CN112695107B - Growth performance SNP locus combination of meat sheep and application thereof - Google Patents

Growth performance SNP locus combination of meat sheep and application thereof Download PDF

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CN112695107B
CN112695107B CN202110304757.XA CN202110304757A CN112695107B CN 112695107 B CN112695107 B CN 112695107B CN 202110304757 A CN202110304757 A CN 202110304757A CN 112695107 B CN112695107 B CN 112695107B
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李孟华
李心
罗凌云
杨继
吕锋骅
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Zhongke YUNPU (Inner Mongolia) gene Biotechnology Co.,Ltd.
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Abstract

The invention discloses a growth performance SNP locus combination of meat sheep and application thereof, relates to the technical field of gene breeding, and provides 2036 SNP loci, wherein physical position information of the SNP loci is determined based on sheep v4.0 genome sequence comparison, the SNP loci are SNP0001-SNP2036, and the sheep individuals are subjected to genetic evaluation based on 2036 SNP loci, so that individual selection can be performed on growth traits which are difficult to measure in the early stage, the generation interval is shortened, the breeding process is accelerated, and a great amount of breeding cost is saved.

Description

Growth performance SNP locus combination of meat sheep and application thereof
Technical Field
The invention relates to the technical field of biology, in particular to a growth performance SNP locus combination of a meat sheep and application thereof.
Background
Sheep are the first domesticated animals and the most common bred animals in China, and with the activity and selection of human beings, sheep varieties with different high-quality resources are gradually formed, however, in actual production, the varieties of sheep at home and abroad are various, the individual difference is large, and the variety with specific target characters needs to be selected for breeding production, so that the acquisition of higher economic value or market benefit becomes one of the great problems in sheep breeding.
In the history of sheep selective breeding, the exploration from empirical breeding to breeding theory and method is performed, and the selective theory, the pure line theory, backcross breeding, recurrent breeding, mutation breeding, single seed transmission and ideal plant type are provided; further to marker assisted selection breeding, a variety of markers have been explored, such as amplified fragment length polymorphism marker assisted selection (AFLP), microsatellite marker assisted selection (SSR), and single nucleotide polymorphism marker assisted Selection (SNP).
At present, the molecular marker technology is more and more emphasized due to its advantages of high accuracy, strong operability, etc., and among them, the molecular marker technology based on Single Nucleotide Polymorphisms (SNPs) is more and more widely applied. SNP is taken as a genetic molecular marker in biological genomes, and plays more and more important roles in the aspects of animal and plant genetic evolution analysis, important economic shape screening, molecular breeding and the like. The SNP chip based on the SNP is a convenient and efficient tool for modern genetic breeding, and is easy to realize high-throughput and automatic detection of the SNP, can detect the change of each base pair on genomic DNA, including insertion, deletion, inversion, conversion and the like, becomes an ideal SNP detection technology, and is increasingly applied to the field of sheep breeding.
The current commercial SNP chips of Sheep are Illumina provine SNP50 Beadchip (50K), Illumina sheet HD Genotyping Beadchip (680K) and Illumina provine LD (5K), the former two of which are the most commonly used in academic production research. The Illumina orange SNP50 Beadchip is developed by Illumina company and research teams and institutions such as UCSC, CSIRO, USDA and Agreearch, comprises more than 54K SNP sites covering the whole genome of sheep, and can be used for the research of genetic breeding, whole genome association analysis, quantitative trait locus positioning, gene optimization, comparative genomics and the like. The Illumina sheet HD Genotyping foundry (680K) is an SNP chip produced by Illumina company, and is a high-density chip amplified by the International Sheep genome Association (ISGC) on the basis of the Ovine SNP 50. However, the existing sheep SNP chip is mainly based on data of western sheep, lacks of SNP data of combination of Chinese sheep varieties and foreign sheep varieties, has the problems of insufficient site uniformity, insufficient embodiment of functional sites and regions, extremely low frequency sites of over 10 percent of sites in Chinese sheep groups and the like, and has very important significance in designing the SNP chip which is suitable for Chinese sheep groups and can rapidly and effectively detect growth functions.
Disclosure of Invention
In order to meet the requirements of chip site function detection and function research on growth performance direction in current breeding production in China, the invention provides high-depth whole genome resequencing data based on 16 wild sheep (Asia Mufolen) and 232 family sheep individuals in the world, a meat sheep growth performance SNP site which is accurate in detection, convenient to use and wide in market prospect is obtained by taking a sheep v4.0 genome as reference and combining with the existing research related to sheep growth function, and the site can be used for screening sheep varieties, identifying the sheep varieties, breeding the sheep, protecting germplasm resources and improving germplasm resources.
To achieve the technical object of the present invention, in a first aspect, the present invention provides a SNP site combination for growth performance of meat sheep, wherein the SNP site combination is included in a gene fragment of PECR, CSRP2, GRTP1, KIAA1217, EIF4G2, PHLPP1, ZNF687, LMBR1, FLNB, LINGO2, POLR 1A.
Wherein, the site combination comprises 2036 SNP sites, and the physical position information is determined based on sheep v4.0 genome sequence alignment, which is specifically shown in Table 1.
TABLE 1 physical information of SNP site combinations for growth Performance of meat sheep
Figure DEST_PATH_IMAGE002
Figure DEST_PATH_IMAGE004
SNP0057 1 99996890 G A SNP0736 4 117525323 G A SNP1415 13 24403575 T C
SNP0058 1 99998511 C T SNP0737 4 117528328 G A SNP1416 13 24404246 T G
SNP0059 1 99999668 G C SNP0738 4 117528349 G A SNP1417 13 24404288 G T
SNP0060 1 99999717 A C SNP0739 4 117528443 G A SNP1418 13 24405047 A G
SNP0061 2 217025288 C T SNP0740 4 117529086 T C SNP1419 13 24405048 A T
SNP0062 2 217028013 A G SNP0741 4 117530219 C T SNP1420 13 24406744 A T
SNP0063 2 217028692 G A SNP0742 4 117530281 G A SNP1421 13 24409343 T C
SNP0064 2 217029293 A G SNP0743 4 117530468 G T SNP1422 13 24409394 C T
SNP0065 2 217029479 G C SNP0744 4 117530876 G C SNP1423 13 24409717 T C
SNP0066 2 217031585 T C SNP0745 4 117530919 C T SNP1424 13 24410562 T C
SNP0067 2 217032217 C T SNP0746 4 117530932 T C SNP1425 13 24410579 G A
SNP0068 2 217034018 A G SNP0747 4 117531020 T C SNP1426 13 24410588 A G
SNP0069 2 217036169 T C SNP0748 4 117531025 C T SNP1427 13 24410591 C T
SNP0070 2 217036299 G A SNP0749 4 117532229 T G SNP1428 13 24410919 C A
SNP0071 2 217036449 T C SNP0750 4 117533289 A G SNP1429 13 24412045 T C
SNP0072 2 217036519 T C SNP0751 4 117535830 G A SNP1430 13 24412062 T C
SNP0073 2 217036982 A C SNP0752 4 117537427 C A SNP1431 13 24412064 A G
SNP0074 2 217037135 A G SNP0753 4 117538426 T C SNP1432 13 24412246 C T
SNP0075 2 217037190 T C SNP0754 4 117538946 A G SNP1433 13 24413557 C T
SNP0076 2 217037191 G A SNP0755 4 117539298 T C SNP1434 13 24414200 C T
