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Ancient mitochondrial genome depicts sheep maternal dispersal and migration in Eastern Asia

Journal of Genetics and Genomics 2024年第1期51卷 87-95页

作者： Liu Yang Xing Zhang Yaning Hu Piao Zhu Hua Li Zhenyu Peng Hai Xiang Xinying Zhou xingbo zhao National Engineering Laboratory for Animal Breeding Key Laboratory of AnimalGeneticsBreeding and ReproductionMinistry of Agriculture and Rural AffairsCollege of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China Guangdong Provincial Key Laboratory of Animal Molecular Design and Precise Breeding School of Life Science and EngineeringFoshan UniversityFoshanGuangdong 528225China State Key Laboratory of Agricultural Genomics BGI-ShenzhenShenzhenGuangdong 518083China Key Laboratory of Vertebrate Evolution and Human Origins Institute of Vertebrate Paleontology and PaleoanthropologyChinese Academy of SciencesBeijing 100044China

Sheep have been one of the most important groups of animals since ancient ***,the knowledge of their migration routes and genetic relationships is still poorly *** investigate sheep maternal migration histories alongside Eurasian communications routes,in this study,we obtain mitochondrial genomes(mitogenomes)from 17 sheep remains in 6 Chinese sites and 1 Uzbekistan site dated 4429–3100 years before present(BP).By obtaining the mitogenomes from the sheep(4429–3556 BP)found in the Tongtian Cave site in Xinjiang,Altai region of northwest China,our results support the emergence of haplogroup C sheep in Xinjiang as early as 4429–3556 *** combined phylogenetic analyses with extant ancient and modern sheep mitogenomes suggest that the Uzbekistan-Altai region may have been a migration hub for early sheep in eastern *** least two migration events have taken place for sheep crossing Eurasia to China,one passing by Uzbekistan and Northwest China to the middle and lower reaches of the Yellow River at approximately 4000 BP and another following the Altai region to middle Inner Mongolia from 4429 BP to 2500 ***,this study provides further evidence for early sheep utilization and migration patterns in Eastern Asia.

关键词： Sheep Ancient DNA Eastern Asia Mitochondrial genome Migration Altai

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The phylogenetic status of typical Chinese native pigs: analyzed by Asian and European pig mitochondrial genome sequences

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Journal of Animal Science and Biotechnology 2013年第2期4卷 145-151页

作者： Guanghui Yu Hai Xiang Jikun Wang xingbo zhao National Engineering Laboratory for Animal Breeding Ministry of Agricultural Key Laboratory of Animal Genetics Breeding and Reproduction State Key Laboratory for Agribiotechnology College of Animal Science and Technology China Agricultural University

China is one of the most diverse countries, which have developed 88 indigenous pig breeds. Several studies showed that pigs were independently domesticated in multiple regions of the world. The purpose of this study was to investigate the origin and evolution of Chinese pigs using complete mitochondrial genomic sequences (mtDNA) from Asian and European domestic pigs and wild boars. Thirty primer pairs were designed to determine the mtDNA sequences of Xiang pig, Large White, Lantang, Jinhua and Pietrain. The phylogenetic status of Chinese native pigs was investigated by comparing the mtDNA sequences of complete coding regions and D-loop regions respectively amongst Asian breeds, European breeds and wild boars. The analyzed results by two cluster methods contributed to the same conclusion that all pigs were classified into two major groups, European clade and Asian clade. It revealed that Chinese pigs were only recently diverged from each other and distinctly different from European pigs. Berkshire was clustered with Asian pigs and Chinese pigs were involved in the development of Berkshire breeding. The Malaysian wild boar had distant genetic relationship with European and Asian pigs. Jinhua and Lanyu pigs had more nucleotide diversity with Chinese pigs although they all belonged to the Asian major clade. Chinese domestic pigs were clustered with wild boars in Yangtze River region and South China.

