21 results on '"Yong Wang"'
Search Results
2. Characterization of the complete chloroplast genome of Carallia diplopetala (Rhizophoraceae)
- Author
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Renjie Wang, Nanyan Liao, Xiongsheng Liu, Yi Qin, Yufei Xiao, Yong Wang, and Ronglin Huang
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carallia diplopetala ,rhizophoraceae ,chloroplast genome ,phylogeny ,Genetics ,QH426-470 - Abstract
Carallia diplopetala (Rhizophoraceae) is an important economic tree species narrowly distributed endemic to East Asia. In this study, We generate the complete chloroplast genome of C. diplopetala using next-generation sequencing technology, which is 162,052 bp in size and consists of a large single copy (LSC) of 89,556 bp and a small single copy (SSC) of 18,814 bp, separated a pair of inverted repeats (IRb and IRa) of 26,841 bp. The overall GC content is 36.4%. A total of 130 genes are annotated, including 83 protein-coding genes, 37 tRNAs, eight rRNAs and two pseudogenes (ψycf1 and ψrps19). The phylogenetic analysis indicated that C. diplopetala and C. brachiate formed a monophyletic clade with strong support and then sister to Pellacalyx yunnanensis. The plastome of C. diplopetala will provide informative genomic resources for further conservation applications.
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- 2022
- Full Text
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3. Glucosinolate Biosynthetic Genes of Cabbage: Genome-Wide Identification, Evolution, and Expression Analysis
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Peng Wang, Wenxue Cao, Limei Yang, Yangyong Zhang, Zhiyuan Fang, Mu Zhuang, Honghao Lv, Yong Wang, Shanhan Cheng, and Jialei Ji
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glucosinolate biosynthetic gene ,cabbage ,exogenous hormone treatment ,gene expression ,phylogeny ,Genetics ,QH426-470 - Abstract
Cabbage (Brassica oleracea var. capitata) is a vegetable rich in glucosinolates (GSLs) that have proven health benefits. To gain insights into the synthesis of GSLs in cabbage, we systematically analyzed GSLs biosynthetic genes (GBGs) in the entire cabbage genome. In total, 193 cabbage GBGs were identified, which were homologous to 106 GBGs in Arabidopsis thaliana. Most GBGs in cabbage have undergone negative selection. Many homologous GBGs in cabbage and Chinese cabbage differed in expression patterns indicating the unique functions of these homologous GBGs. Spraying five exogenous hormones significantly altered expression levels of GBGs in cabbage. For example, MeJA significantly upregulated side chain extension genes BoIPMILSU1-1 and BoBCAT-3-1, and the expression of core structure construction genes BoCYP83A1 and BoST5C-1, while ETH significantly repressed the expression of side chain extension genes such as BoIPMILSU1-1, BoCYP79B2-1, and BoMAMI-1, and some transcription factors, namely BoMYB28-1, BoMYB34-1, BoMYB76-1, BoCYP79B2-1, and BoMAMI-1. Phylogenetically, the CYP83 family and CYP79B and CYP79F subfamilies may only be involved in GSL synthesis in cruciferous plants. Our unprecedented identification and analysis of GBGs in cabbage at the genome-wide level lays a foundation for the regulation of GSLs synthesis through gene editing and overexpression.
