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Coumarin Modified Rhodamine Derivative： Fluorescent Chemosensor Selectively Recognizing Al^3＋ and Ca^2＋

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Chemical Research in Chinese Universities 2014年第3期30卷 362-367页

作者： CAO li jia Chunman ZHANG qi CHEN Da ZHANG Chunyan qiAN Yaao Hainan Provincial Key Lab of Fine Chem. Key Study Center for Tropical Resources Utilization Ministry of Education Hainan University Haikou 570228 P. R. China

A fluorescent probe with a coumarin moiety bound to rhodamine 6G hydrazide（l） was synthesized. Its sensing behavior toward various metal ions was investigated with fluorescence methods. Compound I displays different fluorescence emission responses to Al^3＋ and Ca^2＋ at the same excitation wavelength in the visible light region, while no changes occur after the addition of other metal ions. The binding ratios of the complexs of 1-Al^3＋ and 1-Ca^2＋ are both 2：1 according to the Job plot and high resolution mass spectrometer（HRMS） experiments. Moreover, emission spectrum of 1-Ca^2＋ complex and absorption spectrum of the rbodamine dyes overlap largely. When Al^3＋ was added to the 1-Ca2＋ system, calcium in complex 1-Ca2＋ can be displaced by Al^3＋, resulting in the output of another ratiometric sensing signal, which demonstrates that the 1-Ca^2＋ complex can be served as a new and effective fluorescence resonance energy transfer（FRET） donor for rhodamine derivatives.

关键词： Chemosensor Aluminium ion Calcium ion Fluorescence resonance energy transfer(FRET)

Low-Threshold Surface Plasmon Lasing using the Band Edge Mode in a Bi-Periodic Groove Array

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Chinese Physics Letters 2013年第8期30卷 185-189页

作者： li jia-qi DONG Zheng-Gao qiU Teng ZHAI Ya Department of Physics Southeast UniversityNanjing 211189

We study surface plasmon lasing based on periodic and bi-periodic groove arrays etched on a silver *** is interesting to find that the bi-periodic structure can open a clear band gap of surface plasmon polaritons near the first Brillouin zone boundary,and thus it is promising to utilize the band edge modes of surface plasmon polaritons.A low threshold for the surface plasmon lasing effect is demonstrated numerically,owing to the low group velocity of the band edge mode,which provides a feasible way to design surface plasmon lasers.

关键词： lasing utilize periodic

Identifying the complex genetic architecture of growth and fatness traits in a Duroc pig population

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Journal of Integrative Agriculture 2021年第6期20卷 1607-1614页

作者： HANG Zhe CHEN Zi-tao DIAO Shu-qi YE Shao-pan WANG jia-ying GAO Ning YUAN Xiao-long CHEN Zan-mou ZHANG Hao li jia-qi Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding/National Engineering Research Center for Breeding Swine Industry/College of Animal Science South China Agricultural UniversityGuangzhou 510642P.R.China

In modern pig breeding programs,growth and fatness are vital economic traits that significantly influence porcine *** identify underlying variants and candidate genes associated with growth and fatness traits,a total of 1067 genotyped Duroc pigs with de-regressed estimated breeding values(DEBV)records were analyzed in a genome wide association study(GWAS)by using a single marker regression *** total,28 potential single nucleotide polymorphisms(SNPs)were associated with these traits of ***,VPS4 B,PHLPP1,and some other genes were highlighted as functionally plausible candidate genes that compose the underlying genetic architecture of porcine growth and fatness *** findings contribute to a better understanding of the genetic architectures underlying swine growth and fatness traits that can be potentially used in pig breeding programs.

关键词： pig GWAS growth trait fatness trait candidate gene

p53 and NFκB regulate microRNA-34c expression in porcine ovarian granulosa cells

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Journal of Integrative Agriculture 2016年第8期15卷 1816-1824页

作者： XU Yuan ZHANG Ai-ling XIAO Guang ZHANG Zhe CHEN Zan-mou ZHANG Hao li jia-qi Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding College of Animal Science South China Agricultural University College of Biological and Food Engineering Guangdong University of Education

supported by the National Natural Science Foundation of China （31201771）;the earmarked fund for the China Agriculture Research System （CARS-36）

关键词： porcine granulosa cells microRNA-34c expression promoter p53 NFkB

Incorporating genomic annotation into single-step genomic prediction with imputed whole-genome sequence data

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Journal of Integrative Agriculture 2022年第4期21卷 1126-1136页