关键词： Mitochondrial DNA Origin and evolution Phylogenetic analysis Pig

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Mitochondrial DNA T7719G in tRNA-Lys gene affects litter size in Small-tailed Han sheep

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Journal of Animal Science and Biotechnology 2017年第3期8卷 568-573页

作者： Xiaoyong Chen Dan Wang Hai Xiang Weitao Dun Dave O.H.Brahi Tao Yin xingbo zhao College of Animal Science and Technology China Agricultural University Beijing 100193 China Institute of Animal Science and Veterinary of Hebei Province Baoding 071000 China

Background： In farm animals, mitochondrial DNA（mtDNA） effect on economic performance remains hot-topic for breeding and genetic selection. Here, 53 maternal lineages of Small-tailed Han sheep were used to investigate the association of mitochondrial DNA variations and the lambing litter ***： Sequence sweeping of the mitochondrial coding regions discovered 31 non-synonymous mutations, and the association study revealed that T7719G in mt DNA t RNA-Lys gene was associated with litter size（P 〈 0.05）,manifesting 0.29 lambs per litter between the G and T carriers. Furthermore, using the mixed linear model, we assayed the potential association of the ovine litter size and haplogroups and multiple-level mtDNA haplotypes,including general haplotypes, assembled haplotypes of electron transport chain contained sequences（H-ETC）,mitochondrial respiratory complex contained sequences（H-MRC） and mitochondrial genes（H-gene, including polypeptide-coding genes, rRNA genes and tRNA genes）. The strategy for assembled mitochondrial haplotypes was proposed for the first time in mtDNA association analyses on economic traits, although none of the significant relations could be concluded（P 〉 0.05）. In addition, the nuclear major gene BMPR1B was significantly correlated with litter size in the flock（P 〈 0.05）, however, did not interact with mtDNA T7719G mutation（P 〉 0.05）.Conclusions： Our results highlight mutations of ovine mitochondrial coding genes, suggesting T7719G in tRNA-Lys gene be a potentially useful marker for selection of sheep litter size.

关键词： Association Haplotype Mitochondria Non-synonymous mutation Reproduction Sheep

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Origin and phylogenetic analysis of Tibetan Mastiff based on the mitochondrial DNA sequence

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Journal of Genetics and Genomics 2008年第6期35卷 335-340页

作者： Qifa Li Zhenshan Liu Yinxia Li xingbo zhao Liyan Dong Zengxiang Pan Yuanrong Sun Ning Li Yinxue Xu Zhuang Xie Laboratory of Animal Reproductive Genetics and Molecular Evolution College of Animal Science and Technology Nanjing Agricultural University Nanjing 210095 China State Key Laboratory for Agribiotechnology China Agricultural University Beijing 100094 China

At present, the Tibetan Mastiff is the oldest and most ferocious dog in the world. However, the origin of the Tibetan Mastiff and its phylogenetic relationship with other large breed dogs such as Saint Bernard are unclear. In this study, the primers were designed accord- ing to the mitochondrial genome sequence of the domestic dog, and the 2,525 bp mitochondrial sequence, containing the whole sequence of Cytochrome b, tRNA-Thr, tRNA-Pro, and control region of the Tibetan Mastiff, was obtained. Using grey wolves and coyotes as out- groups, the Tibetan Mastiff and 12 breeds of domestic dogs were analyzed in phylogenesis. Tibetan Mastiff, domestic dog breeds, and grey wolves were clustered into a group and coyotes were clustered in a group separately. This indicated that the Tibetan Mastiff and the other domestic dogs originated from the grey wolf, and the Tibetan Mastiff belonged to Carnivora, Canidae, Canis, Canis lupus, Canis lupus familiaris on the animal taxonomy. In domestic dogs, the middle and small breed dogs were clustered at first; German Sheepdog, Swedish Elkhound, and Black Russian Terrier were clustered into one group, and the Tibetan Mastiff, Old English Sheepdog, Leonberger, and Saint Bernard were clustered in another group. This confirmed the viewpoint that many of the famous large breed dogs worldwide such as Saint Bernard possibly had the blood lineage of the Tibetan Mastiff, based on the molecular data. According to the substitution rate, we concluded that the approximate divergence time between Tibetan Mastiff and grey wolf was 58,000 years before the present （YBP）, and the approximate divergence time between other domestic dogs and grey wolf was 42,000 YBP, demonstrating that the time of origin of the Tibetan Mastiff was earlier than that of the other domestic dogs.