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- 2023
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4. Comparative analyses of Flammulina filiformis mitochondrial genomes reveal high length polymorphism in intergenic regions and multiple intron gain/loss in cox1
- Author
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Hao, Tan, Yang, Yu, Yu, Fu, Tianhai, Liu, Yong, Wang, Weihong, Peng, Bo, Wang, and Jian, Chen
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Plant Breeding ,Structural Biology ,Genome, Mitochondrial ,DNA, Intergenic ,General Medicine ,Agaricales ,Molecular Biology ,Biochemistry ,Introns ,Phylogeny - Abstract
The golden-needle mushroom Flammulina filiformis is one of the bulk mushroom products in the world. This study obtained complete mitogenomes of 44 wild isolates collected from nine provinces and two artificially bred cultivars of F. filiformis, together with three Flammulina rossica isolates and one Flammulina fennae isolate for comparison. The mitogenome of F. filiformis ranged from 83,540 bp to 90,938 bp, consisting of 14 conserved protein-coding genes (PCGs), two rRNA genes, and 25 tRNA genes. To the best of our knowledge, it contained the highest proportion of intergenic regions compared to the other known Basidiomycota mitogenomes. Introns and intergenic regions were two major contributing factors to the total size of the F. filiformis mitogenome. The conserved PCG cox3 is located in an intron of another conserved PCG, nad5. This is a unique phenomenon in all known fungal mitogenomes. Gain/loss of introns was observed in cox1, nad5, and rnl. Length polymorphism was widely observed in intergenic regions. Accordingly, primers were designed as useful markers for rapid identification of F. filiformis isolates with differentiated mitogenomes. Our findings provide a basis for further studies related to variety identification and population genetics of this economically important mushroom.
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- 2022
5. Potential Threats to Human Health from Eurasian Avian-Like Swine Influenza A(H1N1) Virus and Its Reassortants
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Shuai-Yong, Wang, Feng, Wen, Ling-Xue, Yu, Juan, Wang, Man-Zhu, Wang, Jie-Cong, Yan, Yan-Jun, Zhou, Wu, Tong, Tong-Ling, Shan, Guo-Xin, Li, Hao, Zheng, Chang-Long, Liu, Ning, Kong, Guang-Zhi, Tong, and Hai, Yu
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Swine Diseases ,Microbiology (medical) ,Swine ,Epidemiology ,Influenza A Virus, H3N2 Subtype ,Birds ,Influenza A Virus, H1N1 Subtype ,Infectious Diseases ,Orthomyxoviridae Infections ,Influenza A virus ,Influenza, Human ,Animals ,Humans ,Phylogeny ,Reassortant Viruses - Abstract
During 2018-2020, we isolated 32 Eurasian avian-like swine influenza A(H1N1) viruses and their reassortant viruses from pigs in China. Genomic testing identified a novel reassortant H3N1 virus, which emerged in late 2020. Derived from G4 Eurasian H1N1 and H3N2 swine influenza viruses. This virus poses a risk for zoonotic infection.
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- 2022
6. Three new species of the genus Boulenophrys (Anura, Megophryidae) from southern China
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L. Lee Grismer, Ke-Yuan Dai, Ying-Yong Wang, Yuan-Qiu Li, Zhao-Chi Zeng, Yun-Ming Mo, Yang-Jin Zeng, Shuo Qi, Jian Wang, and Zhi-Tong Lyu
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China ,Species complex ,Subfamily ,South china ,Arthropoda ,Megophryidae ,Zoology ,Morphology (biology) ,Amphibia ,Neanuridae ,Genus ,Animals ,Animalia ,Chordata ,Phylogeny ,Ecology, Evolution, Behavior and Systematics ,Taxonomy ,biology ,Genetic Drift ,Biodiversity ,biology.organism_classification ,Poduromorpha ,Bufonidae ,Southern china ,Collembola ,Animal Science and Zoology ,Taxonomy (biology) ,Anura - Abstract
The diversity of Asian horned toads is considered highly underestimated and to contain a large number of undescribed cryptic species. In this work, we describe three new species of Boulenophrys from south China, namely, Boulenophrys yaoshanensis sp. nov. from central Guangxi, Boulenophrys yingdeensis sp. nov. from northern Guangdong, and Boulenophrys yunkaiensis sp. nov. from western Guangdong. These three new species can be distinguished from all recognized congeners by a combination of morphological characteristics and significant genetic divergences. These descriptions increase the number of recognized species of Boulenophrys to 61. In addition, an updated checklist of the Asian horned toads of the subfamily Megophryinae is provided in this study.