SNP0077 2 217037283 C T SNP0756 4 117539360 T A SNP1435 13 24414731 G A
SNP0078 2 217037955 G A SNP0757 4 117539428 A G SNP1436 13 24414822 G A
SNP0079 2 217037996 T C SNP0758 4 117540208 A G SNP1437 13 24415579 C A
SNP0080 2 217038064 T C SNP0759 4 117540333 C T SNP1438 13 24417396 C T
SNP0081 2 217038233 G A SNP0760 4 117541451 C T SNP1439 13 24417556 T A
SNP0082 2 217038446 T C SNP0761 4 117541487 G A SNP1440 13 24417660 A C
SNP0083 2 217038457 A T SNP0762 4 117541506 G A SNP1441 13 24417791 T C
SNP0084 2 217038562 T G SNP0763 4 117541533 T C SNP1442 13 24417995 A C
SNP0085 2 217038578 G C SNP0764 4 117541681 G A SNP1443 13 24418069 C T
SNP0086 2 217039070 T C SNP0765 4 117541763 T C SNP1444 13 24418517 A G
SNP0087 2 217039110 A T SNP0766 4 117541895 C T SNP1445 13 24418585 A G
SNP0088 2 217039138 T C SNP0767 4 117543025 T C SNP1446 13 24419103 C G
SNP0089 2 217039407 G A SNP0768 4 117543181 G A SNP1447 13 24419170 G T
SNP0090 2 217039530 G T SNP0769 4 117543237 C T SNP1448 13 24419688 C A
SNP0091 2 217040002 A C SNP0770 4 117543487 C T SNP1449 13 24419882 A G
SNP0092 2 217040125 G A SNP0771 4 117543568 G C SNP1450 13 24420047 T A
SNP0093 2 217040153 C T SNP0772 4 117544699 G T SNP1451 13 24420357 G A
SNP0094 2 217040558 T G SNP0773 4 117545266 T C SNP1452 13 24420611 A G
SNP0095 2 217041035 T C SNP0774 4 117545420 A C SNP1453 13 24420622 A G
SNP0096 2 217041477 T C SNP0775 4 117545489 C T SNP1454 13 24420841 G A
SNP0097 2 217041986 T C SNP0776 4 117545810 C T SNP1455 13 24421432 G A
SNP0098 2 217042981 T C SNP0777 4 117546502 C G SNP1456 13 24421550 C T
SNP0099 2 217043959 G A SNP0778 4 117546925 C T SNP1457 13 24422351 T C
SNP0100 2 217044049 C T SNP0779 4 117547513 A G SNP1458 13 24422931 A G
SNP0101 2 217044422 T C SNP0780 4 117547749 C T SNP1459 13 24422989 T C
SNP0102 2 217044926 C T SNP0781 4 117548618 G A SNP1460 13 24423064 G A
SNP0103 2 217045538 C T SNP0782 4 117548744 T C SNP1461 13 24423105 T A
SNP0104 2 217045818 C A SNP0783 4 117548847 T A SNP1462 13 24423379 T C
SNP0105 2 217045835 T C SNP0784 4 117550118 C T SNP1463 13 24423701 T C
SNP0106 2 217046233 G A SNP0785 4 117550326 T C SNP1464 13 24423926 T A
SNP0107 2 217047554 A G SNP0786 4 117552509 C A SNP1465 13 24424140 C T
SNP0108 2 217047803 T C SNP0787 4 117552551 G A SNP1466 15 41325648 T C
SNP0109 2 217047846 G T SNP0788 4 117552693 C G SNP1467 15 41325813 T A
SNP0110 2 217047935 C G SNP0789 4 117552702 C A SNP1468 15 41326450 G A
SNP0111 2 217047942 G C SNP0790 4 117552728 C T SNP1469 15 41327686 A G
SNP0112 2 217048094 A G SNP0791 4 117553914 G A SNP1470 15 41328767 C T
SNP0113 2 217048135 G A SNP0792 4 117554465 G A SNP1471 15 41331309 G A
SNP0114 2 217048308 A G SNP0793 4 117555478 T G SNP1472 15 41331316 G A
SNP0115 2 217048480 G A SNP0794 4 117555506 C G SNP1473 15 41331588 T C
SNP0116 2 217049501 C T SNP0795 4 117556095 T C SNP1474 15 41331811 A G
SNP0117 2 217050687 T G SNP0796 4 117556745 A G SNP1475 15 41331839 A G
SNP0118 2 217050704 C T SNP0797 4 117557343 C G SNP1476 15 41334505 A G
SNP0119 2 217050988 C T SNP0798 4 117557477 G A SNP1477 15 41334533 T A
SNP0120 2 217051035 T C SNP0799 4 117558219 G A SNP1478 15 41334637 G A
SNP0121 2 217051139 C T SNP0800 4 117558785 C T SNP1479 15 41334969 T A
SNP0122 2 217051186 C T SNP0801 4 117558937 G A SNP1480 15 41335362 G A
SNP0123 2 217051423 T A SNP0802 4 117558981 C T SNP1481 15 41335579 C A
SNP0124 2 217051486 T C SNP0803 4 117559004 T C SNP1482 15 41335707 A T
SNP0125 2 217051638 C G SNP0804 4 117559417 A C SNP1483 15 41336162 A G
SNP0126 2 217052243 C A SNP0805 4 117559731 A C SNP1484 15 41336226 C A
SNP0127 2 217052958 C T SNP0806 4 117559806 G A SNP1485 15 41336631 C T
SNP0128 2 217054097 A T SNP0807 4 117559866 C T SNP1486 15 41336812 A G
SNP0129 2 217054334 A G SNP0808 4 117562172 C G SNP1487 15 41336955 G A
SNP0130 2 217054514 A C SNP0809 4 117562822 G A SNP1488 15 41337023 A C
SNP0131 2 217054572 C T SNP0810 4 117564834 T C SNP1489 15 41337196 A G
SNP0132 2 217054963 T C SNP0811 4 117566666 C G SNP1490 15 41337228 A G
SNP0133 2 217054969 C T SNP0812 4 117567083 G A SNP1491 15 41337675 G A
SNP0134 2 217055016 G A SNP0813 4 117569520 T C SNP1492 15 41337899 C A
SNP0135 2 217055323 A G SNP0814 4 117569651 A G SNP1493 15 41337953 G T
SNP0136 2 217055334 G A SNP0815 4 117570688 C T SNP1494 15 41337989 G C
SNP0137 2 217055569 A G SNP0816 4 117570942 C T SNP1495 15 41338087 G A
SNP0138 2 217055582 G A SNP0817 4 117571548 A G SNP1496 15 41338522 A G
SNP0139 2 217056087 T G SNP0818 4 117571918 T G SNP1497 15 41338610 G A
SNP0140 2 217057623 C T SNP0819 4 117572062 G C SNP1498 15 41339260 A G
SNP0141 2 217057670 C T SNP0820 4 117572261 G A SNP1499 15 41339443 A G
SNP0142 2 217057917 G A SNP0821 4 117572267 C T SNP1500 15 41343013 C A
SNP0143 2 217058006 G A SNP0822 4 117573066 C T SNP1501 15 41343111 T G
SNP0144 2 217058127 T A SNP0823 4 117574251 G A SNP1502 15 41343235 C A
SNP0145 2 217058203 G A SNP0824 4 117574724 T A SNP1503 15 41343376 A G
SNP0146 2 217058226 C T SNP0825 4 117575273 T C SNP1504 15 41343512 C T
SNP0147 2 217058521 G A SNP0826 4 117575332 G T SNP1505 15 41343610 C A
SNP0148 2 217058556 T C SNP0827 4 117575501 T C SNP1506 15 41343693 A G
SNP0149 2 217058786 C T SNP0828 4 117575627 T C SNP1507 15 41344279 G A
SNP0150 2 217058867 C T SNP0829 4 117575703 A G SNP1508 15 41344497 T C
SNP0151 2 217058986 G A SNP0830 4 117575709 T C SNP1509 15 41344743 T C
SNP0152 2 217059397 G A SNP0831 4 117576733 C T SNP1510 15 41344902 C G
SNP0153 2 217059688 T G SNP0832 4 117577185 T C SNP1511 15 41345846 G A
SNP0154 2 217059923 A T SNP0833 4 117577186 A T SNP1512 15 41346230 A G
SNP0155 2 217060086 T C SNP0834 4 117578582 C A SNP1513 15 41346367 G A
SNP0156 2 217060252 C T SNP0835 4 117580244 A G SNP1514 15 41347522 C T
SNP0157 2 217061067 C T SNP0836 4 117580778 G A SNP1515 15 41348067 A G
SNP0158 2 217061696 G T SNP0837 4 117580906 G A SNP1516 15 41348247 A C
SNP0159 2 217061831 G C SNP0838 4 117583292 C T SNP1517 15 41348344 C T
SNP0160 2 217062060 T C SNP0839 4 117583314 C T SNP1518 15 41348908 G A
SNP0161 2 217062612 T G SNP0840 4 117583748 C T SNP1519 15 41349144 C T
SNP0162 2 217062769 G A SNP0841 4 117584755 C T SNP1520 15 41349548 A G
SNP0163 2 217063284 C T SNP0842 4 117584990 C G SNP1521 15 41349910 T G
SNP0164 2 217064292 G A SNP0843 4 117585051 G A SNP1522 15 41350097 G T
SNP0165 2 217064996 A T SNP0844 4 117586013 G A SNP1523 15 41350299 T C
SNP0166 2 217065698 C T SNP0845 4 117586557 G A SNP1524 15 41350392 G A
SNP0167 2 217066956 C T SNP0846 4 117586854 G C SNP1525 15 41350687 G A
SNP0168 2 217067723 A C SNP0847 4 117586972 G A SNP1526 15 41350987 G A
SNP0169 2 217067738 A C SNP0848 4 117587049 G A SNP1527 15 41352407 C T
SNP0170 2 217067813 T C SNP0849 4 117587174 A C SNP1528 15 41352439 C T
SNP0171 2 217067835 C T SNP0850 4 117587540 G A SNP1529 15 41353000 C T
SNP0172 2 217067967 T C SNP0851 4 117587715 G C SNP1530 15 41353318 A G
SNP0173 2 217067975 T A SNP0852 4 117588045 T C SNP1531 15 41353501 A T
SNP0174 2 217068289 T C SNP0853 4 117588412 T G SNP1532 15 41353639 C T
SNP0175 2 217068703 T C SNP0854 4 117588496 T C SNP1533 15 41354446 C T
SNP0176 2 217068777 A G SNP0855 4 117588530 G A SNP1534 15 41355740 A G
SNP0177 2 217068945 G A SNP0856 4 117588783 G A SNP1535 15 41355744 T A
SNP0178 2 217068975 A G SNP0857 4 117589746 A G SNP1536 15 41356214 A T
SNP0179 2 217069999 A G SNP0858 4 117589976 G A SNP1537 15 41357040 A G
SNP0180 2 217072815 A G SNP0859 4 117589998 A C SNP1538 15 41357080 C T
SNP0181 2 217072924 A G SNP0860 4 117592971 T A SNP1539 15 41357252 C T
SNP0182 2 217073221 C T SNP0861 4 117593380 G C SNP1540 15 41357261 T C
SNP0183 2 217074721 A G SNP0862 4 117593610 G A SNP1541 15 41357444 C T
SNP0184 2 217074752 G A SNP0863 4 117593674 C G SNP1542 15 41357455 C T
SNP0185 2 217074798 C T SNP0864 4 117593909 G A SNP1543 15 41357493 G A
