Li Yu

Nanjing Agricultural University

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Bo Sun

Sichuan Agricultural University

Xiaoyu Xu

Fuzhou University

Yunsong Lai

Sichuan Agricultural University

Lin-Feng Hang

Sichuan Agricultural University

Lihong Su

Sichuan Agricultural University

Jin-Song Du

Sichuan Agricultural University

Huaqiang Tan

Chengdu Academy of Agriculture and Forestry Sciences

Hai-Tao Yang

Yunnan Center for Disease Control And Prevention

Radwa Salah Ezaat Badawy

Sichuan Agricultural University

Kai-Xi Zou

Hainan University

Cooperative Institutions

Chinese Academy of Sciences

Nanjing Agricultural University

Chinese Academy of Agricultural Sciences

Fujian Agriculture and Forestry University

Ministry of Agriculture and Rural Affairs

Wuhan University

Institute of Crop Sciences

University of Chinese Academy of Sciences

Jilin Agricultural University

Yangtze University

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ANNULUS VALIDATION AND AGE AND GROWTH ESTIMATION OF ANADROMOUS COILIA ECTENES IN THE YANGTZE ESTUARY

Acta Hydrobiologica Sinica (2010)

Li Yu

Anadromous Coilia ectenes(Jordand et Seale) is a commercially important fishery resource in the middle and lower reaches of the Yangtze River.It usually feeds and overwinters in the Yangtze Estuary and the coastal waters Adults migrate up into the Yangtze River and its affiliated lakes in the spawning season.After spawning,they migrate down into the sea.Offsprings feed in freshwater and migrate down into the sea before overwintering.Resource of this fish has declined dramatically since late 1970s.The present research validated annuli in sagittal otolith and analyzed the age and growth of C.ectenes from the Yangtze Estuary to evaluate the resource condition of the population.A total of 576 individuals of C.ectenes were collected in the Yangtze Estuary monthly during April 2006 to August 2007.No periodic opaque/translucent zones were visible in the transverse plane of the sectioned sagittal otolith when examined with either transmitted or reflected light.Instead,periodic straight-curved zones,similar to those in sagittal otoliths of Coilia mystus[10],were observed along the ventral growth axes in the transverse plane under transmitted light.The growth axes from the core were generally straight initially,and then gradually curved to the distal side until a sudden break formed.After the break,the growth axes were straight,and the straight-curved zones were typically repeated,particularly in large individuals.In April,the margin of the growth axis was straight in some individuals,and the proportion increased in May and June.The margin of the growth axis was straight for all the individuals during July through September.In October,a small proportion of the sampled individuals displayed a curved growth axis,and this proportion increased in December.Marginal increment ratio analysis also showed an annual periodicity of the straight-curved growth increment.The shift from curved growth to the next straight growth occurred during April and June.We defined this shift as an annulus mark.The collected specimens were consisted of 5 age classes ranged from 0 to 4 years,dominated by age-1 and age-2 individuals.Both the males and females showed a similar age structure and growth pattern.The standard length(SL) and age(t) data were fitted to the von Bertalanffy growth function SL=327.69[1-e-0.51(t+0.28)](n = 576,r2 = 0.71,P 0.05).The body weight(BW) and standard length(SL) data were fitted to the function BW=0.54×10-6SL3.36(n = 576,r2 = 0.95,P 0.05).Compared to the age and size structures of the harvest in 1970s,the harvest during our research was younger in age and smaller in size of the same age class fish.This change in age composition and size structure indicated that the anadromous C.ectenes has been overexploited.Reducing fishing intensity is fundamental for fisheries management and resource conservation of this fish in the Yangtze River.

Annulus (botany)

Yangtze river

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Study on the bio-function of lipA gene in Aspergillus flavus

Genes & Genomics (2018)

Wenzhao Bai Tiejun Feng Faxiu Lan Guanglan Lin Li Yu

Conidiation

10.1007/s13258-018-0744-7

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Microarray analysis of long non-coding RNA expression profiles in low high-density lipoprotein cholesterol disease

Lipids in Health and Disease (2020)

