variance using SNP effect 
      from BLUP and selection coefficients based on genetic variance to search highly 
      selective SNPs. Through these processes, we identified significantly selective 
      SNPs. The number of genes containing highly selective SNPs with p-value <0.01 
      (nearly top 1% SNPs) in all traits and p-value <0.001 (nearly top 0.1%) in any 
      traits was 14. They are phosphodiesterase 4B (PDE4B), serine/threonine kinase 40 
      (STK40), collagen, type XI, alpha 1 (COL11A1), ephrin-A1 (EFNA1), netrin 4 
      (NTN4), neuron specific gene family member 1 (NSG1), estrogen receptor 1 (ESR1), 
      neurexin 3 (NRXN3), spectrin, beta, non-erythrocytic 1 (SPTBN1), ADP-ribosylation 
      factor interacting protein 1 (ARFIP1), mutL homolog 1 (MLH1), transmembrane 
      channel-like 7 (TMC7), carboxypeptidase X, member 2 (CPXM2) and ADAM 
      metallopeptidase domain 12 (ADAM12). These genes may be important for future 
      artificial selection trends. Also, we found that the SNP effect predicted from 
      BLUP was the key factor to determine the expected current selection coefficient 
      of SNP. Under Hardy-Weinberg equilibrium of SNP markers in current generation, 
      the selection coefficient is equivalent to 2*SNP effect.
FAU - Lee, Young-Sup
AU  - Lee YS
AD  - Department of Natural Science, Interdisciplinary Program in Bioinformatics, Seoul 
      National University, Seoul 151-747, Korea.
FAU - Shin, Donghyun
AU  - Shin D
AD  - Department of Agricultural Biotechnology, Animal Biotechnology, and Research 
      Institute for Agriculture and Life Sciences, Seoul National University, Seoul 
      151-921, Korea .
FAU - Lee, Wonseok
AU  - Lee W
AD  - Department of Agricultural Biotechnology, Animal Biotechnology, and Research 
      Institute for Agriculture and Life Sciences, Seoul National University, Seoul 
      151-921, Korea .
FAU - Taye, Mengistie
AU  - Taye M
AD  - Department of Agricultural Biotechnology, Animal Biotechnology, and Research 
      Institute for Agriculture and Life Sciences, Seoul National University, Seoul 
      151-921, Korea .
FAU - Cho, Kwanghyun
AU  - Cho K
AD  - National Livestock Research Institute, Cheonan 330-801, Korea .
FAU - Park, Kyoung-Do
AU  - Park KD
AD  - Genomic Informatics Center, Hankyong National University, Anseong 456-749, Korea 
      .
FAU - Kim, Heebal
AU  - Kim H
AD  - Department of Natural Science, Interdisciplinary Program in Bioinformatics, Seoul 
      National University, Seoul 151-747, Korea ; Department of Agricultural 
      Biotechnology, Animal Biotechnology, and Research Institute for Agriculture and 
      Life Sciences, Seoul National University, Seoul 151-921, Korea .
LA  - eng
PT  - Journal Article
PL  - Korea (South)
TA  - Asian-Australas J Anim Sci
JT  - Asian-Australasian journal of animal sciences
JID - 9884245
PMC - PMC4698687
OTO - NOTNLM
OT  - Best Linear Unbiased Prediction [BLUP]
OT  - Expected Current Relative Selection Coefficient
OT  - Fisher's Fundamental Theorem of Natural Selection
OT  - Holstein
OT  - Milk Production Trait
OT  - Single Nucleotide Polymorphism-Genomic Best Linear Unbiased Prediction 
      [SNP-GBLUP]
EDAT- 2016/01/07 06:00
MHDA- 2016/01/07 06:01
PMCR- 2016/01/01
CRDT- 2016/01/07 06:00
PHST- 2015/06/01 00:00 [received]
PHST- 2015/08/22 00:00 [revised]
PHST- 2015/09/18 00:00 [accepted]
PHST- 2016/01/07 06:00 [entrez]
PHST- 2016/01/07 06:00 [pubmed]
PHST- 2016/01/07 06:01 [medline]
PHST- 2016/01/01 00:00 [pmc-release]
AID - ajas-29-1-36 [pii]
AID - 10.5713/ajas.15.0476 [doi]
PST - ppublish
SO  - Asian-Australas J Anim Sci. 2016 Jan;29(1):36-42. doi: 10.5713/ajas.15.0476.