SNP0186 2 217074804 T C SNP0865 4 117594572 A G SNP1544 15 41357608 G C
SNP0187 2 96950143 T G SNP0866 4 117594638 C T SNP1545 15 41359091 C A
SNP0188 2 96950411 T C SNP0867 4 117594980 T C SNP1546 15 41359231 T G
SNP0189 2 96950723 T C SNP0868 4 117595212 G T SNP1547 15 41359232 T G
SNP0190 2 96950749 C T SNP0869 4 117595214 A T SNP1548 15 41359874 T C
SNP0191 2 96951045 A T SNP0870 4 117595901 A G SNP1549 15 41360130 G C
SNP0192 2 96951778 C T SNP0871 4 117596383 C T SNP1550 15 41360507 A G
SNP0193 2 96951787 T C SNP0872 4 117596535 T C SNP1551 15 41360554 G A
SNP0194 2 96951867 A C SNP0873 4 117596572 G C SNP1552 15 41360663 G T
SNP0195 2 96952556 A G SNP0874 4 117596660 C T SNP1553 15 41360776 C A
SNP0196 2 96952671 C A SNP0875 4 117596777 T C SNP1554 15 41360806 A C
SNP0197 2 96952678 A G SNP0876 4 117596845 T G SNP1555 15 41360909 C T
SNP0198 2 96952683 A G SNP0877 4 117597411 C T SNP1556 15 41361032 A G
SNP0199 2 96953369 C T SNP0878 4 117597443 C T SNP1557 15 41361358 T C
SNP0200 2 96953370 A G SNP0879 4 117597887 C G SNP1558 15 41361519 A G
SNP0201 2 96953652 G A SNP0880 4 117598760 G T SNP1559 15 41361606 A G
SNP0202 2 96953738 T C SNP0881 4 117598997 T C SNP1560 15 41361915 G C
SNP0203 2 96953743 A G SNP0882 4 117599476 A G SNP1561 15 41361964 C T
SNP0204 2 96953748 C T SNP0883 4 117599684 A C SNP1562 15 41362087 T C
SNP0205 2 96953834 G A SNP0884 4 117599771 T G SNP1563 15 41362159 T C
SNP0206 2 96953916 A C SNP0885 4 117599784 C T SNP1564 15 41362477 G T
SNP0207 2 96953927 T C SNP0886 4 117599822 A G SNP1565 15 41362658 C T
SNP0208 2 96954085 G A SNP0887 4 117600405 A G SNP1566 15 41362711 G A
SNP0209 2 96954132 G T SNP0888 4 117600480 T C SNP1567 15 41363268 G A
SNP0210 2 96954262 G T SNP0889 4 117600899 A G SNP1568 15 41363416 G T
SNP0211 2 96954290 G A SNP0890 4 117601299 C G SNP1569 15 41363449 A G
SNP0212 2 96954306 T C SNP0891 4 117603080 A C SNP1570 15 41363757 G A
SNP0213 2 96954327 G A SNP0892 4 117603241 C G SNP1571 15 41364520 T C
SNP0214 2 96954447 C A SNP0893 4 117603254 A C SNP1572 15 41364528 G A
SNP0215 2 96954586 C T SNP0894 4 117603258 G A SNP1573 15 41364545 C G
SNP0216 2 96954781 T C SNP0895 4 117603554 T C SNP1574 15 41364677 T C
SNP0217 2 96954802 T G SNP0896 4 117603958 G A SNP1575 15 41364824 C T
SNP0218 2 96954862 T G SNP0897 4 117604027 T C SNP1576 15 41364881 C T
SNP0219 2 96955334 G A SNP0898 4 117604451 T C SNP1577 15 41364951 T C
SNP0220 2 96955462 T C SNP0899 4 117604452 G A SNP1578 15 41365086 A G
SNP0221 2 96955765 T C SNP0900 4 117605080 A C SNP1579 15 41365770 C A
SNP0222 2 96956174 T C SNP0901 4 117605181 G A SNP1580 15 41366133 C G
SNP0223 2 96956284 C T SNP0902 4 117605183 T C SNP1581 15 41366386 T C
SNP0224 2 96956388 C T SNP0903 4 117605186 A G SNP1582 15 41366532 A G
SNP0225 2 96956463 G C SNP0904 4 117605852 T C SNP1583 15 41366604 G T
SNP0226 2 96956480 G A SNP0905 4 117605865 T C SNP1584 15 41366925 T C
SNP0227 2 96956640 A T SNP0906 4 117606297 C A SNP1585 15 41366936 A G
SNP0228 2 96956710 T C SNP0907 4 117606418 G A SNP1586 15 41367509 T G
SNP0229 2 96956873 G T SNP0908 4 117606456 T C SNP1587 15 41368223 G T
SNP0230 2 96956901 C A SNP0909 4 117606656 T C SNP1588 15 41368380 A G
SNP0231 2 96956970 C G SNP0910 4 117606759 C T SNP1589 15 41368552 T C
SNP0232 2 96957206 G C SNP0911 4 117606883 A G SNP1590 15 41368642 G A
SNP0233 2 96957329 A G SNP0912 4 117606982 C T SNP1591 15 41368660 A T
SNP0234 2 96957728 C T SNP0913 4 117606999 C T SNP1592 15 41368822 C T
SNP0235 2 96958027 G A SNP0914 4 117607136 T C SNP1593 15 41369189 A G
SNP0236 2 96958060 A G SNP0915 4 117607280 T C SNP1594 15 41369235 C T
SNP0237 2 96958063 G A SNP0916 4 117607432 A G SNP1595 15 41369322 C T
SNP0238 2 96958195 A G SNP0917 4 117607637 G A SNP1596 15 41369531 C T
SNP0239 2 96958331 T C SNP0918 4 117607778 T C SNP1597 15 41369651 C T
SNP0240 2 96958357 G A SNP0919 4 117607809 A G SNP1598 15 41369741 G A
SNP0241 2 96958419 C G SNP0920 4 117608100 C T SNP1599 15 41369754 A C
SNP0242 2 96958824 A G SNP0921 4 117608664 T C SNP1600 15 41369950 G C
SNP0243 2 96958846 C T SNP0922 4 117609137 T G SNP1601 15 41370502 G A
SNP0244 2 96958866 G A SNP0923 4 117609301 C T SNP1602 15 41370534 T C
SNP0245 2 96958924 C T SNP0924 4 117609350 C T SNP1603 15 41370628 A G
SNP0246 2 96959018 A G SNP0925 4 117609482 A G SNP1604 15 41370816 A G
SNP0247 2 96959085 G A SNP0926 4 117609485 C T SNP1605 15 41370883 T G
SNP0248 2 96959373 G C SNP0927 4 117609486 G A SNP1606 15 41371151 T C
SNP0249 2 96960250 T C SNP0928 4 117609619 T A SNP1607 15 41371165 C T
SNP0250 2 96960522 T C SNP0929 4 117609869 C T SNP1608 15 41371267 C G
SNP0251 2 96960533 A G SNP0930 4 117610059 T C SNP1609 15 41371336 G A
SNP0252 2 96960858 C G SNP0931 4 117610146 A G SNP1610 15 41371645 G T
SNP0253 2 96960941 C T SNP0932 4 117610208 C T SNP1611 15 41371690 G C
SNP0254 2 96960967 C T SNP0933 4 117610902 C T SNP1612 15 41371727 G A
SNP0255 2 96961083 C T SNP0934 4 117610978 A C SNP1613 15 41371799 G C
SNP0256 2 96961410 C T SNP0935 4 117611006 G A SNP1614 15 41373072 G A
SNP0257 2 96961481 G A SNP0936 4 117611611 A C SNP1615 15 41373324 G A
SNP0258 2 96961519 G A SNP0937 4 117611800 G A SNP1616 15 41373553 A T
SNP0259 2 96961554 C T SNP0938 4 117612515 T C SNP1617 15 41373693 A G
SNP0260 2 96961699 C G SNP0939 4 117612516 T C SNP1618 15 41373707 T A
SNP0261 2 96961719 G T SNP0940 4 117612735 A G SNP1619 15 41374164 T C
SNP0262 2 96961792 T C SNP0941 4 117613632 T G SNP1620 15 41374475 C A
SNP0263 2 96961870 T A SNP0942 4 117613959 T C SNP1621 19 43261804 A G
SNP0264 2 96962111 A C SNP0943 4 117614260 A T SNP1622 19 43261878 C T
SNP0265 2 96964226 T C SNP0944 4 117614290 G A SNP1623 19 43262709 T C
SNP0266 2 96969706 A G SNP0945 4 117614385 C T SNP1624 19 43263239 A C
SNP0267 2 96969756 T G SNP0946 4 117614430 G C SNP1625 19 43263324 A G
SNP0268 2 96969764 C G SNP0947 4 117614447 C G SNP1626 19 43263384 G A
SNP0269 2 96969769 C G SNP0948 4 117614672 C T SNP1627 19 43263443 G A
SNP0270 2 96969824 C A SNP0949 4 117614876 A G SNP1628 19 43263715 G A
SNP0271 2 96970238 A T SNP0950 4 117615253 G A SNP1629 19 43263759 C G
SNP0272 2 96970288 G A SNP0951 4 117615526 G C SNP1630 19 43263775 C A
SNP0273 2 96970337 A G SNP0952 4 117615564 G A SNP1631 19 43263910 C T
SNP0274 2 96970353 C T SNP0953 4 117616198 A G SNP1632 19 43264003 T C
SNP0275 2 96970558 A G SNP0954 4 117616361 T G SNP1633 19 43264004 G A
SNP0276 2 96970655 C T SNP0955 4 117616979 G C SNP1634 19 43264079 T G
SNP0277 2 96970693 C T SNP0956 4 117617088 C T SNP1635 19 43264153 A G
SNP0278 2 96970845 C T SNP0957 4 117618337 G A SNP1636 19 43264341 A T
SNP0279 2 96971072 C G SNP0958 4 117618887 A G SNP1637 19 43264394 T C
SNP0280 2 96971285 G C SNP0959 4 117619293 G T SNP1638 19 43264475 A T
SNP0281 2 96971297 C T SNP0960 4 117619772 C A SNP1639 19 43265354 T C
SNP0282 2 96971325 T G SNP0961 4 117620409 G A SNP1640 19 43265825 G A
SNP0283 2 96971736 C T SNP0962 4 117620545 A G SNP1641 19 43265956 A T
SNP0284 2 96971984 A G SNP0963 4 117620954 G A SNP1642 19 43266085 G A
SNP0285 2 96972227 G A SNP0964 4 117621168 G A SNP1643 19 43267016 C T
SNP0286 2 96972386 G A SNP0965 4 117621503 T C SNP1644 19 43267096 T C
SNP0287 2 96972528 T C SNP0966 4 117621526 T C SNP1645 19 43267819 A G
SNP0288 2 96972839 T C SNP0967 4 117621666 C T SNP1646 19 43267866 G A
SNP0289 2 96972888 A G SNP0968 4 117622043 T C SNP1647 19 43268108 T C
SNP0290 2 96972983 T C SNP0969 4 117623255 C T SNP1648 19 43268610 C G
SNP0291 2 96973049 A T SNP0970 4 117624046 C T SNP1649 19 43269501 C G
SNP0292 2 96973134 G A SNP0971 4 117624964 A G SNP1650 19 43269549 C T
SNP0293 2 96973963 G A SNP0972 4 117626741 T C SNP1651 19 43269586 G A
SNP0294 2 96974032 C T SNP0973 4 117627208 C T SNP1652 19 43269965 G A
SNP0295 2 96974250 A C SNP0974 4 117627518 G A SNP1653 19 43270126 G A
SNP0296 2 96974567 T C SNP0975 4 117627705 C T SNP1654 19 43270293 C T
