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SNP基因分型芯片 1

SNP芯片 1

催化磷化 1

分子生物学特征 1

单核苷酸多态性 1

基因组选择 1

异质纳米晶 1

快速充电 1

抗病性 1

牙鲆 1

痰湿体质 1

磷化锡 1

锂离子电池 1

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牙鲆50K SNP芯片的研制及其在抗病性状基因组选择中的应用 Article

周茜, 陈亚东, 卢昇, 刘洋, 徐文腾, 李仰真, 王磊, 王娜, 杨英明, 陈松林

《工程（英文）》 2021年第7卷第3期页码 406-411 doi: 10.1016/j.eng.2020.06.017

摘要：在本文中，我们研发了一款牙鲆50K“鱼芯1号”SNP芯片，并将其应用于抗病基因组选择。利用Affymetrix Axiom基因分型技术，我们从1099个个体的全基因组重测序数据中获得了超过4220万个SNP，从中选择了在基因组中均匀分布的48 697个SNP，研制成“鱼芯1号”SNP芯片。利用168个牙鲆个体对“鱼芯1号”芯片的分型效果进行了评价，结果表明，检出率（call rate, CR）高于98%的SNP位点占74.7%，多态性SNP位点具有较好的等位基因分离效果，并且85%以上的SNP与基于全基因组重测序数据获得的SNP一致。

关键词：牙鲆单核苷酸多态性 SNP芯片抗病性基因组选择

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原子界面催化合成SnP/CoP异质纳米晶嵌入碳杂化物用于高功率型锂离子电池 Article

胡晨, 胡彦杰, 陈爱平, 段学志, 江浩, 李春忠

《工程（英文）》 2022年第18卷第11期页码 154-160 doi: 10.1016/j.eng.2021.11.026

摘要：

磷化锡（SnP）具有极佳的锂离子扩散能力和高理论比容量，是高功率锂离子电池的理想负极材料。然而，SnP的合成难度高，大尺寸晶粒导致的电化学不可逆也阻碍了其应用。根据密度泛函理论（DFT）计算，使用原位催化磷化方法可以显著降低SnP的相对生成能。因此，在还原氧化石墨烯（rGO）包裹的碳骨架内合成了SnP/CoP异质纳米晶。充放电机理分析表明尺寸为4.0 nm的SnP/CoP纳米晶具有高反应可逆性，且CoP在较高电位生成的金属Co加速了低电位SnP反应的动力学，从而赋予材料超快充放电能力。

关键词：催化磷化磷化锡异质纳米晶快速充电锂离子电池

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Detection of genomic signatures for pig hairlessness using high-density SNP data

Ying SU,Yi LONG,Xinjun LIAO,Huashui AI,Zhiyan ZHANG,Bin YANG,Shijun XIAO,Jianhong TANG,Wenshui XIN,Lusheng HUANG,Jun REN,Nengshui DING

《农业科学与工程前沿（英文）》 2014年第1卷第4期页码 307-313 doi: 10.15302/J-FASE-2014039

摘要： Hair provides thermal regulation for mammals and protects the skin from wounds, bites and ultraviolet (UV) radiation, and is important in adaptation to volatile environments. Pigs in nature are divided into hairy and hairless, which provide a good model for deciphering the molecular mechanisms of hairlessness. We conducted a genomic scan for genetically differentiated regions between hairy and hairless pigs using 60K SNP data, with the aim to better understand the genetic basis for the hairless phenotype in pigs. A total of 38405 SNPs in 498 animals from 36 diverse breeds were used to detect genomic signatures for pig hairlessness by estimating between-population ( ) values. Seven diversifying signatures between Yucatan hairless pig and hairy pigs were identified on pig chromosomes (SSC) 1, 3, 7, 8, 10, 11 and 16, and the biological functions of two notable genes, and were revealed. When Mexican hairless pigs were contrasted with hairypigs, strong signatures were detected on SSC1 and SSC10, which harbor two functionally plausible genes, and . KEGG pathway analysis showed a subset of overrepresented genes involved in the T cell receptor signaling pathway, MAPK signaling pathway and the tight junction pathways. All of these pathways may be important in local adaptability of hairless pigs. The potential mechanisms underlying the hairless phenotype in pigs are reported for the first time. and are interesting candidate genes for the hairless phenotype in Yucatan hairless and Mexico hairless pigs, respectively. , , and as well as other genes involved in the MAPK and T cell receptor signaling pathways may be important in environmental adaption by improved tolerance to UV damage in hairless pigs. These findings improve our understanding of the genetic basis for inherited hairlessness in pigs.