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- 2021
7. A new species of the genus Tylototriton (Caudata, Salamandridae) from Guangdong, southern China, with discussion on the subgenera and species groups within the genus
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Ying-Yong Wang, Jian Wang, Shuo Qi, Jia-Jun Zhou, You-Yu Li, Han Wan, Zhi-Tong Lyu, and Zhao-Chi Zeng
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Caudata ,Species groups ,Zoology ,Tylototriton sini sp. nov ,Biology ,phylogeny ,Amphibia ,Genus ,Yunkai Mountains ,morphology ,Tylototriton ,Animalia ,Chordata ,Ecology, Evolution, Behavior and Systematics ,Salamandridae ,conservation ,biology.organism_classification ,Biota ,Southern china ,QL1-991 ,Pleurodelinae ,Subgenus ,Chresonymy - Abstract
In this work, a new species of the genus Tylototriton is described from Guangdong, southern China. Tylototriton sini sp. nov. was recorded as T. asperrimus for decades, and was indicated to represent an independent lineage based on recent molecular phylogenetic analyses. After detailed molecular analysis and morphological comparisons, Tylototriton sini sp. nov. is recognized as a distinct species which can be clearly distinguished from all known congeners by a combination of morphological characteristics and the significant divergence in the mitochondrial gene. Because the genus Tylototriton is of high conservation concern and all formally described members are protected by law, we also provide first data on the conservation status and recommendations for IUCN categorization for Tylototriton sini sp. nov. A suggestion on the species groups division of the genus Tylototriton is also provided based on their morphological differences and phylogenetic relationships.
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- 2021
8. Microbial ecology of sulfur cycling near the sulfate–methane transition of deep‐sea cold seep sediments
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Yong Wang, Xiyang Dong, Rui Lu, Peng-Fei Zheng, Ying-Li Zhou, Wen-Li Li, and Dong Feng
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Geologic Sediments ,biology ,Sulfates ,Sulfur metabolism ,chemistry.chemical_element ,biology.organism_classification ,Microbiology ,Sulfur ,Cold seep ,chemistry.chemical_compound ,Microbial ecology ,chemistry ,RNA, Ribosomal, 16S ,Environmental chemistry ,Anaerobic oxidation of methane ,Gammaproteobacteria ,Sulfate ,Methane ,Oxidation-Reduction ,Nitrogen cycle ,Phylogeny ,Ecology, Evolution, Behavior and Systematics - Abstract
Microbial sulfate reduction is largely associated with anaerobic methane oxidation and alkane degradation in sulfate-methane transition zone (SMTZ) of deep-sea cold seeps. How the sulfur cycling is mediated by microbes near SMTZ has not been fully understood. In this study, we detected a shallow SMTZ in three of eight sediment cores sampled from two cold seep areas in the South China Sea. One hundred ten genomes representing sulfur-oxidizing bacteria (SOB) and sulfur-reducing bacteria (SRB) strains were identified from three SMTZ-bearing cores. In the layers above SMTZ, SOB were mostly constituted by Campylobacterota, Gammaproteobacteria and Alphaproteobacteria that probably depended on nitrogen oxides and/or oxygen for oxidation of sulfide and thiosulfate in near-surface sediment layers. In the layers below the SMTZ, the deltaproteobacterial SRB genomes and metatranscriptomes revealed CO2 fixation by Wood-Ljungdahl pathway, sulfate reduction and nitrogen fixation for syntrophic or fermentative lifestyle. A total of 68% of the metagenome assembled genomes were not adjacent to known species in a phylogenomic tree, indicating a high diversity of bacteria involved in sulfur cycling. With the large number of genomes for SOB and SRB, our study uncovers the microbial populations that potentially mediate sulfur metabolism and associated carbon and nitrogen cycles, which sheds light on complex biogeochemical processes in deep-sea environments.