SNP0297 2 96974764 C T SNP0976 4 117628220 G C SNP1655 19 43270401 C A
SNP0298 2 96974783 G A SNP0977 4 117628750 G A SNP1656 19 43270791 G C
SNP0299 2 96975254 G C SNP0978 4 117629141 C A SNP1657 19 43270935 G C
SNP0300 2 96975455 C A SNP0979 4 117629155 T C SNP1658 19 43273795 G A
SNP0301 2 96975649 G A SNP0980 4 117629221 G A SNP1659 19 43274540 C G
SNP0302 2 96975668 T C SNP0981 4 117630100 T C SNP1660 19 43274934 T C
SNP0303 2 96975985 C T SNP0982 4 117630591 T C SNP1661 19 43276110 G A
SNP0304 2 96976473 C T SNP0983 4 117633124 C T SNP1662 19 43276164 T A
SNP0305 2 96976848 A G SNP0984 4 117633146 A C SNP1663 19 43276246 A G
SNP0306 2 96977005 T C SNP0985 4 117633151 C T SNP1664 19 43276261 T C
SNP0307 2 96978240 T G SNP0986 4 117633931 C T SNP1665 19 43276466 C T
SNP0308 2 96979672 T C SNP0987 4 117634883 T C SNP1666 19 43276741 C T
SNP0309 2 96979966 C T SNP0988 4 117634901 A G SNP1667 19 43277322 C T
SNP0310 2 96979969 C T SNP0989 4 117636042 C T SNP1668 19 43277325 A T
SNP0311 2 96979974 C T SNP0990 4 117636508 C T SNP1669 19 43277391 G A
SNP0312 2 96980145 T C SNP0991 4 117637035 G C SNP1670 19 43277597 G A
SNP0313 2 96980169 C T SNP0992 4 117637361 G A SNP1671 19 43277821 G A
SNP0314 2 96980261 G C SNP0993 4 117637949 A G SNP1672 19 43278611 T A
SNP0315 2 96980294 T C SNP0994 4 117638012 C T SNP1673 19 43278638 C A
SNP0316 2 96980311 A G SNP0995 4 117638837 T C SNP1674 19 43278734 T C
SNP0317 2 96980500 G A SNP0996 4 117639226 G A SNP1675 19 43278772 C A
SNP0318 2 96980546 G C SNP0997 4 117640208 C T SNP1676 19 43279009 A T
SNP0319 2 96980561 G A SNP0998 4 117640223 T C SNP1677 19 43279711 T C
SNP0320 2 96980726 G A SNP0999 4 117640392 G A SNP1678 19 43279779 G C
SNP0321 2 96981265 A G SNP1000 4 117640462 C T SNP1679 19 43279925 C T
SNP0322 2 96981697 G A SNP1001 4 117641530 C A SNP1680 19 43280584 T C
SNP0323 2 96981774 A C SNP1002 4 117641632 A G SNP1681 19 43281886 A G
SNP0324 2 96981997 A G SNP1003 4 117641821 A C SNP1682 19 43282421 A G
SNP0325 2 96982010 A G SNP1004 4 117641967 A T SNP1683 19 43282794 C T
SNP0326 2 96982077 G T SNP1005 4 117642216 G A SNP1684 19 43284862 T G
SNP0327 2 96982193 C T SNP1006 4 117642217 T G SNP1685 19 43285333 T A
SNP0328 2 96982275 T C SNP1007 4 117642441 G C SNP1686 19 43285386 T A
SNP0329 2 96982320 G A SNP1008 4 117643107 A G SNP1687 19 43286240 C T
SNP0330 2 96982399 A C SNP1009 4 117643189 A G SNP1688 19 43287133 C T
SNP0331 2 96982731 C T SNP1010 4 117643874 C T SNP1689 19 43287548 A C
SNP0332 2 96983131 T C SNP1011 4 117644468 T C SNP1690 19 43287694 G C
SNP0333 2 96983507 T C SNP1012 4 117644577 A G SNP1691 19 43287790 T C
SNP0334 2 96983584 A T SNP1013 4 117644578 C T SNP1692 19 43288095 A C
SNP0335 2 96983632 A C SNP1014 4 117644612 A G SNP1693 19 43288202 T C
SNP0336 2 96983733 T C SNP1015 4 117644639 T G SNP1694 19 43288711 G C
SNP0337 2 96983894 T A SNP1016 4 117644999 G C SNP1695 19 43288738 C T
SNP0338 2 96984220 T G SNP1017 4 117645038 C A SNP1696 19 43288877 A G
SNP0339 2 96984934 G A SNP1018 4 117645657 A G SNP1697 19 43288904 C G
SNP0340 2 96985258 G A SNP1019 4 117645763 G A SNP1698 19 43288973 T C
SNP0341 2 96985622 A G SNP1020 4 117646013 T C SNP1699 19 43289119 A G
SNP0342 2 96985625 A G SNP1021 4 117646463 T A SNP1700 19 43291662 G A
SNP0343 2 96985948 G A SNP1022 4 117646534 T C SNP1701 19 43292403 G A
SNP0344 2 96985975 G A SNP1023 4 117646563 A G SNP1702 19 43293433 C G
SNP0345 2 96986016 T G SNP1024 4 117646602 T G SNP1703 19 43293505 C A
SNP0346 2 96986219 T C SNP1025 4 117647672 G A SNP1704 19 43293903 C T
SNP0347 2 96986425 A G SNP1026 4 117648965 G A SNP1705 19 43293931 A G
SNP0348 2 96986720 G A SNP1027 4 117649166 T C SNP1706 19 43294206 C T
SNP0349 2 96986807 C T SNP1028 4 117649687 A G SNP1707 19 43294434 A G
SNP0350 2 96987003 T C SNP1029 4 117649694 C T SNP1708 19 43295705 C G
SNP0351 2 96987162 G A SNP1030 4 117649826 C T SNP1709 19 43295904 G A
SNP0352 2 96987223 T C SNP1031 10 85877355 A G SNP1710 19 43295918 C T
SNP0353 2 96987434 C A SNP1032 10 85878097 T G SNP1711 19 43296065 C A
SNP0354 2 96987711 A C SNP1033 10 85878533 A G SNP1712 19 43296225 T C
SNP0355 2 96987929 T C SNP1034 10 85879303 C T SNP1713 19 43296430 C T
SNP0356 2 96987990 C T SNP1035 10 85879351 C G SNP1714 19 43296431 G A
SNP0357 2 96988220 A G SNP1036 10 85879559 C G SNP1715 19 43296472 T C
SNP0358 2 96988822 A C SNP1037 10 85879837 G C SNP1716 19 43296539 T G
SNP0359 2 96989516 A C SNP1038 10 85879932 A G SNP1717 19 43296769 T C
SNP0360 2 96989562 C T SNP1039 10 85879949 A G SNP1718 19 43296800 C T
SNP0361 2 96989644 C T SNP1040 10 85880280 G A SNP1719 19 43296918 A G
SNP0362 2 96990150 A T SNP1041 10 85880379 C G SNP1720 19 43296921 G A
SNP0363 2 96990357 T C SNP1042 10 85880380 A G SNP1721 19 43296982 G C
SNP0364 2 96990364 C T SNP1043 10 85880448 T C SNP1722 19 43297223 A G
SNP0365 2 96990402 A G SNP1044 10 85880525 G A SNP1723 19 43297274 T A
SNP0366 2 96991294 C T SNP1045 10 85880670 T C SNP1724 19 43297276 G A
SNP0367 2 96991643 C T SNP1046 10 85880678 T C SNP1725 19 43297349 C G
SNP0368 2 96991752 A G SNP1047 10 85880724 C T SNP1726 19 43299034 T C
SNP0369 2 96991843 T G SNP1048 10 85880734 G A SNP1727 19 43299830 T C
SNP0370 2 96991909 C G SNP1049 10 85880805 C A SNP1728 19 43300193 A G
SNP0371 2 96992107 A G SNP1050 10 85880840 C A SNP1729 19 43300247 T C
SNP0372 2 96992691 T G SNP1051 10 85881139 A G SNP1730 19 43300478 C A
SNP0373 2 96993458 T A SNP1052 10 85881426 C T SNP1731 19 43300481 C T
SNP0374 2 96993622 T C SNP1053 10 85881441 T C SNP1732 19 43300578 G A
SNP0375 2 96994239 C T SNP1054 10 85881547 C T SNP1733 19 43300680 A C
SNP0376 2 96994586 C T SNP1055 10 85881808 C T SNP1734 19 43300843 C T
SNP0377 2 96995021 A C SNP1056 10 85881859 C T SNP1735 19 43300864 A G
SNP0378 2 96995929 C T SNP1057 10 85882523 G A SNP1736 19 43301505 T G
SNP0379 2 96997059 C A SNP1058 10 85882535 A G SNP1737 19 43301768 T C
SNP0380 2 96997446 G A SNP1059 10 85882901 T C SNP1738 19 43301862 C T
SNP0381 2 96999052 T C SNP1060 10 85883624 A G SNP1739 19 43301878 C A
SNP0382 2 96999887 T C SNP1061 10 85884793 T C SNP1740 19 43302042 T C
SNP0383 3 112400166 A G SNP1062 10 85884885 G A SNP1741 19 43302383 G A
SNP0384 3 112400553 A G SNP1063 10 85885176 C G SNP1742 19 43302805 A C
SNP0385 3 112400965 C T SNP1064 10 85886617 T C SNP1743 19 43302847 A C
SNP0386 3 112401037 G A SNP1065 10 85886699 C G SNP1744 19 43303247 T C
SNP0387 3 112401134 T G SNP1066 10 85886812 G A SNP1745 19 43303723 G A
SNP0388 3 112401169 C T SNP1067 10 85889163 C T SNP1746 19 43304123 T C
SNP0389 3 112401282 G A SNP1068 10 85889259 T G SNP1747 19 43304171 A G
SNP0390 3 112401650 G A SNP1069 10 85890190 C T SNP1748 19 43304313 C T
SNP0391 3 112401815 A G SNP1070 10 85890293 C T SNP1749 19 43304314 G A
SNP0392 3 112401856 A C SNP1071 10 85890376 A G SNP1750 19 43304492 C T
SNP0393 3 112402053 G C SNP1072 10 85890555 C T SNP1751 19 43304761 G T
SNP0394 3 112402129 A G SNP1073 10 85890639 A G SNP1752 19 43306704 C T
SNP0395 3 112402790 C T SNP1074 10 85891779 C T SNP1753 19 43306737 A G
SNP0396 3 112403397 G A SNP1075 10 85891780 A G SNP1754 19 43306822 C T
SNP0397 3 112403581 G A SNP1076 10 85892066 G C SNP1755 19 43306860 C T
SNP0398 3 112403894 C T SNP1077 10 85892368 T C SNP1756 19 43307463 A G
SNP0399 3 112405906 G A SNP1078 10 85892674 G A SNP1757 19 43307548 C T
SNP0400 3 112406943 T C SNP1079 10 85892810 A G SNP1758 19 43307637 C A
SNP0401 3 112406962 G A SNP1080 10 85893012 G A SNP1759 19 43307937 C T
SNP0402 3 112407074 C A SNP1081 10 85893331 A G SNP1760 19 43308430 C T
SNP0403 3 112407341 T A SNP1082 10 85893356 G T SNP1761 19 43308434 G A
SNP0404 3 112407429 T G SNP1083 10 85893662 G A SNP1762 19 43308603 C T
SNP0405 3 112407436 G A SNP1084 10 85893738 G A SNP1763 19 43308678 C G
SNP0406 3 112407464 A G SNP1085 10 85893740 T C SNP1764 19 43308886 T C
SNP0407 3 112407700 C T SNP1086 10 85894421 G A SNP1765 19 43308901 A G