关键词： Tibetan Mastiff domestic dog mitochondrial DNA origin taxonomic status phylogenetic relationship

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Measurement of trimethylamine concentration and evaluation of pig meat natural quality by a spectrophotometric method

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Frontiers of Agricultural Science and Engineering 2014年第3期1卷 236-241页

作者： Mohammod Abdul HAMID Xi WANG Xiangdong DING Chuduan WANG xingbo zhao National Engineering Laboratory for Animal Breeding Ministry of AgricultureKey Laboratory of Animal Genetics and BreedingCollege of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China Institutes of Animal Science and Veterinary Medicine Shanxi Academy of Agricultural ScienceTaiyuan 030000China

Pig meat off-flavor is attributed to trimethylamine(TMA)concentration,and it is considered as the precursor of the fishy off-flavor *** this study,TMA concentrations in pig meat were determined,and the interactions with breed and gender effects were *** addition,the TMA threshold for meat off-flavor and pig meat natural quality was measured in relation to meat storage and movement,and the influential factors including the pig breed and storage time were *** results indicated positive effects on the precursor of the fishy off-flavor and the TMA *** breeds were found to have lower TMA concentrations than European breeds(P<0.01),and females and castrated males had significantly lower TMA concentration than males(P<0.01),The threshold concentration of TMA when meat was classed as off-flavored was 25μg·g^(–1),and this occurred after 35–38 h of *** natural qualities,such as appearance,flavor,color and overall acceptable scores declined significantly after 4 days in storage(P<0.01).It is concluded that pig meat off-flavor,breed and gender were essential factors affecting flavor for meat breeding programs,and storage time is important for pig meat natural quality.

关键词： pig meat trimethylamine(TMA) influential factor

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基于分歧的核心数据集筛选算法

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计算机与数字工程 2024年第5期52卷 1304-1309,1316页

作者：王纵驰刘健王培赵兴博于佳耕陶青川中国航空油料集团有限公司北京100088 航天神舟智慧系统技术有限公司北京100029 四川大学电子信息学院成都610065 中国科学院软件研究所北京100190

随着深度学习的发展,运用于训练的数据集规模日益增大,导致深度神经网络训练的效率低下。针对这种情况,提出了基于分歧的核心数据集筛选算法,即在保证训练效果的情况下对原数据集进行精简得出核心数据集。算法使用迭代的方式以有监督学... 详细信息

随着深度学习的发展,运用于训练的数据集规模日益增大,导致深度神经网络训练的效率低下。针对这种情况,提出了基于分歧的核心数据集筛选算法,即在保证训练效果的情况下对原数据集进行精简得出核心数据集。算法使用迭代的方式以有监督学习方式进行学习,通过投票网络框架计算各数据的分歧值并以此排序进行筛选。对广泛使用的CI-FAR、Fashion-MNIST以及SVHN数据集进行核心数据集筛选实验,结果表明所提出的算法在得到核心数据集规模为原始规模五分之一的同时,其训练模型的精度仅下降不超过5%。同时,其筛选出的核心数据集的泛化误差仅为0.13,其泛用性更佳。

关键词：卷积神经网络核心数据集筛选有监督学习主动学习

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Light-front Approach to Hadron Structure

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IMP & HIRFL Annual Report 2017年第1期 12-14页

作者： zhao xingbo Chandan Mondal 不详

Although Quantum chromodynamics(QCD)has been accepted as the fundamental theory for strong interaction,it remains a curious fact and a longstanding puzzle that strong interaction exhibits distinct pictures at different energy regimes:at high energy the particles behave as bound states consisting of quarks and gluons(partons)interacting through the fundamental QCD interactions,whereas at low energy protons and neutrons(nucleons)become the relevant degrees of freedom and they interact via the effective nucleon-nucleon interactions.

