SNP site combination and method for predicting alive litter size genetic performance of to-be-tested pigs

A technology for the number of live piglets and loci in a litter, which is applied in the fields of livestock breeding and bioinformatics, and can solve problems such as the detection of genetic markers in the whole genome.

Active Publication Date: 2017-10-24
SHENZHEN HUADA GENE INST +1
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Large-scale genome-wide genetic marker testing in populations is currently still a significant expense

Method used

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  • SNP site combination and method for predicting alive litter size genetic performance of to-be-tested pigs
  • SNP site combination and method for predicting alive litter size genetic performance of to-be-tested pigs
  • SNP site combination and method for predicting alive litter size genetic performance of to-be-tested pigs

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0054] Example 1. Acquisition of 5 SNP sites related to the number of live litters of Large White pigs

[0055] 1. Estimating the breeding value of large white pig group litter size

[0056] 1. Record the litter size of 618 large white pigs with different parities to obtain original records. For example, the original records of Large White pigs numbered 502 and 305 are shown in Table 1.

[0057] Table 1

[0058] Numbering

Checked individual number

Parity

breeding date

delivery date

Live litter size (heads)

502

YYNMZC611060804

1

2012 / 6 / 12

2012 / 10 / 9

10

502

YYNMZC611060804

2

2012 / 11 / 13

/

/

502

YYNMZC611060804

2

2012 / 12 / 25

2013 / 4 / 20

11

502

YYNMZC611060804

3

2013 / 5 / 14

2013 / 9 / 5

9

502

YYNMZC611060804

4

2013 / 10 / 3

2014 / 1 / 29

7

502

YYNMZC611060804

5

2014 / 2 / 23

/

/

502

YYNMZC611060804

5

2014 / 3 / 16

2014 / 7 / 9

9 ...

Embodiment 2

[0092] Example 2, the method of using 5 SNP sites to predict the number of live litters of large white pigs to be tested

[0093] In order to be more in line with the breeding practice (that is, to use early-born individuals with well-recorded traits to predict the traits of offspring), 618 large white pigs were grouped according to their birth dates, and 495 large white pigs with earlier birth dates were used as a reference group. 123 Large White pigs with later birth dates were used as the verification group. In the reference group and the verification group, the litter size was known, and the genotypes of the 5 SNP loci were also known.

[0094] The genotype information and pedigree information of SNP loci were used to predict the litter size, and the accuracy of the prediction was evaluated. The specific method is: set the litter size in the verification group as unknown, and then predict the genetic value of the litter size according to the genotype information and pedig...

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PUM

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Abstract

The invention discloses an SNP site combination and a method for predicting alive litter size genetic performance of to-be-tested pigs. The SNP site combination is composed of the 501st nucleotide from the 5'-terminal in the sequence 1, the 501st nucleotide from the 5'-terminal in the sequence 2, the 501st nucleotide from the 5'-terminal in the sequence 3, the 501st nucleotide from the 5'-terminal in the sequence 4 and the 501st nucleotide from the 5'-terminal in the sequence 5 in the genome of pigs. A test proves that prediction reliability value is 0.081 by means of the five SNP sites screened in the invention, which is increased by 13.8% than a BLUP method, so that by means of the five SNP sites, the genetic value of alive litter size of to-be-tested large white pigs can be predicted. The SNP site combination can accelerate genetic progress, brings economic benefit to breeding farmers, and has important application value.

Description

technical field [0001] The invention relates to the fields of bioinformatics and livestock breeding, in particular to a combination of SNP sites and a method for predicting the genetic performance of litter size of pigs to be tested. Background technique [0002] In the pig industry, litter size is an important production trait, but the heritability of litter size is low. Many quantitative trait loci related to litter size have been found, and phenotypic selection , single-marker selection are difficult to achieve a good selection effect. In recent years, some researchers have used genome-wide selection to improve the selection accuracy of litter size traits, but genome-wide selection requires genetic markers covering the entire genome. Large-scale genome-wide genetic marker testing in populations is currently still a significant expense. [0003] Marker-assisted best linear unbiased prediction (MBLUP) is an important method for implementing marker-assisted selection (MAS)...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68G06F19/20
CPCC12Q1/6888C12Q2600/124C12Q2600/156G16B25/00
Inventor 苗泽圃郑华魏强李勇杨漫漫陈茜蒙小云方铭陈涛
Owner SHENZHEN HUADA GENE INST
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