SNP0408 3 112407736 T C SNP1087 10 85894998 C G SNP1766 19 43308945 A G
SNP0409 3 112407758 G A SNP1088 10 85896081 T C SNP1767 19 43309064 T C
SNP0410 3 112408324 G A SNP1089 10 85896093 T C SNP1768 19 43309083 T C
SNP0411 3 112408899 C A SNP1090 10 85896932 A G SNP1769 19 43309289 T C
SNP0412 3 112409880 A G SNP1091 10 85897284 G C SNP1770 19 43309653 G T
SNP0413 3 112416706 A G SNP1092 10 85897740 C T SNP1771 19 43312055 A G
SNP0414 3 112421594 G A SNP1093 10 85897787 C T SNP1772 19 43312185 T A
SNP0415 3 112431348 T C SNP1094 10 85899651 C T SNP1773 19 43314845 C T
SNP0416 3 112431514 G A SNP1095 10 85901644 G A SNP1774 19 43319126 T C
SNP0417 3 112431662 T C SNP1096 10 85902894 C T SNP1775 19 43319696 A C
SNP0418 3 112432392 C T SNP1097 10 85903780 C G SNP1776 19 43321298 T G
SNP0419 3 112432944 G A SNP1098 10 85903782 G T SNP1777 19 43323805 T A
SNP0420 3 112433040 T C SNP1099 10 85904190 C T SNP1778 19 43324037 C G
SNP0421 3 112433565 T C SNP1100 10 85904201 C A SNP1779 19 43324423 C T
SNP0422 3 112433641 C T SNP1101 10 85904884 T C SNP1780 19 43324688 T C
SNP0423 3 112433700 A G SNP1102 10 85905036 C T SNP1781 23 61275192 A T
SNP0424 3 112433849 C T SNP1103 10 85907660 A G SNP1782 23 61275670 G T
SNP0425 3 112434307 C T SNP1104 10 85907746 A G SNP1783 23 61275708 A G
SNP0426 3 112434508 T C SNP1105 10 85908754 G A SNP1784 23 61275839 G A
SNP0427 3 112434602 T G SNP1106 10 85910036 G A SNP1785 23 61276705 G A
SNP0428 3 112434612 G A SNP1107 10 85910196 T C SNP1786 23 61278894 A G
SNP0429 3 112434617 A C SNP1108 10 85910806 C T SNP1787 23 61278916 T C
SNP0430 3 112434948 A G SNP1109 10 85912040 G A SNP1788 23 61278976 G A
SNP0431 3 112434996 T C SNP1110 10 85913063 C T SNP1789 23 61279124 C T
SNP0432 3 112435018 T C SNP1111 10 85913249 T C SNP1790 23 61281011 T C
SNP0433 3 112435225 C A SNP1112 10 85913334 A G SNP1791 23 61281452 C T
SNP0434 3 112435362 G A SNP1113 10 85913450 C G SNP1792 23 61281669 A G
SNP0435 3 112435446 G A SNP1114 10 85914181 G A SNP1793 23 61283011 C T
SNP0436 3 112436202 T C SNP1115 10 85914472 C T SNP1794 23 61283519 T C
SNP0437 3 112436274 A G SNP1116 10 85915110 A G SNP1795 23 61283787 C T
SNP0438 3 112436844 A G SNP1117 10 85915302 C G SNP1796 23 61284890 G A
SNP0439 3 112437048 A G SNP1118 10 85915339 C T SNP1797 23 61285102 G A
SNP0440 3 112437068 A G SNP1119 10 85915490 T C SNP1798 23 61285310 A G
SNP0441 3 112437683 G T SNP1120 10 85915751 C T SNP1799 23 61285365 C T
SNP0442 3 112437920 T C SNP1121 10 85916373 C T SNP1800 23 61287475 C T
SNP0443 3 112437929 A G SNP1122 10 85916536 T C SNP1801 23 61287571 C T
SNP0444 3 112438078 G T SNP1123 10 85916656 C T SNP1802 23 61288294 T C
SNP0445 3 112438170 G A SNP1124 10 85916770 C G SNP1803 23 61292250 A G
SNP0446 3 112438349 C A SNP1125 10 85917154 G A SNP1804 23 61293817 C T
SNP0447 3 112438378 T G SNP1126 10 85917482 T C SNP1805 23 61293974 G A
SNP0448 3 112438427 C T SNP1127 10 85918389 C T SNP1806 23 61294492 C T
SNP0449 3 112438475 A G SNP1128 10 85918492 C G SNP1807 23 61294547 G A
SNP0450 3 112438709 G A SNP1129 10 85918761 T C SNP1808 23 61294621 T C
SNP0451 3 112439248 C T SNP1130 10 85919106 T C SNP1809 23 61295159 T G
SNP0452 3 112439739 T C SNP1131 10 85919200 C T SNP1810 23 61295561 T C
SNP0453 3 112440985 T C SNP1132 10 85919204 T G SNP1811 23 61296481 G C
SNP0454 3 112441183 G A SNP1133 10 85919405 A G SNP1812 23 61300052 A G
SNP0455 3 112441379 T C SNP1134 10 85919658 T C SNP1813 23 61300125 T A
SNP0456 3 112441991 A C SNP1135 10 85919723 T C SNP1814 23 61300164 G A
SNP0457 3 112442154 T C SNP1136 10 85920143 C T SNP1815 23 61301064 C T
SNP0458 3 112442695 G A SNP1137 10 85920163 G C SNP1816 23 61302117 A G
SNP0459 3 112443048 G A SNP1138 10 85920321 A C SNP1817 23 61302146 T C
SNP0460 3 112443431 C T SNP1139 10 85921512 A C SNP1818 23 61302147 G C
SNP0461 3 112444570 G C SNP1140 10 85921620 T C SNP1819 23 61302249 A G
SNP0462 3 112446293 C T SNP1141 10 85921664 G A SNP1820 23 61302498 G A
SNP0463 3 112446600 G A SNP1142 10 85921755 C T SNP1821 23 61302790 C T
SNP0464 3 112446665 G C SNP1143 10 85922220 G T SNP1822 23 61302830 T C
SNP0465 3 112446681 T G SNP1144 10 85922646 G A SNP1823 23 61302837 A G
SNP0466 3 112446716 A G SNP1145 10 85924056 A G SNP1824 23 61302984 A G
SNP0467 3 112446925 T G SNP1146 10 85925244 A C SNP1825 23 61302991 G A
SNP0468 3 112448131 T C SNP1147 10 85925416 A G SNP1826 23 61303186 T C
SNP0469 3 112448768 C T SNP1148 10 85925506 C G SNP1827 23 61303187 G A
SNP0470 3 112448884 G T SNP1149 10 85925557 C T SNP1828 23 61303402 C T
SNP0471 3 112449510 G T SNP1150 10 85925788 T C SNP1829 23 61303608 C T
SNP0472 3 112450042 T C SNP1151 10 85925830 T C SNP1830 23 61303977 G A
SNP0473 3 112450061 T C SNP1152 10 85926296 C T SNP1831 23 61304097 G A
SNP0474 3 112450315 C A SNP1153 10 85926328 C T SNP1832 23 61304320 C T
SNP0475 3 112450804 A T SNP1154 10 85926341 T G SNP1833 23 61304430 A G
SNP0476 3 112451304 A G SNP1155 10 85926346 G A SNP1834 23 61306239 C G
SNP0477 3 112452309 G A SNP1156 10 85926896 A C SNP1835 23 61306666 G A
SNP0478 3 112452495 G A SNP1157 10 85927277 C T SNP1836 23 61307157 T C
SNP0479 3 112452754 G A SNP1158 10 85927321 G C SNP1837 23 61307158 G A
SNP0480 3 112452798 A C SNP1159 10 85927456 A G SNP1838 23 61307711 C T
SNP0481 3 112452832 A G SNP1160 10 85927566 A C SNP1839 23 61308053 T C
SNP0482 3 112453104 C A SNP1161 10 85927575 A G SNP1840 23 61308089 A G
SNP0483 3 112453567 A G SNP1162 10 85927746 A G SNP1841 23 61308155 A G
SNP0484 3 112453992 G A SNP1163 10 85928031 G A SNP1842 23 61308212 G C
SNP0485 3 112454014 G A SNP1164 10 85928406 C G SNP1843 23 61308330 G A
SNP0486 3 112454206 C A SNP1165 10 85920368 C A SNP1844 23 61308364 T C
SNP0487 3 112454596 A G SNP1166 10 85929213 T C SNP1845 23 61308674 C G
SNP0488 3 112454782 C T SNP1167 10 85929218 A G SNP1846 23 61308703 A G
SNP0489 3 112455498 A G SNP1168 10 85929443 T C SNP1847 23 61308810 C T
SNP0490 3 112455617 G A SNP1169 10 85930254 G C SNP1848 23 61308952 C T
SNP0491 3 112455838 T C SNP1170 10 85930383 G C SNP1849 23 61309358 T C
SNP0492 3 112456755 A G SNP1171 10 85930639 G C SNP1850 23 61309536 T C
SNP0493 3 112456834 G A SNP1172 10 85931141 C T SNP1851 23 61309700 A C
SNP0494 3 112457235 G C SNP1173 10 85931227 A C SNP1852 23 61310018 A G
SNP0495 3 112457494 C T SNP1174 10 85931543 T C SNP1853 23 61310224 A G
SNP0496 3 112457690 C T SNP1175 10 85931800 G A SNP1854 23 61310269 A G
SNP0497 3 112457722 G T SNP1176 10 85932238 A C SNP1855 23 61310652 G A
SNP0498 3 112457726 G A SNP1177 10 85932363 C T SNP1856 23 61310797 C T
SNP0499 3 112457769 G A SNP1178 10 85932391 G A SNP1857 23 61310843 A G
SNP0500 3 112457794 T C SNP1179 10 85932949 C T SNP1858 23 61310936 T A
SNP0501 3 112457820 T C SNP1180 10 85933017 T C SNP1859 23 61310965 A G
SNP0502 3 112457856 G A SNP1181 10 85933303 G A SNP1860 23 61312119 G C
SNP0503 3 112457890 G T SNP1182 10 85933321 A G SNP1861 23 61312213 A G
SNP0504 3 112457915 T A SNP1183 10 85933549 T C SNP1862 23 61312504 C G
SNP0505 3 112457927 T C SNP1184 10 85933571 G A SNP1863 23 61312770 C T
SNP0506 3 112458069 C T SNP1185 10 85933573 C T SNP1864 23 61312775 C T
SNP0507 3 112458074 C T SNP1186 10 85934674 G A SNP1865 23 61312900 T C
SNP0508 3 112458104 C A SNP1187 10 85934736 G A SNP1866 23 61312927 C T
SNP0509 3 112458143 G A SNP1188 10 85934869 T C SNP1867 23 61312984 C T
SNP0510 3 112458208 G A SNP1189 10 85934985 T C SNP1868 23 61313068 C A
SNP0511 3 112458509 C T SNP1190 10 85934986 G A SNP1869 23 61313074 A G
SNP0512 3 112458660 T C SNP1191 10 85935135 G A SNP1870 23 61313315 G T
SNP0513 3 112458819 T C SNP1192 10 85935209 C A SNP1871 23 61313319 G A
SNP0514 3 112459046 A G SNP1193 10 85935669 T C SNP1872 23 61313446 G T
SNP0515 3 112459118 A G SNP1194 10 85935994 C T SNP1873 23 61313567 G C
SNP0516 3 112459141 G A SNP1195 10 85937077 G A SNP1874 23 61313575 C T
SNP0517 3 112459150 T C SNP1196 10 85937357 T C SNP1875 23 61313633 T C