关键词： hairlessness pig selective sweeping

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A genome-wide association study of five meat quality traits in Yorkshire pigs

Qian DONG,Huiying LIU,Xinyun LI,Wei WEI,Shuhong ZHAO,Jianhua CAO

《农业科学与工程前沿（英文）》 2014年第1卷第2期页码 137-143 doi: 10.15302/J-FASE-2014014

摘要： Meat quality is an important trait in the pig industry. To identify genomic regions and haplotype blocks responsible for meat quality traits in pigs, a genome-wide association study was conducted for five traits including intramuscular fat content, pH at 45 min and 24 h, drip loss within 24 h and water-holding capacity in 231 Yorkshire barrows using illumina porcine 60k SNP chips. The results showed that a total of 344 single nucleotide polymorphisms (SNP) were significantly associated with five meat quality traits ( <1×10 ). Moreover, 323 SNPs were within the reported QTL regions, of which 21 were novel. Also, 158 SNPs fell into the proximal region of meat quality related genes. In addition, 25 haplotype blocks based on 116 SNPs were revealed with SNP combination patterns for five traits. Our study added new SNP information for identification of meat quality traits in pigs and will help elucidate the mechanisms of meat quality in pigs.

关键词： Pig GWAS meat quality trait SNP

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The genetic regulation of skeletal muscle development: insights from chicken studies

Wen LUO, Bahareldin A. ABDALLA, Qinghua NIE, Xiquan ZHANG

《农业科学与工程前沿（英文）》 2017年第4卷第3期页码 295-304 doi: 10.15302/J-FASE-2017159

摘要： Skeletal muscle development is a complex multi-process trait regulated by various genetic factors. The chicken embryo is an ideal model system for studying skeletal muscle development. However, only a small proportion of the genetic factors affecting skeletal muscle development have been identified in chicken. The aim of this review is to summarize recent knowledge about the genetic factors involved in the regulation of skeletal muscle development in the chicken, such as gene polymorphisms, epigenetic modification, noncoding RNAs and transcription factors, which can influence skeletal muscle development at the genome, epigenome, transcriptome and proteome levels. Research on the regulation of skeletal muscle development in chicken is not yet comprehensive and most of the candidate genes and single nucleotide polymorphisms related to chicken muscle growth remain to be verified in experimental studies. In addition, the data derived from transcriptome sequencing and genome-wide association studies still require further investigation and analysis and comprehensive studies on the regulation of chicken skeletal muscle development will continue as a major research focus.

关键词： chicken epigenetic modification miRNAs skeletal muscle development SNP transcription factor

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The microRNA, miR-29c, participates in muscle development through targeting the

Weiya ZHANG,Wei WEI,Yuanyuan ZHAO,Shuhong ZHAO,Xinyun LI

《农业科学与工程前沿（英文）》 2015年第2卷第4期页码 311-317 doi: 10.15302/J-FASE-2015075

摘要： Previous studies indicated that miR-29c is important for muscle development in mice and human, but its role in pigs is unknown. In this study, we detected the expression of miR-29c in Meishan longissimus lumborum (LL) muscle. The results showed that miR-29c was gradually upregulated during development of skeletal muscle in pig. Moreover, the expression of and genes, which were confirmed to be targeted by miR-29c in mice, was decreased along with muscle development. Furthermore, the expression level of miR-29c was significantly higher in adult Meishan pigs than Large White pigs, while the expression of and genes was significantly lower in Meishan pigs. These results indicated that the expression pattern of miR-29c was opposite to that of and genes in pigs. Also, the luciferase assay indicated that miR-29s can target the gene in pigs. In addition, we identified a T to C mutation in the primary transcript of miR-29c, which was associated with the postmortem muscle pH in pigs. Based on these results, we concluded that miR-29c is also important in skeletal muscle development of pigs.

关键词： pig miR-29c skeletal muscle expression SNP

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Genome-wide association study of the backfat thickness trait in two pig populations

Dandan ZHU,Xiaolei LIU,Rothschild MAX,Zhiwu ZHANG,Shuhong ZHAO,Bin FAN

《农业科学与工程前沿（英文）》 2014年第1卷第2期页码 91-95 doi: 10.15302/J-FASE-2014005

摘要： Backfat thickness is a good predictor of carcass lean content, an economically important trait, and a main breeding target in pig improvement. In this study, the candidate genes and genomic regions associated with the tenth rib backfat thickness trait were identified in two independent pig populations, using a genome-wide association study of porcine 60K SNP genotype data applying the compressed mixed linear model (CMLM) statistical method. For each population, 30 most significant single-nucleotide polymorphisms (SNPs) were selected and SNP annotation implemented using Build 10.2. In the first population, 25 significant SNPs were distributed on seven chromosomes, and SNPs on SSC1 and SSC7 showed great significance for fat deposition. The most significant SNP (ALGA0006623) was located on SSC1, upstream of the gene. In the second population, 27 significant SNPs were recognized by annotation, and 12 SNPs on SSC12 were related to fat deposition. Two haplotype blocks, M1GA0016251-MARC0075799 and ALGA0065251-MARC0014203-M1GA0016298-ALGA0065308, were detected in significant regions where the and genes were identified as contributing to fat metabolism. The results indicated that genetic mechanism regulating backfat thickness is complex, and that genome-wide associations can be affected by populations with different genetic backgrounds.