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- 2021
9. Complete Chloroplast Genome Sequence of the Endemic and Endangered Plant
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Yong, Wang, Jing, Yu, Yu-Kai, Chen, and Zhu-Cheng, Wang
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DNA, Chloroplast ,Genome, Chloroplast ,Codon ,Phylogeny ,Microsatellite Repeats - Published
- 2022
10. Human infection with H3N8 avian influenza virus: A novel H9N2-original reassortment virus
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Peidong Li, Minghui Niu, Yitao Li, Mingguo Xu, Tianyi Zhao, Xingwang Cao, Chengzhe Liang, Yong Wang, Yaling Li, and Chencheng Xiao
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Microbiology (medical) ,Influenza A Virus, H3N8 Subtype ,Infectious Diseases ,Influenza in Birds ,Influenza, Human ,Influenza A Virus, H9N2 Subtype ,Animals ,Humans ,Chickens ,Reassortant Viruses ,Phylogeny - Published
- 2022
11. Phylogenetically and catabolically diverse diazotrophs reside in deep-sea cold seep sediments
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Xiyang Dong, Chuwen Zhang, Yongyi Peng, Hong-Xi Zhang, Ling-Dong Shi, Guangshan Wei, Casey R. J. Hubert, Yong Wang, and Chris Greening
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Geologic Sediments ,Multidisciplinary ,Nitrogen ,Sulfates ,General Physics and Astronomy ,General Chemistry ,Archaea ,General Biochemistry, Genetics and Molecular Biology ,RNA, Ribosomal, 16S ,Seawater ,Methane ,Oxidation-Reduction ,Ecosystem ,Phylogeny - Abstract
Microbially mediated nitrogen cycling in carbon-dominated cold seep environments remains poorly understood. So far anaerobic methanotrophic archaea (ANME-2) and their sulfate-reducing bacterial partners (SEEP-SRB1 clade) have been identified as diazotrophs in deep sea cold seep sediments. However, it is unclear whether other microbial groups can perform nitrogen fixation in such ecosystems. To fill this gap, we analyzed 61 metagenomes, 1428 metagenome-assembled genomes, and six metatranscriptomes derived from 11 globally distributed cold seeps. These sediments contain phylogenetically diverse nitrogenase genes corresponding to an expanded diversity of diazotrophic lineages. Diverse catabolic pathways were predicted to provide ATP for nitrogen fixation, suggesting diazotrophy in cold seeps is not necessarily associated with sulfate-dependent anaerobic oxidation of methane. Nitrogen fixation genes among various diazotrophic groups in cold seeps were inferred to be genetically mobile and subject to purifying selection. Our findings extend the capacity for diazotrophy to five candidate phyla (Altarchaeia, Omnitrophota, FCPU426, Caldatribacteriota and UBA6262), and suggest that cold seep diazotrophs might contribute substantially to the global nitrogen balance.
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- 2022
12. Complete Chloroplast Genome Features of
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Jialong, Pei, Yong, Wang, Juan, Zhuo, Huibin, Gao, Naresh, Vasupalli, Dan, Hou, and Xinchun, Lin
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Evolution, Molecular ,Chloroplasts ,Genome, Chloroplast ,Phylogeny ,Microsatellite Repeats - Published
- 2022
13. Recombination between NADC34-like and QYYZ-like strain of porcine reproductive and respiratory syndrome virus with high pathogenicity for piglets in China
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Ying‐Feng Sun, Ye Liu, Jing Yang, Wen‐Zhong Li, Xiao‐Xue Yu, Shuai‐Yong Wang, Liu‐An Li, and Hai Yu
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Recombination, Genetic ,Swine Diseases ,China ,General Veterinary ,General Immunology and Microbiology ,Virulence ,Swine ,Porcine Reproductive and Respiratory Syndrome ,Genetic Variation ,General Medicine ,Genome, Viral ,Animals ,Porcine respiratory and reproductive syndrome virus ,Phylogeny - Abstract
Porcine reproductive and respiratory syndrome virus (PRRSV) is an important pathogen that causes huge economic losses to the swine industry worldwide. Here, a novel variant of PRRSV strain named TJnh2021 was isolated from nursery piglets with morbidity rate (75%) and mortality rate (40%) in Tianjin Province of China in 2021. Phylogenetic and molecular evolutionary analyses revealed that TJnh2021 was highly similar to NADC34-like (lineage 1.5, isolated in North America in 2014) in the ORF1ab-ORF2 and ORF6-ORF7 coding regions, as well as to QYYZ-like (lineage 3, isolated in China in 2010) in the ORF3-ORF5, suggestive of a natural recombination event. Recombination analyses revealed that recombination events occurred in two interlineage recombination events between lineages 1.5 and 3, and two breakpoints in ORF2 (nt12196) and ORF5 (nt13628) (with reference to the VR-2332 strain). Animal experiments demonstrated that TJnh2021 caused mortality rates of 40% and exhibited higher pathogenicity in piglets compared to other lineage 1.5 strains reported in China. Taken altogether, NADC34-like PRRSV has undergone genetic exchange with Chinese local PRRSV strains and recombination might be responsible for the variations in pathogenicity and highlight the importance of surveillance of this lineage in China.