作者： TENG Jin-yan YE Shao-pan GAO Ning CHEN Zi-tao DIAO Shu-qi li Xiu-jin YUAN Xiao-long ZHANG Hao li jia-qi ZHANG Xi-quan ZHANG Zhe Guangdong Laboratory of lingnan Modern Agriculture/Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding College of Animal ScienceSouth China Agricultural UniversityGuangzhou 510642P.R.China State Key Laboratory of Biocontrol School of Life SciencesSun Yat-sen UniversityGuangzhou 510006P.R.China Guangdong Provincial Key Laboratory of Waterfowl Healthy Breeding College of Animal Sciences and TechnologyZhongkai University of Agriculture and EngineeringGuangzhou 510225P.R.China

Single-step genomic best linear unbiased prediction(ss GBLUP) is now intensively investigated and widely used in livestock breeding due to its beneficial feature of combining information from both genotyped and ungenotyped individuals in the single model. With the increasing accessibility of whole-genome sequence(WGS) data at the population level, more attention is being paid to the usage of WGS data in ss GBLUP. The predictive ability of ss GBLUP using WGS data might be improved by incorporating biological knowledge from public databases. Thus, we extended ss GBLUP, incorporated genomic annotation information into the model, and evaluated them using a yellow-feathered chicken population as the examples. The chicken population consisted of 1 338 birds with 23 traits, where imputed WGS data including 5 127 612 single nucleotide polymorphisms(SNPs) are available for 895 birds. Considering different combinations of annotation information and models, original ss GBLUP, haplotype-based ss GHBLUP, and four extended ss GBLUP incorporating genomic annotation models were evaluated. Based on the genomic annotation(GRCg6a) of chickens, 3 155 524 and 94 837 SNPs were mapped to genic and exonic regions, respectively. Extended ss GBLUP using genic/exonic SNPs outperformed other models with respect to predictive ability in 15 out of 23 traits, and their advantages ranged from 2.5 to 6.1% compared with original ss GBLUP. In addition, to further enhance the performance of genomic prediction with imputed WGS data, we investigated the genotyping strategies of reference population on ss GBLUP in the chicken population. Comparing two strategies of individual selection for genotyping in the reference population, the strategy of evenly selection by family(SBF) performed slightly better than random selection in most situations. Overall, we extended genomic prediction models that can comprehensively utilize WGS data and genomic annotation information in the framework of ss GBLUP, and valida

关键词： genomic selection prior information sequencing data genotype imputation haplotype

MicroRNA-34c regulates porcine granulosa cell function by targeting forkhead box O3a

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Journal of Integrative Agriculture 2017年第9期16卷 2019-2028页

作者： XU Yuan ZHANG Ai-ling ZHANG Zhe YUAN Xiao-long CHEN Zan-mou ZHANG Hao li jia-qi Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding College of Animal ScienceSouth China Agricultural University College of Biological and Food Engineering Guangdong University of Education

Granulosa cells（GCs） are somatic cells of ovary, the behaviors of GCs are important for ovarian function. MicroRNAs（miRNAs） are a class of endogenous 18–24 nucleotide（nt） non-coding RNAs, some of which have been shown to be important regulators of GCs function. miR-34c involved in the regulation of various biological processes and was identified to be a pro-apoptotic and anti-proliferative factor in many cell types. However, the roles of miR-34c in GCs function remain unknown. In this study, we used Annexin V-FITC and Ed U assays to demonstrate that miR-34c exerted pro-apoptotic and anti-proliferative effects in porcine GCs. Dual-luciferase reporter assays, quantitative real-time PCR（q RT-PCR） and Western blotting identified Forkhead box O3a（Fox O3a） as a direct target gene of miR-34c. The overexpression of FoxO3a rescued the phenotypic change caused by miR-34c in porcine GCs. In conclusion, miR-34c regulate the function of porcine GCs by targeting FoxO3a.

关键词： porcine microRNA-34c FoxO3a granulosa cell function

Genome-wide detection of selective signatures in a Duroc pig population

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Journal of Integrative Agriculture 2018年第11期17卷 2528-2535页

作者： DIAO Shu-qi LUO Yuan-yu MA Yun-long DENG Xi HE Ying-ting GAO Ning ZHANG Hao li jia-qi CHEN Zan-mou ZHANG Zhe Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding/National Engineering Research Centre for Breeding Swine Industry/College of Animal Science South China Agricultural University Guangzhou 510642 P.R.China liupanshui Academy of Agricultural Sciences Liupanshui 553001 P.R. China Key Laboratory of Agricultural Animal Genetics Breeding and Reproduction Ministry of Education/College of Animal Sciences and Technology Huazhong Agricultural University Wuhan 430070 P.R. China