SNP0518 3 112459341 C T SNP1197 10 85937463 T A SNP1876 23 61313669 C T
SNP0519 3 112459722 G A SNP1198 10 85937504 C T SNP1877 23 61313861 C T
SNP0520 3 112459793 G T SNP1199 10 85937573 C T SNP1878 23 61313930 A G
SNP0521 3 112459896 T C SNP1200 10 85937602 C T SNP1879 23 61313939 G A
SNP0522 3 112459947 C T SNP1201 10 85937614 C T SNP1880 23 61314070 C G
SNP0523 3 112459998 G A SNP1202 10 85937699 A G SNP1881 23 61314221 A C
SNP0524 3 112460055 C A SNP1203 10 85937874 G A SNP1882 23 61314247 T C
SNP0525 3 112460440 T C SNP1204 10 85938481 A C SNP1883 23 61314333 T G
SNP0526 3 112461252 C T SNP1205 10 85939115 T A SNP1884 23 61314348 C A
SNP0527 3 112461368 C G SNP1206 10 85939116 C A SNP1885 23 61314446 C T
SNP0528 3 112464846 C T SNP1207 10 85942040 A G SNP1886 23 61314921 G A
SNP0529 3 112465011 A G SNP1208 10 85943950 T C SNP1887 23 61314960 A C
SNP0530 3 112465121 G C SNP1209 10 85944487 A T SNP1888 23 61315017 T C
SNP0531 3 112465192 A G SNP1210 10 85946254 C T SNP1889 23 61315555 G A
SNP0532 3 112465500 A G SNP1211 10 85946534 G A SNP1890 23 61315659 A T
SNP0533 3 112465620 G A SNP1212 10 85946727 G A SNP1891 23 61315722 C T
SNP0534 3 112466096 C T SNP1213 10 85947571 A G SNP1892 23 61315833 C A
SNP0535 3 112466444 A C SNP1214 10 85947724 A G SNP1893 23 61316103 A G
SNP0536 3 112466522 T C SNP1215 10 85949624 T C SNP1894 23 61316109 G A
SNP0537 3 112466614 T C SNP1216 10 85949657 G A SNP1895 23 61316145 A G
SNP0538 3 112467209 C T SNP1217 10 85949665 A G SNP1896 23 61316192 C T
SNP0539 3 112468348 G A SNP1218 10 85950284 G A SNP1897 23 61316234 A C
SNP0540 3 112468501 G A SNP1219 10 85951060 G A SNP1898 23 61316270 A G
SNP0541 3 112468640 G A SNP1220 10 85953623 G T SNP1899 23 61316306 C G
SNP0542 3 112469121 T C SNP1221 10 85954267 C T SNP1900 23 61316566 A C
SNP0543 3 112469222 A C SNP1222 10 85954379 G A SNP1901 23 61316662 A T
SNP0544 3 112469323 A G SNP1223 10 85954769 A G SNP1902 23 61316682 G A
SNP0545 3 112469384 T C SNP1224 10 85955760 A G SNP1903 23 61316710 C T
SNP0546 3 112469514 T C SNP1225 10 85955776 C T SNP1904 23 61317066 C T
SNP0547 3 112469522 A C SNP1226 10 85955944 G A SNP1905 23 61317466 T G
SNP0548 3 112469553 T A SNP1227 10 85956535 C T SNP1906 23 61317586 G A
SNP0549 3 112469650 G A SNP1228 10 85957579 C T SNP1907 23 61317909 G A
SNP0550 3 112469728 A G SNP1229 10 85957803 G A SNP1908 23 61317995 G A
SNP0551 3 112469744 C A SNP1230 10 85958356 C T SNP1909 23 61318031 G A
SNP0552 3 112469765 T C SNP1231 10 85958481 G A SNP1910 23 61318033 G A
SNP0553 3 112469823 G A SNP1232 10 85958583 C G SNP1911 23 61318069 G T
SNP0554 3 112470495 C T SNP1233 10 85959272 G A SNP1912 23 61318193 T A
SNP0555 3 112470506 A G SNP1234 10 85959315 C T SNP1913 23 61318235 A G
SNP0556 3 112470512 C A SNP1235 10 85959364 C T SNP1914 23 61318354 T C
SNP0557 3 112470898 A C SNP1236 10 85959439 C T SNP1915 23 61318679 G A
SNP0558 3 112471325 T A SNP1237 10 85959472 G A SNP1916 23 61318948 T C
SNP0559 3 112471397 A T SNP1238 10 85960079 T C SNP1917 23 61319424 A G
SNP0560 3 112471472 C T SNP1239 10 85960181 C T SNP1918 23 61319456 T C
SNP0561 3 112471566 T G SNP1240 10 85960209 G C SNP1919 23 61319481 T G
SNP0562 3 112472058 A G SNP1241 10 85960308 G A SNP1920 23 61319498 T C
SNP0563 3 112472138 G A SNP1242 10 85960355 C T SNP1921 23 61319610 G T
SNP0564 3 112472274 T A SNP1243 10 85964118 A T SNP1922 23 61319685 G T
SNP0565 3 112472285 A C SNP1244 10 85964209 T C SNP1923 23 61319703 C T
SNP0566 3 112472448 T C SNP1245 10 85965056 A G SNP1924 23 61320017 G T
SNP0567 3 112472644 A C SNP1246 10 85967201 G A SNP1925 23 61320366 T C
SNP0568 3 112473231 C G SNP1247 10 85967510 A G SNP1926 23 61320486 G A
SNP0569 3 112473345 C T SNP1248 10 85967911 A G SNP1927 23 61320608 A G
SNP0570 3 112473370 A G SNP1249 10 85968068 G A SNP1928 23 61320628 A C
SNP0571 3 112473673 G T SNP1250 10 85968332 G A SNP1929 23 61321388 C A
SNP0572 3 112475835 G A SNP1251 10 85968640 A G SNP1930 23 61321411 C A
SNP0573 3 112475975 G A SNP1252 10 85970684 T C SNP1931 23 61321849 G A
SNP0574 3 112475991 G A SNP1253 10 85971027 T C SNP1932 23 61321863 G A
SNP0575 3 112476100 A G SNP1254 10 85971721 C A SNP1933 23 61321876 G A
SNP0576 3 112476147 A G SNP1255 10 85972032 G T SNP1934 23 61322278 G A
SNP0577 3 112476910 C T SNP1256 10 85972954 A G SNP1935 23 61322360 A G
SNP0578 3 112477160 A C SNP1257 10 85974251 C T SNP1936 23 61322841 C T
SNP0579 3 112477197 G C SNP1258 10 85974332 G C SNP1937 23 61323676 G A
SNP0580 3 112477338 C T SNP1259 10 85974762 G T SNP1938 23 61323766 T C
SNP0581 3 112477394 G A SNP1260 13 24350909 A G SNP1939 23 61324562 T G
SNP0582 3 112477625 T G SNP1261 13 24351157 A G SNP1940 23 61326006 G A
SNP0583 3 112477878 A G SNP1262 13 24351191 A G SNP1941 23 61326011 T C
SNP0584 3 112478843 T C SNP1263 13 24351652 T C SNP1942 23 61326066 G A
SNP0585 3 112479266 G C SNP1264 13 24351854 A G SNP1943 23 61326081 A G
SNP0586 3 112479754 T A SNP1265 13 24352141 G A SNP1944 23 61326342 T C
SNP0587 3 112481474 A G SNP1266 13 24352465 A C SNP1945 23 61326539 C A
SNP0588 3 112484324 G A SNP1267 13 24352702 G A SNP1946 23 61326591 G A
SNP0589 3 112484996 A G SNP1268 13 24352709 T C SNP1947 23 61326657 C T
SNP0590 3 112486847 C T SNP1269 13 24352763 G A SNP1948 23 61327052 G A
SNP0591 3 112488463 T A SNP1270 13 24353598 T C SNP1949 23 61327069 G A
SNP0592 3 112488510 C T SNP1271 13 24353599 G A SNP1950 23 61327116 G A
SNP0593 3 112488679 C T SNP1272 13 24354218 G C SNP1951 23 61327120 T C
SNP0594 3 112490191 A G SNP1273 13 24354241 G A SNP1952 23 61327246 C T
SNP0595 3 112490882 T C SNP1274 13 24354280 A G SNP1953 23 61327424 G C
SNP0596 3 112490897 C T SNP1275 13 24354319 T G SNP1954 23 61327575 G A
SNP0597 3 112491070 G A SNP1276 13 24354508 A C SNP1955 23 61328078 C T
SNP0598 3 112491273 A G SNP1277 13 24354639 A G SNP1956 23 61328276 G T
SNP0599 3 112491383 C A SNP1278 13 24354642 A G SNP1957 23 61328503 A G
SNP0600 3 112491407 C A SNP1279 13 24354644 C T SNP1958 23 61328877 T G
SNP0601 3 112491458 G A SNP1280 13 24354958 C T SNP1959 23 61329577 G A
SNP0602 3 112491521 A C SNP1281 13 24355030 C T SNP1960 23 61329736 G A
SNP0603 3 112491837 C A SNP1282 13 24355032 G T SNP1961 23 61330071 C G
SNP0604 3 112491865 A G SNP1283 13 24355360 A G SNP1962 23 61330131 A G
SNP0605 3 112492308 C T SNP1284 13 24355536 T C SNP1963 23 61330475 C G
SNP0606 3 112492363 G A SNP1285 13 24355915 T A SNP1964 23 61330902 G A
SNP0607 3 112492817 G A SNP1286 13 24355960 A T SNP1965 23 61330971 A G
SNP0608 3 112492871 A C SNP1287 13 24356196 C G SNP1966 23 61331157 G A
SNP0609 3 112493502 G A SNP1288 13 24356687 G A SNP1967 23 61331175 C A
SNP0610 3 112493560 G A SNP1289 13 24356805 A G SNP1968 23 61331386 G A
SNP0611 3 112494021 G A SNP1290 13 24356874 G A SNP1969 23 61331440 T G
SNP0612 3 112494398 T C SNP1291 13 24357112 C T SNP1970 23 61331532 T C
SNP0613 3 112494482 T G SNP1292 13 24357268 C T SNP1971 23 61331600 A G
SNP0614 3 112494631 A C SNP1293 13 24360283 A G SNP1972 23 61331767 T C
SNP0615 3 112494845 G A SNP1294 13 24360339 A G SNP1973 23 61332239 G C
SNP0616 3 112494923 A G SNP1295 13 24360383 T C SNP1974 23 61333119 A G
SNP0617 3 112494930 G C SNP1296 13 24360627 G A SNP1975 23 61333465 A G
SNP0618 3 112495665 T A SNP1297 13 24360875 C A SNP1976 23 61334004 G A
SNP0619 3 112495738 C G SNP1298 13 24361053 C A SNP1977 23 61334084 T C
SNP0620 3 112495767 A G SNP1299 13 24361157 T C SNP1978 23 61334147 G A
SNP0621 3 112496384 A C SNP1300 13 24361163 T C SNP1979 23 61334424 G C
SNP0622 3 112496631 G A SNP1301 13 24361178 G A SNP1980 23 61334458 G T
SNP0623 3 112496739 G A SNP1302 13 24361327 T G SNP1981 23 61334567 C A
SNP0624 3 112496831 A T SNP1303 13 24361613 A T SNP1982 23 61334588 T C
SNP0625 3 112496845 T C SNP1304 13 24361643 G A SNP1983 23 61334611 C T
SNP0626 3 112496932 T A SNP1305 13 24361737 G A SNP1984 23 61334663 A T
SNP0627 3 112497023 A G SNP1306 13 24361985 C T SNP1985 23 61334744 T C