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- 2022
14. Carotenoid Biosynthetic Genes in Cabbage: Genome-Wide Identification, Evolution, and Expression Analysis
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Wenxue Cao, Peng Wang, Limei Yang, Zhiyuan Fang, Yangyong Zhang, Mu Zhuang, Honghao Lv, Yong Wang, and Jialei Ji
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PSY (phytoene synthase) genes ,Chloroplasts ,Gene Dosage ,food and beverages ,Chromosome Mapping ,carotenoid biosynthetic genes ,comparative genomics ,Brassica oleracea ,Brassica ,Genomics ,QH426-470 ,Carotenoids ,Article ,Biosynthetic Pathways ,Evolution, Molecular ,Genetics ,Genetics (clinical) ,Phylogeny ,Plant Proteins - Abstract
Carotenoids are natural functional pigments produced by plants and microorganisms and play essential roles in human health. Cabbage (Brassica oleracea L. var. capitata L.) is an economically important vegetable in terms of production and consumption. It is highly nutritious and contains β-carotene, lutein, and other antioxidant carotenoids. Here, we systematically analyzed carotenoid biosynthetic genes (CBGs) on the whole genome to understand the carotenoid biosynthetic pathway in cabbage. In total, 62 CBGs were identified in the cabbage genome, which are orthologs of 47 CBGs in Arabidopsis thaliana. Out of the 62 CBGs, 46 genes in cabbage were mapped to nine chromosomes. Evolutionary analysis of carotenoid biosynthetic orthologous gene pairs among B. oleracea, B. rapa, and A. thaliana revealed that orthologous genes of B. oleracea underwent a negative selection similar to that of B. rapa. Expression analysis of the CBGs showed functional differentiation of orthologous gene copies in B. oleracea and B. rapa. Exogenous phytohormone treatment suggested that ETH, ABA, and MeJA can promote some important CBGs expression in cabbage. Phylogenetic analysis showed that BoPSYs exhibit high conservatism. Subcellular localization analysis indicated that BoPSYs are located in the chloroplast. This study is the first to study carotenoid biosynthesis genes in cabbage and provides a basis for further research on carotenoid metabolic mechanisms in cabbage.