Xinping Wang Shuxia Guo Yunhua Hu Heng Guo Xianghui Zhang

Abstract Background Low high-density lipoprotein cholesterol (HDL-C) disease with unknown etiology has a high prevalence in the Xinjiang Kazak population. In this study, long noncoding RNAs (lncRNAs) that might play a role in low HDL-C disease were identified. Methods Plasma samples from 10 eligible individuals with low HDL disease and 10 individuals with normal HDL-C levels were collected. The lncRNA profiles for 20 Xinjiang Kazak individuals were measured using microarray analysis. Results Differentially expressed lncRNAs and mRNAs with fold-change values not less than 1.5 and FDR-adjusted P -values less than 0.05 were screened. Bioinformatic analyses, including Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and network analyses, were used to determine relevant signaling pathways and predict potential target genes. In total, 381 lncRNAs and 370 mRNAs were differentially expressed based on microarray analysis. Compared with those in healthy individuals, several lncRNAs were upregulated or downregulated in patients with low HDL-C disease, among which TCONS_00006679 was most significantly upregulated and TCONS_00011823 was most significantly downregulated. GO and KEGG pathway analyses as well as co-expression networks of lncRNAs and mRNAs revealed that the platelet activation pathway and cardiovascular disease were associated with low HDL-C disease. Conclusions Potential target genes integrin beta-3 ( ITGB3 ) and thromboxane A2 receptor ( TBXA2R ) were regulated by the lncRNAs AP001033.3–201 and AC068234.2–202, respectively. Both genes were associated with cardiovascular disease and were involved in the platelet activation pathway. AP001033.3–201 and AC068234.2–202 were associated with low HDL-C disease and could play a role in platelet activation in cardiovascular disease. These results reveal the potential etiology of dyslipidemia in the Xinjiang Kazakh population and lay the foundation for further validation using large sample sizes.

KEGG

10.1186/s12944-020-01348-x

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Genome-wide identification of genes encoding putative secreted E3 ubiquitin ligases and functional characterization of PbRING1 in the biotrophic protist Plasmodiophora brassicae

Current Genetics (2019)

Fangwei Yu Shenyun Wang Wei Zhang Jun Tang Hong Wang

Protist

Identification

10.1007/s00294-019-00989-5

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Genome-Wide Survey and Expression Analysis of Amino Acid Transporter Gene Family in Rice (Oryza sativa L.)

PLoS ONE (2012)

Heming Zhao Haoli Ma Li Yu Xin Wang Jie Zhao

Background Amino acid transporters (AATs) that transport amino acids across cellular membranes are essential for plant growth and development. To date, a genome-wide overview of the AAT gene family in rice is not yet available. Methodology/Principal Findings In this study, a total of 85 AAT genes were identified in rice genome and were classified into eleven distinct subfamilies based upon their sequence composition and phylogenetic relationship. A large number of OsAAT genes were expanded via gene duplication, 23 and 24 OsAAT genes were tandemly and segmentally duplicated, respectively. Comprehensive analyses were performed to investigate the expression profiles of OsAAT genes in various stages of vegetative and reproductive development by using data from EST, Microarrays, MPSS and Real-time PCR. Many OsAAT genes exhibited abundant and tissue-specific expression patterns. Moreover, 21 OsAAT genes were found to be differentially expressed under the treatments of abiotic stresses. Comparative analysis indicates that 26 AAT genes with close evolutionary relationships between rice and Arabidopsis exhibited similar expression patterns. Conclusions/Significance This study will facilitate further studies on OsAAT family and provide useful clues for functional validation of OsAATs.

Segmental duplication

10.1371/journal.pone.0049210

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Citations (172)

Genome-Wide Analysis of SRNF Genes in Gossypium hirsutum Reveals the Role of GhSRNF18 in Primary Root Growth

Frontiers in Plant Science (2021)

Li Yu Shuojun Zhang Hailun Liu Yu‐Fei Wang Yiting Wei

Root systems are instrumental for water and nutrient uptake and the anchorage of plants in the soil. Root regulating GL2-interacting repressors (GIRs) contain a Short RING-like Zinc-Finger (SRNF) domain, but there has been no comprehensive characterization about this gene family in any plant species. Here, we renamed the GIR-like proteins as SRNF proteins due to their conserved domain and identified 140 SRNF genes from 16 plant species including 24 GhSRNF genes in Gossypium hirsutum . Phylogenetic analysis of the SRNFs revealed both similarities and divergences between five subfamilies. Notably, synteny analysis revealed that polyploidization and whole-genome duplication contribute to the expansion of the GhSRNF gene family. Various cis-acting regulatory elements were shown to be pertinent to light, phytohormone, defense responsive, and meristem regulation. Furthermore, GhSRNF2 / 15 were predominantly expressed in root, whereas the expression of GhSRNF18 is positively correlated with the primary root (PR) length in G. hirsutum , quantified by quantitative real-time PCR (qRT-PCR). Over-expression of GhSRNF18 in Arabidopsis and virus-induced gene silencing (VIGS) of GhSRNF18 in G. hirsutum has revealed the role of GhSRNF18 in PR growth. The over-expression of GhSRNF18 in Arabidopsis resulted in an increase of meristematic activities and auxin accumulations in PRs, which were consistent with the transcriptomic data. Our results suggested that GhSRNF18 positively regulates PR growth. This study increased our understanding of the SRNF gene family in plants and provided a novel rationale for the further investigation of cotton root morphogenesis regulated by the GhSRNFs .