SNP0628 3 112497412 A G SNP1307 13 24362137 C G SNP1986 23 61334784 T C
SNP0629 3 112497454 T C SNP1308 13 24362533 G A SNP1987 23 61334806 A G
SNP0630 3 112497834 C T SNP1309 13 24365936 G T SNP1988 23 61335287 A G
SNP0631 3 112498521 G A SNP1310 13 24380342 A G SNP1989 23 61335595 T C
SNP0632 3 112498524 G A SNP1311 13 24380755 A G SNP1990 23 61338138 G C
SNP0633 3 112498606 T C SNP1312 13 24381006 G A SNP1991 23 61338288 A G
SNP0634 3 112498638 A G SNP1313 13 24381124 G C SNP1992 23 61339402 C T
SNP0635 3 112498653 T C SNP1314 13 24381198 G T SNP1993 23 61340045 A G
SNP0636 3 112498749 A G SNP1315 13 24381539 A G SNP1994 23 61340137 T C
Figure DEST_PATH_IMAGE006
Figure DEST_PATH_IMAGE008
Wherein the growth performance comprises a body length index or/body height index or/chest circumference index or/body weight index or/pre-slaughter live weight index or/dressing percentage index or/meat percentage index.
In order to achieve the technical purpose, the second aspect of the invention provides a meat sheep growth performance detection probe combination, and the probe combination detects the meat sheep growth performance SNP site combination of the first aspect.
In order to achieve the technical object of the present invention, the third aspect of the present invention provides a growth performance gene chip for meat sheep, which has the probe combination of the second aspect.
In order to achieve the technical object of the present invention, a kit for detecting growth performance of a meat sheep is provided in a fourth aspect of the present invention, which comprises the detection probe set of the second aspect or the gene chip of the third aspect.
In order to achieve the technical object of the present invention, a fifth aspect of the present invention provides the SNP site combination of the first aspect, the detection probe combination of the second aspect, the gene chip of the third aspect, or the kit of the fourth aspect, wherein the kit comprises:
(1) the application in screening sheep varieties;
(2) the application in sheep variety identification;
(3) the application in sheep breeding;
(4) the application in germplasm resource protection;
(5) application in germplasm resource improvement.
Has the advantages that:
1. the invention provides a SNP locus combination which is good in universality at home and abroad and is only composed of 2036 SNP loci of meat sheep relevant to growth performance based on the genetic resource research of a plurality of foreign meat sheep varieties and Chinese local meat sheep varieties.
2. Compared with the existing high-density chip, the probe combination, the gene chip and the kit formed on the basis of the growth performance SNP locus combination provided by the invention have the advantages of small flux, low cost, easier analysis, wide universality and wide market prospect.
Drawings
FIGS. 1-4 are Manhattan plots of growth traits in example 1 during SNP screening of different groups, respectively.
Fig. 5 is a result graph of the present application in which the determination result of the population threshold analysis is subjected to the significance test.
Detailed Description
The following examples further illustrate the present invention but are not to be construed as limiting the invention. Modifications or substitutions to methods, procedures, or conditions of the invention may be made without departing from the spirit and scope of the invention. The experimental procedures used in the following examples are all conventional procedures unless otherwise specified. Materials, reagents and the like used in the following examples are commercially available unless otherwise specified.
Example 1 growth Performance SNP site of meat sheep
1. Acquisition of Total SNP set
The method comprises the steps of carrying out high-depth sequencing on 248 meat sheep individuals including 16 wild sheep Asia Morvelon, 172 local breeds and 60 breeding breeds covering Asia, Europe, Africa and the middle east, wherein the average sequencing depth is 25.7 x, comparing with a sheep 4.0 reference genome (obtained from NCBI) issued in 2015 by two modes of SAMtols and GATK by applying a re-sequencing analysis process, and forming an SNP set by common results obtained by comparing the two modes, wherein the SNP set comprises 2836 ten thousand SNP sites.
Specifically, the high-depth sequencing of a plurality of meat sheep individuals is completed by a biological sequencing company, and the sequencing results completed by the biological sequencing company can achieve the technical purpose of the invention, which is not limited by the invention. According to the method, a Fastq file returned by a sequencing company is compared to a reference genome sheep v4.0 through BWA software to obtain a BAM file, a sample BAM file is analyzed by utilizing SAMtools and GATK software to obtain a VCF file containing group SNP typing information, VCF results obtained in the two modes are merged, and an SNP set containing 2836 ten thousand SNP sites is obtained after quality screening.
Specifically, the meat Sheep breeds used in the present invention include small tailed han Sheep, Sishui fur Sheep, cauda Han Sheep, placer Sheep from Shandong, Hu Sheep from Jiangsu, Ningxia Sheep from Ningxia, Allete Sheep, Pasteur Sheep, Dorper Sheep, merino Sheep (fine wool Sheep), merino Sheep, saffron, Mullerian black Sheep, Dolange Sheep, Waggir Sheep Sheep, Finland Sheep (Finnshel) from Finland, Weisang island Sheep (Ouessant), Shetland Sheep (Shetland), Soogote Sheep (Sologote), Solulan island Sheep (Gotland), Derenche Hechen Sheep (Drente Hehen), Bangla Sheep from Esche Sheep (Shega Sheep), Gagne Sheep (Shorgora), Boguer Sheep (Akeland), Gagne Sheep (Africa Sheep) from Africa Sheep (Africa Sheep), Gagne Sheep (Africa Sheep), Sheep (Africa Sheep) from Yan Sheep (Africa Sheep), Sheep (Africa Sheep) from Eben Fa Sheep), Sheep (Africa Sheep) from Eben Sheep (Sheep) from Eben, Wuda Sheep (Uda Sheep), Jialong Keyan Sheep from African Bukenna (Djallonk cell Sheep), Morse Sheep (Mossi Sheep), Sahellian Sheep (Sahellian Sheep), Kernel Sheep from West noncancylon (Cameroon Sheep), Arhua Sheep from Iraq (Awassi Sheep), Hamdani Sheep (Hamdani Sheep), Marzhe Sheep from Asbehabaijiang (Mazekh Sheep), Grey-Shiraz Sheep from Iran (Grey-Shiraz Sheep), Gekkel Sheep (Ghezel Sheep), African Sanli Sheep (Afshiari Sheep), Sharl Sheep (Shahr Sheep), Shal Sheep (Shal Sheep), Markui Sheep (Makui Sheep), Moghania Sheep (Morgana Sheep), Sheata Sheep from Bakura Sheep (Skura Sheep), Kakura Sheep from Askura Sheep (Askularn Sheep), and Haemarkshiro Sheep from Astro Sheep.
2. Screening of candidate genes and functional regions thereof
According to the method, the sheep varieties are grouped according to the obvious difference of growth traits between the domestic sheep varieties and the foreign sheep varieties, XP-CLR is used for sweeping the multi-locus allele frequency difference between each group of sheep to scan the functional region related to growth, meanwhile, pi ratio (namely pi value) is used for excavating the functional region related to growth in each group of sheep varieties, then the intersection of the two results is taken to screen out the functional region related to growth, Manhattan graphs generated by different groups of growth traits through XP-CLR are shown in figures 1-4, and the selection of the pi value is shown in the dotted lines in figures 1-4. Then, genes in the region are screened by referring to published gene research results, 11 candidate genes which are related to growth and have well-determined functions are finally determined, namely PECR, CSRP2, GRTP1, KIAA1217, EIF4G2, PHLPP1, ZNF687, LMBR1, FLNB, LINGO2 and POLR1A, and the functional regions corresponding to the candidate genes are further determined by perl scripts.