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- 2021
15. Genome wide association study of plant height and tiller number in hulless barley
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Kunlun Wu, Yi-Xiong Bai, Man Li, Youhua Yao, Likun An, Yong Wang, Zhonghua Wang, Xiaohua Yao, Xiao-Hong Zhao, Xin Gao, Lulu Guan, Yatao Jia, and Xin Li
- Subjects
Candidate gene ,Single Nucleotide Polymorphisms ,Genome-wide association study ,Linkage Disequilibrium ,Phylogeny ,Genetics ,Principal Component Analysis ,Multidisciplinary ,Phylogenetic tree ,food and beverages ,Eukaryota ,Agriculture ,Genomics ,Plants ,Phenotype ,Experimental Organism Systems ,Medicine ,Genome, Plant ,Plant Shoots ,Research Article ,Science ,Quantitative Trait Loci ,Single-nucleotide polymorphism ,Crops ,Biology ,Research and Analysis Methods ,Polymorphism, Single Nucleotide ,Deep sequencing ,Plant and Algal Models ,Barley ,Genome-Wide Association Studies ,Tiller ,Grasses ,Organisms ,Biology and Life Sciences ,Computational Biology ,Human Genetics ,Hordeum ,Genome Analysis ,Minor allele frequency ,Genetic Loci ,Animal Studies ,Hordeum vulgare ,Rice ,Crop Science ,Cereal Crops ,Genome-Wide Association Study - Abstract
Hulless barley (Hordeum vulgare L. var. nudum), also called naked barley, is a unique variety of cultivated barley. The genome-wide specific length amplified fragment sequencing (SLAF-seq) method is a rapid deep sequencing technology that is used for the selection and identification of genetic loci or markers. In this study, we collected 300 hulless barley accessions and used the SLAF-seq method to identify candidate genes involved in plant height (PH) and tiller number (TN). We obtained a total of 1407 M paired-end reads, and 228,227 SLAF tags were developed. After filtering using an integrity threshold of >0.8 and a minor allele frequency of >0.05, 14,504,892 single-nucleotide polymorphisms (SNP) loci were screened out. The remaining SNPs were used for the construction of a neighbour-joining phylogenetic tree, and the three subcluster members showed no obvious differentiation among regional varieties. We used a genome wide association study approach to identify 1006 and 113 SNPs associated with TN and PH, respectively. Based on best linear unbiased predictors (BLUP), 41 and 29 SNPs associated with TN and PH, respectively. Thus, several of genes, including Hd3a and CKX5, may be useful candidates for the future genetic breeding of hulless barley. Taken together, our results provide insight into the molecular mechanisms controlling barley architecture, which is important for breeding and yield.
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- 2021
16. Human SARS-CoV-2 has evolved to increase U content and reduce genome size
- Author
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Yong Wang, Xin-Yu Chen, Liu Yang, Qin Yao, and K.P. Chen
- Subjects
Base Composition ,China ,Genome ,Base Sequence ,SARS-CoV-2 ,COVID-19 ,General Medicine ,Genome, Viral ,Biochemistry ,Evolution, Molecular ,Genome Size ,Structural Biology ,Mutation ,Humans ,Codon ,Uracil ,Molecular Biology ,Phylogeny - Abstract
Infections caused by SARS-CoV-2 have brought great harm to human health. After transmission for over two years, SARS-CoV-2 has diverged greatly and formed dozens of different lineages. Understanding the trend of its genome evolution could help foresee difficulties in controlling transmission of the virus. In this study, we conducted an extensive monthly survey and in-depth analysis on variations of nucleotide, amino acid and codon numbers in 311,260 virus samples collected till January 2022. The results demonstrate that the evolution of SARS-CoV-2 is toward increasing U-content and reducing genome-size. C, G and A to U mutations have all contributed to this U-content increase. Mutations of C, G and A at codon position 1, 2 or 3 have no significant difference in most SARS-CoV-2 lineages. Current viruses are more cryptic and more efficient in replication, and are thus less virulent yet more infectious. Delta and Omicron variants have high mutability over other lineages, bringing new threat to human health. This trend of genome evolution may provide a clue for tracing the origin of SARS-CoV-2, because ancestral viruses should have lower U-content and probably bigger genome-size.