The Duroc pig has high adaptability and feeding efficiency, making it one of the most popular pig breeds worldwide. Over long periods of natural and artificial selection, genetic footprints, i.e., selective signatures, were left in the genome. In this study, a Duroc pig population （n=715） was genotyped with the Porcine SNP60K Bead Chip and the GeneSeek Genomic Profiler （GGP） Porcine Chip. The relative extended haplotype homozygosity （REHH） method was used for selective signature detection in a subset of the population （n=368）, selected to represent a balanced family structure. In total, 154 significant core regions were detected as selective signatures （,P〈0.01）, some of which overlap with previously reported quantitative trait loci associated with several economically important traits, including average daily gain and backfat thickness. Genome annotation for these significant core regions revealed a variety of interesting candidate genes including GATA3, TAF3, ATP5C1, and FGFI. These genes were functionally related to anterior/posterior pattern specification, phosphatidylinositol 3-kinase signaling, embryonic skeletal system morphogenesis, and oxidation-reduction processes. This research provides knowledge for the study of selection mechanisms and breeding practices in Duroc and other pigs.

关键词： Duroc selective signature candidate genes REHH

Genetic parameters and trends for production and reproduction traits of a Landrace herd in China

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Journal of Integrative Agriculture 2016年第5期15卷 1069-1075页

作者： ZHANG Zhe ZHANG Hao PAN Rong-yang WU Long li Ya-lan CHEN Zan-mou CAI Geng-yuan li jia-qi WU Zhen-fang College of Animal Science National Engineering Research Center for Breeding Swine Industry/Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding South China Agricultural University Guangzhou 510642 P.R. China

The objectives of this study were to estimate the genetic parameters and the breeding progress in a Landrace herd in China, and to predict the potential benefits by applying new breeding technology. Hereby, the performance records from a Landrace swine herd in China, composing over 33 000 pigs born between 2001 and 2013, were collected on six economically important traits, i.e., average daily gain between 30-100 kg（ADG）, adjusted backfat thickness at 100 kg（BF）, adjusted days to 30 kg（D30）, adjusted days to 100 kg（D100）, number born alive（NBA）, and total number born（TNB）. The genetic parameters were estimated by restricted maximum likelihood via DMU, and realized genetic trends were analyzed. Based on the real population structure and genetic parameters obtained from this herd, the potential genetic trends by applying genomic selection（GS） were predicted via a computer simulation study. Results showed that the heritability estimates in this Landrace herd were 0.55（0.02）, 0.42（0.01）, and 0.12（0.01）, for BF, D100, and TNB, respectively. Favorable genetic trends were obtained for D100, BF, and TNB due to direct selection, for ADG and NBA due to indirect selection. Long-term selection against D100 did not improve D30, though they are highly genetically correlated（0.64）. Appling GS in such a swine herd, the genetic gain can be increased by 25%, or even larger for traits with low heritability or individuals without phenotypes before selection. It can be concluded that conventional breeding strategy was effective in the herd studied, while applying GS is promising and hence the road ahead in swine breeding.

关键词： genetic parameter genomic selection swine genetic trend

Exploring the genetic features and signatures of selection in South China indigenous pigs

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Journal of Integrative Agriculture 2021年第5期20卷 1359-1371页

作者： DIAO Shu-qi XU Zhi-ting YE Shao-pan HUANG Shu-wen TENG Jin-yan YUAN Xiao-long CHEN Zan-mou ZHANG Hao li jia-qi ZHANG Zhe Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding/National Engineering Research Center for Breeding Swine Industry/College of Animal Science South China Agricultural UniversityGuangzhou 510642P.R.China

To explore the genetic features and signatures of selection in indigenous pigs from South China and Duroc pigs,259 pigs from six populations were genotyped using single-nucleotide polymorphism(SNP)*** component analysis(PCA),effective population size(Ne),linkage disequilibrium(LD),and signatures of selection were explored and investigated among the six pig *** results showed the Ne of five South China indigenous pig populations has been decreasing rapidly since 100 generations *** LD between pairwise SNP distance at 100 kb ranged from 0.16 to 0.20 for the five indigenous pig populations,while it was 0.32 for the Duroc ***,the LD of all six pig populations showed the opposite order at long distances(>5 Mb).Furthermore,15 potential signatures of selection associated with meat quality and age at puberty were exclusively detected in South China indigenous pigs,while eight potential signatures of selection associated with growth traits were detected in Duroc *** work provides valuable insights for the utilization and conservation of South China indigenous pigs.

关键词： pigs population structure effective population size SNP