Specifically, in one embodiment of the invention, the sheep breeds are grouped according to the obvious differences of the domestic sheep breeds and foreign sheep breeds in growth traits, and the method comprises the following steps: since the growth characteristics of the saffron sheep and the weisang and the jungding sheep show significant differences, and the growth characteristics of the dobang sheep and the weisang and the jungding sheep show significant differences, respectively, the manhattan graph of the saffron Vs weisang sheep (SFK Vs OUE) shown in fig. 1, the manhattan graph of the saffron Vs jungding sheep (SFK Vs SHE) shown in fig. 2, the manhattan graph of the dupont sheep Vs weisang sheep (DPS Vs OUE) shown in fig. 3, and the manhattan graph of the junior sheep Vs shown in fig. 4, the junior sheep (DPS SHE) are formed by sweeping the above groups with XP-CLR.
3. Extraction of SNP sites corresponding to functional genes
Searching SNP sites corresponding to the functional regions of the candidate genes determined in the step 2 in the total SNP set by utilizing bedtools to obtain a site combination which is associated with 11 growth-related functional genes including PECR, CSRP2, GRTP1, KIAA1217, EIF4G2, PHLPP1, ZNF687, LMBR1, FLNB, LINGO2 and POLR1A and only comprises 2036 SNP sites.
EXAMPLE 2 preparation of SNP Gene chip for growth Performance of meat sheep
Based on the SNP site combinations obtained in example 1, a person skilled in the art can prepare SNP gene chips with growth performance of meat sheep in any way, and also can entrust the preparation of the SNP gene chips to bio-companies, which is not limited in the present invention, for example, Illumina company, Affymetrix company or Agilent company, and it should be noted that the gene chips prepared based on the SNP sites provided in example 1 of the present invention all belong to the protection scope of the present invention. In one embodiment of the present invention, the SNP chip for growth of meat sheep of the present application is prepared by a method of Illumina corporation, and the SNP chip comprises a glass substrate and 2036 magnetic beads in the pores of the substrate, wherein each magnetic bead is coupled with a probe for detecting the site represented by SNP0001-SNP2036 in example 1, and is used for detecting a target sample, wherein the 23-base sequence coupled to the end of the bead on the magnetic bead is an Address sequence and is also the 5' end of a DNA fragment, which is a tag sequence for identifying the micro bead. The 50 bases at the far end of the bead are 3' -terminal sequences, which are Probe sequences, and which complementarily hybridize to the target DNA and can recognize the site indicated by SNP0001-SNP2036 in example 1.
EXAMPLE 3 SNP detection kit
Based on the SNP site combinations obtained in example 1, a person skilled in the art can prepare SNP detection kits for growth performance of meat sheep in any way, and also can entrust biological companies to prepare the SNP detection kits, which are not limited in the present invention, for example, Illumina company, Affymetrix company, or Agilent company, and it should be noted that the detection kits prepared based on the SNP sites provided in example 1 of the present invention all belong to the protection scope of the present invention. In one embodiment of the present invention, in order to detect the target sample by using the gene chip provided in embodiment 2, the kit further comprises four labeled dideoxynucleotides, a polymerase, a biotin-labeled anti-streptavidin antibody, and a DNP-labeled anti-xenoantibody FC-terminal antibody.
EXAMPLE 4 detection of growth Performance of meat sheep
In one embodiment of the present invention, four labeled dideoxynucleotides and polymerase are added when the detection is performed using the gene chip prepared by the method provided by Illumina company, based on the SNP site combination obtained in example 1 or the SNP gene chip provided in example 2 or the SNP detection kit provided in example 3. Wherein A, T two nucleotides are labeled with DNP (dinitrobenzene), C, G two bases are labeled with biotin, polymerase adds a dideoxynucleotide at the 3' end of the probe and attaches a label at the same time, and then adds green fluorescence labeled streptavidin and red fluorescence labeled anti-DNP antibody. The green fluorescence labeled streptavidin specifically binds to biotin, and C, G bases with biotin are colored green. A red fluorescent-labeled anti-DNP antibody was bound to DNP to make A, T bp with DNP appear red, and a biotin-labeled anti-streptavidin antibody and a DNP-labeled anti-xenoantibody FC-terminal antibody were further added. The two antibodies are added to further amplify the fluorescent signal in cascade, and after the antibodies are combined, the free antibodies are washed away. Scanning was performed under a scanner. If the emitted light is green, the site of SNP binding is indicated to be homozygote of "G" base. If red light is emitted, the SNP site is homozygote of the A base. If the light intensity of the light of the two colors is not much, the SNP locus is a heterozygote of 'A' and 'G', if the light does not exist, the base deletion is judged, finally, the result values of the genotype frequencies of all the loci in the target sample are counted, namely, the frequencies of the reference type homozygote, the heterozygote, the mutant type homozygote and the base deletion in the 2036 loci are counted as frequency values, and the result values of the target sample are obtained after the frequency values of each genotype are accumulated.
And obtaining the judgment result of the target sample after the statistical result value is compared with the group threshold value.
Specifically, the population threshold value of the present application is obtained by analyzing a population exhibiting good growth characteristics (DPS-SFK) and a population exhibiting poor growth characteristics (OUE-SHE), in the same manner as above.
The significance test (independent sample ManWhitney U test) is carried out on the judgment results of the analysis of the population with good growth character performance (DPS-SFK) and the population with poor growth character performance (OUE-SHE), the results are shown in figure 5, as can be seen from the results in the figure, P is less than 0.01, the difference is extremely significant, and the judgment results obtained by adopting the method have accuracy and effectiveness.
Application example 1 screening of sheep breeds based on the site information of example 1
Selecting a sheep with stronger representativeness and larger popularization area of 3 unknown varieties (numbered as SZ01-SZ 03), preparing the SNP gene chip of the example 2 according to the site information provided by the example 1, detecting the growth performance of the 3 sheep varieties by using the kit provided by the example 3, comparing result values of reference homozygote, heterozygote, mutant homozygote and base deletion in 2036 sites of each sheep variety to be detected with a threshold value, and displaying the comparison result: the growth trait of accession SZ03 was poorly characterized.
The applicant breeds the sheep of the 3 unknown varieties under the same breeding condition, and observes and counts the growth and development conditions of the 3 unknown varieties in the last 2 years, and the observation shows that the growth of the numbers SZ01 and SZ02 is very fast and is obviously superior to that of SZ 03.
Industrial applications
The SNP marker, the SNP probe and the SNP chip which are prepared based on 2036 SNP loci provided by the application perform growth genetic evaluation on sheep individuals on a genome level so as to obtain higher breeding value estimation accuracy. The method selects the traits which are difficult to measure in the early stage, shortens the generation interval, accelerates the breeding process and further saves a large amount of breeding cost.

Claims (4)

1. The detection probe combination for the growth performance of the meat sheep is characterized by detecting the growth performance SNP locus combination of the meat sheep as shown in the table 1, wherein the physical position information of the detection probe combination is determined based on the sheep v4.0 genome sequence alignment;
wherein the SNP site combination comprises 2036 SNP sites which are covered in gene segments of PECR, CSRP2, GRTP1, KIAA1217, EIF4G2, PHLPP1, ZNF687, LMBR1, FLNB, LINGO2 and POLR 1A.
2. A gene chip for detecting growth performance of a meat sheep, which is loaded with the probe combination for detecting growth performance of a meat sheep according to claim 1.
3. A kit for detecting growth performance of a meat sheep, comprising the detection probe set according to claim 1 or the gene chip according to claim 2.
4. The detection probe combination of claim 1 or the gene chip of claim 2 or the kit of claim 3, having the use of any one of the following:
(1) the application in screening sheep varieties;
(2) the application in sheep variety identification;
(3) the application in sheep breeding;
(4) the application in germplasm resource protection;
(5) application in germplasm resource improvement.
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Families Citing this family (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113249495A (en) * 2021-06-29 2021-08-13 西北农林科技大学 Sheep liquid phase chip and application thereof
CN113278711B (en) * 2021-07-21 2021-11-09 中国农业大学 Gene chip, molecular probe combination, kit and application for sheep germplasm resource identification and pedigree reconstruction
CN113265476B (en) * 2021-07-21 2021-11-09 中国农业大学 Gene chip, molecular probe combination, kit and application for analyzing milk production performance of sheep
CN113278713B (en) * 2021-07-23 2021-11-09 中国农业大学 Gene chip, molecular probe combination, kit and application of sheep multi-angle character
CN113278716B (en) * 2021-07-23 2021-11-09 中国农业大学 Gene chip for analyzing characters for sheep wool, molecular probe combination, kit and application
CN113278712B (en) * 2021-07-23 2021-11-09 中国农业大学 Gene chip, molecular probe combination, kit and application for analyzing sheep hair color
CN113278715A (en) * 2021-07-23 2021-08-20 中国农业大学 Gene chip for analyzing sheep papilla number, molecular probe combination, kit and application
CN117089636B (en) * 2023-10-20 2023-12-22 中国农业大学 Molecular marker combination for analyzing goat meat performance and application
CN117385060B (en) * 2023-12-08 2024-03-26 中国科学院遗传与发育生物学研究所 SNP marker related to sheep growth performance and application thereof

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN107967409A (en) * 2017-11-24 2018-04-27 中国农业大学 One boar full-length genome low-density SNP chip and preparation method thereof and application
CN108707677A (en) * 2018-06-20 2018-10-26 湖北多羔生物育种科技有限公司 The liquid-phase chip of sheep meat SNP marker and its composition

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN107967409A (en) * 2017-11-24 2018-04-27 中国农业大学 One boar full-length genome low-density SNP chip and preparation method thereof and application
CN108707677A (en) * 2018-06-20 2018-10-26 湖北多羔生物育种科技有限公司 The liquid-phase chip of sheep meat SNP marker and its composition

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
"三个新疆地方绵羊品种全基因组SNP"指纹性"遗传信息平台的建立";李文蓉 等;《科技成果》;20170818;第1-4页 *

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