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- 2021
17. Erratum to: Genomic analyses unveil helmeted guinea fowl (Numida meleagris) domestication in West Africa
- Author
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Newton O. Otecko, Hojjat Asadollahpour Nanaei, Peter Njoroge, John Musina, Yuan Du, Quan-Kuan Shen, Lotanna M. Nneji, Sheila C. Ommeh, Agboola O Okeyoyin, Jacqueline K Lichoti, Robert W. Murphy, Shengchang Duan, Ya-Ping Zhang, Min-Sheng Peng, Szilvia Kusza, Ming-Min Xu, Yong-Wang Miao, Ali Esmailizadeh, Ling Kui, Yang Dong, Maria Giuseppina Strillacci, Alessandro Bagnato, Oscar J Sanke, Ming-Shan Wang, Erica Gorla, Bernard Agwanda, Adeniyi C. Adeola, Philip M Dawuda, Nada M Eltayeb, Olaogun S Charles, and Rana Pedar
- Subjects
AcademicSubjects/SCI01140 ,Male ,2019-20 coronavirus outbreak ,Genome ,Guinea fowl ,Coronavirus disease 2019 (COVID-19) ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,AcademicSubjects/SCI01130 ,Genetic Variation ,Zoology ,Biology ,West africa ,Domestication ,Phylogeography ,Genetics ,Animals ,Erratum ,Galliformes ,Selection, Genetic ,Phylogeny ,Ecology, Evolution, Behavior and Systematics - Abstract
Domestication of the helmeted guinea fowl (HGF; Numida meleagris) in Africa remains elusive. Here we report a high-quality de novo genome assembly for domestic HGF generated by long- and short-reads sequencing together with optical and chromatin interaction mapping. Using this assembly as the reference, we performed population genomic analyses for newly sequenced whole-genomes for 129 birds from Africa, Asia, and Europe, including domestic animals (n = 89), wild progenitors (n = 34), and their closely related wild species (n = 6). Our results reveal domestication of HGF in West Africa around 1,300-5,500 years ago. Scanning for selective signals characterized the functional genes in behavior and locomotion changes involved in domestication of HGF. The pleiotropy and linkage in genes affecting plumage color and fertility were revealed in the recent breeding of Italian domestic HGF. In addition to presenting a missing piece to the jigsaw puzzle of domestication in poultry, our study provides valuable genetic resources for researchers and breeders to improve production in this species.
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- 2021
18. Evidence for saponin diversity–mycobiome links and conservatism of plant–fungi interaction patterns across Holarctic disjunct Panax species
- Author
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Guozhuang, Zhang, Fugang, Wei, Zhongjian, Chen, Yong, Wang, Shuo, Jiao, JiaYing, Yang, Yongzhong, Chen, Congsheng, Liu, Zhixin, Huang, Linlin, Dong, and Shilin, Chen
- Subjects
Environmental Engineering ,Fungi ,Panax ,Environmental Chemistry ,Plants ,Saponins ,Pollution ,Waste Management and Disposal ,Ecosystem ,Phylogeny ,Soil Microbiology ,Mycobiome - Abstract
Although interplays between plant and coevolved microorganisms are believed to drive landscape formation and ecosystem services, the relationships between the mycobiome and phytochemical evolution and the evolutionary characteristics of plant-mycobiome interaction patterns are still unclear. The present study explored fungal communities from 405 multiniche samples of three Holarctic disjunct Panax species. The overall mycobiomes showed compartment-dominated variations and dynamic universality. Neutral models were fitted for each compartment at the Panax genus (I) and species (II) levels to infer the community assembly mechanism and identify fungal subgroups potentially representing different plant-fungi interaction results, i.e., the potentially selected, opposed, and neutral taxa. Selection contributed more to the endosphere than to external compartments. The nonneutral taxa showed significant phylogenetic clustering. In Model I, the opposed subgroups could best reflect Panax saponin diversities (r = 0.69), and genera with highly positive correlations to specific saponins were identified using machine learning. Although mycobiomes in the three species differed significantly, subgroups in Model II were phylogenetically clustered based on potential interaction type rather than plant species, indicating potentially conservative plant-fungi interactions. In summary, the finding of strong links between invaders and saponin diversity can help explore the underlying mechanisms of saponin biosynthesis evolution from microbial insights, which is important to understanding the formation of the current landscape. The potential conservatism of plant-fungi interaction patterns suggests that the related genetic modules and selection pressures were convergent across Panax species, advancing our understanding of plant interplay with biotic environments.