关键词： backfat thickness SNP chip genome-wide association study compressed mixed linear model pig

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UNREDUCED MEGAGAMETOPHYTE FORMATION VIA SECOND DIVISION RESTITUTION CONTRIBUTES TO TETRAPLOID PRODUCTION IN INTERPLOIDY CROSSES WITH ‘ORAH’ MANDARIN (CITRUS RETICULATA)

《农业科学与工程前沿（英文）》 2021年第8卷第2期

摘要：

Seedless fruits are desirable in the citrus fresh fruit market. Triploid production via diploid × tetraploid interploidy crosses is thought to be the most efficient and widely-used strategy for the breeding of seedless citrus. Although ‘Orah’ mandarin has desirable organoleptic qualities, seeds in the fruits weaken its market competitiveness. To produce new seedless cultivars that are similar to ‘Orah’ mandarin, we performed three 2x × 4x crosses using ‘Orah’ mandarin as the seed parent to regenerate triploid plantlets. A total of 182 triploid and 36 tetraploid plantlets were obtained. By analyzing their genetic origins using nine novel single nucleotide polymorphism (SNP) markers, all of the triploids and tetraploids derived from these three crosses were proven to be hybrids. Also, we demonstrated that 2n megagametophyte formation in ‘Orah’ mandarin result in tetraploid production in these three interploidy crosses. These tetraploid plantlets were genotyped using eight pericentromeric SNP markers and nine centromere distal SNP markers. Based on the genotypes of the 2n megagametophytes, the parental heterozygosity rates in 16 SNP loci and all 2n megagametophytes were less than 50%, indicating that second division restitution was the mechanism underlying 2n megagametophyte formation at both the population and individual levels. These triploid hybrids enrich the germplasm available for seedless breeding. Moreover, the tetraploid hybrids are valuable as parents for ploidy breeding for the production of seedless citrus fruits.

关键词： Citrus / 2n gamete / interploidy hybridization / pericentromeric SNP marker / second division restitution

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UNREDUCED MEGAGAMETOPHYTE FORMATION VIA SECOND DIVISION RESTITUTION CONTRIBUTES TO TETRAPLOID PRODUCTION IN INTERPLOIDY CROSSES WITH ‘ORAH’ MANDARIN (

Qiangming XIA, Wei WANG, Kaidong XIE, Xiaomeng WU, Xiuxin DENG, Jude W. GROSSER, Wenwu GUO

《农业科学与工程前沿（英文）》页码 302-313 doi: 10.15302/J-FASE-2021385

摘要： Seedless fruits are desirable in the citrus fresh fruit market. Triploid production via diploid × tetraploid interploidy crosses is thought to be the most efficient and widely-used strategy for the breeding of seedless citrus. Although ‘Orah’ mandarin has desirable organoleptic qualities, seeds in the fruits weaken its market competitiveness. To produce new seedless cultivars that are similar to ‘Orah’ mandarin, we performed three 2x × 4x crosses using ‘Orah’ mandarin as the seed parent to regenerate triploid plantlets. A total of 182 triploid and 36 tetraploid plantlets were obtained. By analyzing their genetic origins using nine novel single nucleotide polymorphism (SNP) markers, all of the triploids and tetraploids derived from these three crosses were proven to be hybrids. Also, we demonstrated that 2n megagametophyte formation in ‘Orah’ mandarin result in tetraploid production in these three interploidy crosses. These tetraploid plantlets were genotyped using eight pericentromeric SNP markers and nine centromere distal SNP markers. Based on the genotypes of the 2n megagametophytes, the parental heterozygosity rates in 16 SNP loci and all 2n megagametophytes were less than 50%, indicating that second division restitution was the mechanism underlying 2n megagametophyte formation at both the population and individual levels. These triploid hybrids enrich the germplasm available for seedless breeding. Moreover, the tetraploid hybrids are valuable as parents for ploidy breeding for the production of seedless citrus fruits.