关键词： interaction quark QCD

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Allergic bronchopulmonary aspergillosis coexists with hereditary bisalbuminemia

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Chinese Medical Journal 2014年第7期127卷 1391-1393页

作者： Chen Xin Li Jiang zhao xingbo Department of Senior Officials Health Care China-Japan Friendship Hospital Beijing 100029 China Department of Medical Laboratory China-Japan Friendship Hospital Beijing 100029 China

The electrophoresis of a patient＇s serum proteins occasionally reveals two distinct fractions of serum *** rare phenomenon is called *** can be classified into two types,a rare hereditary one and non-hereditary *** have been many reports about non-hereditary bisalbuminemia,which is mainly caused by the excess-use of antibiotics such as *** bisalbuminemia （or alloalbuminemia） is a rare,autosomal,and incomplete dominant hereditary condition characterized by the presence of two distinct fractions of serum albumin by ***1 reported the first case of this disease in *** first case of hereditary bisalbuminemia in China was reported by Ying et al2 in *** then,approximately 130 cases of bisalbuminemia from 21 different families have been reported in ***,we described a new family with hereditary bisalbuminemia,which was discovered with a patient complained of refractory ***：hereditary bisalbuminemia; allergic bronchopulmonary aspergillosis

关键词： hereditary bisalbuminemia allergic bronchopulmonary aspergillosis

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Molecular authentication of the traditional Chinese medicine Tongren Dahuoluo Wan and its alternative formulation

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Frontiers of Agricultural Science and Engineering 2017年第3期4卷 353-357页

作者： Jikun WANG Jing DU Meng CAO Lu YAO Suhua XIE Jiafu CHEN xingbo zhao National Engineering Laboratory for Animal Breeding Key Laboratory of Animal Genetics Breeding and ReproductionMinistry of Agriculture College of Animal Science and Technology China Agricultural University Research Institute of Beijing Tongrentang Co. Ltd.

Tongren Dahuoluo Wan has been a popular traditional Chinese medicine in international pharmaceutical markets for hundreds of years. Leopard bone powder is the key element in its formulation. However, the leopard has been listed for wildlife conservation, which limits the use of the leopard bone supplies. Therefore, an alternative formulation which substitutes leopard bone with zokor bone in the formula of Tongren Dahuoluo Wan is now manufactured. To develop a simple and reliable molecular method for authenticating the two patent medicines,mitochondrial nucleotide polymorphic sites of 12 S rRNA,COI and Cytb genes were screened in leopard and zokor bones, and nine pairs of species-specific primers were verified for discriminating the two species. For the patent medicine authentication, we set up a molecular diagnostic assay to resolve the difficulties of low concentration of target DNAs and presence of PCR-inhibitory substances in this complex medicine, and successfully confirmed leopard or zokor content using the nine pairs of species-specific primers. We recommend a common technical strategy for authentication of species origins in traditional Chinese medicine, and discuss the experimental solutions for technical problems of molecular diagnostic assays.

关键词： Tongren Dahuoluo Wan molecular diagnostic assay Eospalax baileyi Panthera pardus species-specific primers

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Mechanical responses of underground carriageway structures due to construction of metro tunnels beneath the existing structure:A case study

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Deep Underground Science and Engineering 2024年第2期3卷 231-246页

作者： Xin Han Fei Ye xingbo Han Chao Ren Jing Song Ruliang zhao School of Highway Chang'an UniversityXi'anChina Shandong Province Transportation Planning and Design Institute JinanChina China Water Resources Beifang Investigation Design and Research Co.Ltd.TianjinChina

To understand the mechanical response pattern of the existing structure and ground due to the construction of metro tunnels underneath,the finite difference method is adopted to study the torsional deformation and stress variation of the existing structure and the effect of underground carriageway structures on the surface *** curves of the maximum differential subsidence,torsion angle,and distortion of the cross-section of the existing structure show two peaks in succession during traversing of two metro tunnels beneath *** torsion angle of the existing structure changes when the two tunnels traverse beneath it in opposite *** first traversing of the shield tunnel mainly induces the magnitude variation in torsional deformation of the existing structure,but the second traversing of the subsurface tunnel may cause a dynamic change in the magnitude and form of torsional deformation in the existing *** shielding effect can reduce the surface subsidence caused by metro tunnel excavation to a certain extent,and the development trend of subsidence becomes slower as the excavation continues.

关键词： metro tunnel numerical simulation structural deformation surface subsidence underground carriageway structure

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