- Published
- 2022
19. Four new Phragmidium (Phragmidiaceae, Pucciniomycetes) species from Rosaceae plants in Guizhou Province of China.
- Author
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Jing-E Sun, Qian Zhang, Wen-Mei Luo, Yuan-Qiao Yang, Hua-Ming An, and Yong Wang
- Subjects
ROSACEAE ,SPECIES ,RUST diseases ,PROVINCES ,LOQUAT - Abstract
In this study, four new species of Phragmidium were proposed based on morphological and molecular characters. In morphology, Phragmidium rosae-roxburghii sp. nov. was distinguished to related taxa by its unique square to diamond-shaped urediniospores; Ph. rubi-coreani sp. nov. differed from Ph. barclayi and Ph. cibanum because of teliospores with fewer cells and shorter pedicels; urediniospores of Ph. potentillaefreynianae sp. nov. were bigger than Ph. duchesneae-indica; and Ph. rosae-laevigatae sp. nov. produced bigger urediniospores than Ph. jiangxiense. The phylogenetic analyses based on the combination of two loci (ITS and LSU) also supported our morphological conclusion. In the meantime, three previously known species were also described herein. [ABSTRACT FROM AUTHOR]
- Published
- 2022
- Full Text
- View/download PDF
20. Cladosporium spp. (Cladosporiaceae) isolated from Eucommia ulmoides in China.
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Si-Yao Wang, Yong Wang, and Yan Li
- Subjects
- *
EUCOMMIA ulmoides , *CLADOSPORIUM , *FOREST litter , *ENDANGERED species , *SPECIES - Abstract
Eucommia ulmoides is a rare tree species in China with high medicinal and gum value. Nine strains of hyphomycetous fungi were isolated from the leaf litter of E. ulmoides in Guizhou Province. Preliminary identifications based on ITS indicated that they belong to the genus Cladosporium. Morphology and phylogenetic analyses based on the internal transcribed spacer regions (ITS) of the nrDNA, the partial translation elongation factor 1-a (tef1) gene and partial of actin (act) gene confirmed that the strains represent four species, including two novel taxa, viz., Cladosporium eucommiae and C. guizhouense and two new substrate records for known species. [ABSTRACT FROM AUTHOR]
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- 2022
- Full Text
- View/download PDF
21. Phylogenetic analysis and evolution of feline bocavirus in Anhui Province, eastern China
- Author
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Fazhi Xu, Shudong Jiang, Yong Wang, Wei Li, Tianhong Zhou, Yongqiu Cui, Xu Guo, and Da Zhang
- Subjects
China ,Genotype ,General Veterinary ,Phylogenetic tree ,Immunology ,Eastern china ,Molecular evidence ,General Medicine ,Biology ,Microbiology ,Genome ,Bocavirus ,Evolution, Molecular ,Feces ,Infectious Diseases ,Evolutionary biology ,Codon usage bias ,Cats ,Animals ,Immunology and Allergy ,Adaptation ,Phylogeny ,Selection (genetic algorithm) - Abstract
To understand the epidemic status of feline bocavirus (FBoV) in Anhui Province, eastern China, FBoV was successfully extracted from fecal samples of domestic cats, and five complete genomes were amplified in this study. Phylogenetic analysis showed that these five strains belong to three different FBoV genotypes. Recombination analysis showed that inter- and intra-genotype recombination events occurred. Selection pressure and codon usage bias analyses indicated that FBoV-1 and FBoV-3 continuously evolve toward adaptation, and selection pressure is the main factor for codon usage bias during evolution. This study provides the first molecular evidence of FBoV prevalence in eastern China, further enriching the available information on its genetics and evolutionary characteristics and providing a basis for further research on its evolution.
- Published
- 2021
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