关键词： Citrus 2n gamete interploidy hybridization pericentromeric SNP marker second division restitution

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痰湿体质的分子生物学特征

王琦,董静,吴宏东,王东坡,姚实林,任小娟

《中国工程科学》 2008年第10卷第7期页码 100-103

摘要：试对痰湿质与平和质组间表达有显著差异的442个基因进行分析，与平和质比较，初步筛选出痰湿质 5个相关基因共 6 个 SNP 位点。

关键词：痰湿体质 SNP基因分型芯片分子生物学特征

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A systematic survey of LU domain-containing proteins reveals a novel human gene, , which encodes the candidate ortholog of mouse Ly-6A/Sca-1 and is aberrantly expressed in pituitary tumors

《医学前沿（英文）》 doi: 10.1007/s11684-022-0968-4

摘要： The Ly-6 and uPAR (LU) domain-containing proteins represent a large family of cell-surface markers. In particular, mouse Ly-6A/Sca-1 is a widely used marker for various stem cells; however, its human ortholog is missing. In this study, based on a systematic survey and comparative genomic study of mouse and human LU domain-containing proteins, we identified a previously unannotated human gene encoding the candidate ortholog of mouse Ly-6A/Sca-1. This gene, hereby named LY6A, reversely overlaps with a lncRNA gene in the majority of exonic sequences. We found that LY6A is aberrantly expressed in pituitary tumors, but not in normal pituitary tissues, and may contribute to tumorigenesis. Similar to mouse Ly-6A/Sca-1, human LY6A is also upregulated by interferon, suggesting a conserved transcriptional regulatory mechanism between humans and mice. We cloned the full-length LY6A cDNA, whose encoded protein sequence, domain architecture, and exon‒intron structures are all well conserved with mouse Ly-6A/Sca-1. Ectopic expression of the LY6A protein in cells demonstrates that it acts the same as mouse Ly-6A/Sca-1 in their processing and glycosylphosphatidylinositol anchoring to the cell membrane. Collectively, these studies unveil a novel human gene encoding a candidate biomarker and provide an interesting model gene for studying gene regulatory and evolutionary mechanisms.

关键词： LU domain-containing protein family novel human gene LY6A pituitary tumor biomarker nonsynonymous SNP GPI-anchored protein

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标题作者时间类型操作

牙鲆50K SNP芯片的研制及其在抗病性状基因组选择中的应用

周茜, 陈亚东, 卢昇, 刘洋, 徐文腾, 李仰真, 王磊, 王娜, 杨英明, 陈松林

期刊论文

原子界面催化合成SnP/CoP异质纳米晶嵌入碳杂化物用于高功率型锂离子电池

胡晨, 胡彦杰, 陈爱平, 段学志, 江浩, 李春忠

期刊论文

Detection of genomic signatures for pig hairlessness using high-density SNP data

Ying SU,Yi LONG,Xinjun LIAO,Huashui AI,Zhiyan ZHANG,Bin YANG,Shijun XIAO,Jianhong TANG,Wenshui XIN,Lusheng HUANG,Jun REN,Nengshui DING

期刊论文

A genome-wide association study of five meat quality traits in Yorkshire pigs

Qian DONG,Huiying LIU,Xinyun LI,Wei WEI,Shuhong ZHAO,Jianhua CAO

期刊论文

The genetic regulation of skeletal muscle development: insights from chicken studies

Wen LUO, Bahareldin A. ABDALLA, Qinghua NIE, Xiquan ZHANG

期刊论文

The microRNA, miR-29c, participates in muscle development through targeting the

Weiya ZHANG,Wei WEI,Yuanyuan ZHAO,Shuhong ZHAO,Xinyun LI

期刊论文

Genome-wide association study of the backfat thickness trait in two pig populations

Dandan ZHU,Xiaolei LIU,Rothschild MAX,Zhiwu ZHANG,Shuhong ZHAO,Bin FAN

期刊论文

UNREDUCED MEGAGAMETOPHYTE FORMATION VIA SECOND DIVISION RESTITUTION CONTRIBUTES TO TETRAPLOID PRODUCTION IN INTERPLOIDY CROSSES WITH ‘ORAH’ MANDARIN (CITRUS RETICULATA)

期刊论文

UNREDUCED MEGAGAMETOPHYTE FORMATION VIA SECOND DIVISION RESTITUTION CONTRIBUTES TO TETRAPLOID PRODUCTION IN INTERPLOIDY CROSSES WITH ‘ORAH’ MANDARIN (

Qiangming XIA, Wei WANG, Kaidong XIE, Xiaomeng WU, Xiuxin DENG, Jude W. GROSSER, Wenwu GUO

期刊论文

痰湿体质的分子生物学特征

王琦,董静,吴宏东,王东坡,姚实林,任小娟

期刊论文

A systematic survey of LU domain-containing proteins reveals a novel human gene, , which encodes the candidate ortholog of mouse Ly-6A/Sca-1 and is aberrantly expressed in pituitary tumors

期刊论文

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