新疆黑蜂基因组选择信号分析

doi:10.16431/j.cnki.1671-7236.2022.05.019

Abstract

Abstract: 【Objective】 This study was aimed to analyze the genetic evolutionary relationship between Xinjiang Black bee and 4 introduced Apis mellifera species,and explore candidate genes related to important germplasm characteristics of Xinjiang Black bee by detecting genome selection signal.【Method】 For Xinjiang Black bee,Apis mellifera ligustica,Apis mellifera caucasica,Apis mellifera carnica,Apis mellifera mellifera,a total of 50 Apis mellifera queen individuals from 5 species and 1 Apis cerana cerana queen were analyzed by whole genome resequencing to identify single nucleotide polymorphism (SNP) markers of Xinjiang Black bee.Apis cerana cerana was taken as reference group,the evolutionary relationship of different species was clarified by constructing Neighbor-Joining tree.SNP information was used to analyze principal component and population genetic structure and linkage disequilibrium of Xinjiang Black bee.Fst and θπ were used to detect the genome-wide selection signal between Xinjiang Black bee and other Apis mellifera populations,and the GO function and KEGG pathway enrichment of candidate genes were analyzed.【Result】 A total of 1 728 216 SNPs were identified in Xinjiang Black bee,18 526 non-synonymous mutation loci might be candidate SNPs for further study on genetic characteristics of Xinjiang Black bee;The result of phylogenetic tree and principal component analysis showed that there were some differences between Xinjiang Black bee and other species,which closely related to Apis mellifera ligustica,Apis mellifera carnica,Apis mellifera mellifera,but far related to Apis mellifera caucasica.Population genetic structure analysis showed that when K>3,Xinjiang Black bee came from an independent ancestral subpopulation,which was completely different from Apis mellifera ligustica,Apis mellifera caucasica,Apis mellifera carnica,Apis mellifera mellifera.Linkage disequilibrium analysis showed that Xinjiang Black bee groups were subjected to stronger selection intensity.The results of selection signal analysis showed that the selected genes of Xinjiang Black bee were mainly enriched in biological process related to substance metabolism,reproduction and endocytosis signaling,the cell component was enriched in the orbumin,nuclear body,chromatin and film,the molecular function was mainly enriched in organic cyclic compound binding,ion bonding and others.12 candidate genes Cyp314A1,Trichohyalin-like,CCDC112,Sorbitol dehydrogenase,SPI-3,Fer3HCH,TNS1,Pten,ADSL,Octβ2R,AFFG1 and ARHGEF17 were screened according to these molecular pathways.KEGG pathway enrichment analysis showed that the selected genes of Xinjiang black bee were mainly enriched in purine metabolism,entosis and phosphoinositol metabolism.【Conclusion】 The genomic SNP revealed the genetic structure and independent genetic background of Xinjiang Black bee,this study indicated that genes associated with cold resistance and reproduction and growth development and disease resistance in the genome of Xinjiang Black bee were subjected to strong selection pressure during variety formation.These selection signals could provide important genetics information for the genetic evolution,evaluation of Xinjiang Black bee,the protection and utilization of the creation of bee resources in China.

Key words: Xinjiang Black bee; whole genome resequencing; selection signal; selected genes; germplasm characteristics

CLC Number:

S893

HE Jinming, SUN Zhiyu, LIU Yuling, XU Kai, NIU Qingsheng. Genome-wide Selection Signal Analysis of Xinjiang Black Bee[J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(5): 1786-1795.

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Genome-wide Selection Signal Analysis of Xinjiang Black Bee

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