Lateral root

10.3389/fpls.2021.731834

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Candidate fragments isolating of pod and testa specifically expressed genes in peanut

Journal of Fujian Agriculture and Forestry University (2007)

Li Yu

Appling improved method for isolating DDRT-PCR products using agarose gel electrophoresis,24 differentially expressed cDNA fragments were isolated from the RNA of peanut′s pod and testa.According to the results of sequencing,eight fragments were obtained finally.One was a known gene in peanut,the others were unknown genes.These seven sequences had been submitted to Genbank(Accession number DQ450065,DQ450066,DQ450067,DQ450068,DQ450069,DQ450070,DQ450071).And the method for isolating DD-PCR products using agarose gel electrophoresis was also discussed in this paper.

Agarose gel electrophoresis

Agarose

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Study on Extraction and Anti-oxidant Activity of Crude Polysaccharides from Tuber indicum

Journal of Shanxi University (2011)

Li Yu

With orthogonal design,the optimal conditions for extraction of crude polysaccharide from fruit-bodies of Tuber indicum were studied by hot water.Based on the result from ANOVA,the optimal conditions of hot water extraction method were as follows:the material and liquid in the ratio of 1 to 15,for 120 min of extraction duration,at 100 ℃ and extraction for 2 times.The extraction rate of polysaccharide was 6.790 2% under this condition.After ethanol precipitation with 95% ethanol,the antioxidant activity of above-mentioned crude polysaccharide was evaluated by four methods,including determining total antioxidative capacity(T-AOC),scavenging hydroxyl free radical(OH·),determining chelating and reducing capacity of ferrous ion.The result showed that the crude polysaccharide from T.indicum possessed the most potent capacity for scavenging hydroxyl free radical(OH·) with EC50 values reaching 0.261 mg/mL,followed by the capacity for reducing and chelating ferrous ion with EC50 values reaching 1.15 mg/mL and 2.80 mg/mL.Meanwhile,the crude polysaccharide from T.indicum had good total anti-oxidative capacity,when the concentration was 20 mg/mL,its total antioxidative capacity was 72.06 U/mL.

Ethanol precipitation

Hydroxyl radical

EC50

Scavenging

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Mating Disruption or Mass Trapping, Compared With Chemical Insecticides, for Suppression of <I>Chilo suppressalis</I> (Lepidoptera: Crambidae) in Northeastern China

Journal of Economic Entomology (2014)

Ri-Zhao Chen Michael G. Klein Cheng-Fa Sheng Qiyun Li Li Yu

Asiatic rice borer, Chilo suppressalis (Walker), larvae cause extensive crop losses worldwide. Because chemical control is problematic, and sex pheromone applications are a valuable management tactic in China, judicious timing of a minimal density of pheromone dispensers is important in developing a cost-effective C. suppressalis IPM program. During June-October in 2011, 20, 30, 40, and 50 dispensers per hectare for mass trapping, and 200, 300, 400, and 500 dispensers per hectare for mating disruption were placed in northeastern China rice fields. Based on those results, only the two highest mass trapping densities were used in 2012-2013. The 40, 50, and 500 dispenser densities reduced egg masses to <2.0 per 100 tillers, compared with >9.5 in the insecticide-treated plots in 2011-2013. The reduced oviposition resulted in >85% reduction of larval damage, which was comparable with the currently used insecticides, dimethoate and deltamethrin (0.35 kg/ha), which gave no egg reduction, but ≍80 and 89% reduction in larval damage. The 40 and 500 densities are recommended to Chinese rice farmers for mass trapping and mating disruption programs, respectively.

Chilo suppressalis

Crambidae

Mating disruption

Hectare

10.1603/ec14148

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Citations (19)

Additional file 1 of The dissection of R genes and locus Pc5.1 in Phytophthora capsici infection provides a novel view of disease resistance in peppers

Figshare (2021)

Jin-Song Du Lin-Feng Hang Qian Hao Hai-Tao Yang Siyad Ali

Additional file 1: Table S1. Assessment of resistance against P. capsici in peppers.

Phytophthora capsici

10.6084/m9.figshare.14633754

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