Biomaterial Database

[Sequence analysis of VP7 gene from rotavirus field strain from Guangzhou, China]. 2003

Dong-mei Chen, and Yuan Qian, and You Zhang, and Ru-xu Chang

Capital Institute of Pediatrics, Beijing Municipal Laboratory of Infection and Immunity, Beijing 100020, China.

OBJECTIVE To compare the difference of VP7 fragment at the nucleotide level between rotavirus Guangzhou field strain R97-196 and rotavirus Beijing field strain or prototype strains. METHODS The VP7 fragment amplified from Guangzhou field strain R97-196 by RT-PCR was cloned into the T-A cloning vector pUCm-T and sequenced. RESULTS The VP7 fragment from Guangzhou field strain R97-196 was 1,062 bp in length and contained two open reading frames which is consistent with that reported in the literature. The sequence analysis revealed that the cDNA from R97-196 shared higher nucleotide and amino acid identities with Beijing field strain T73 (98% and %, respectively) than with serotype 2-4 (G types) rotavirus (from 74% to 77% and 73% to 81%, respectively). The divergence of amino acid sequences is mainly within the nine divergence regions. The phylogenetic analysis revealed that the VP7 fragment from R97-196 was far away from rotavirus serotype G1 strain Wa. CONCLUSIONS The VP7 gene fragment from rotavirus Guangzhou field strain R97-196 belongs to rotavirus serotype G1. And variation of rotavirus VP7 gene fragment seems to be a geographic matter.

UI	MeSH Term	Description	Entries
D007223	Infant	A child between 1 and 23 months of age.	Infants
D008969	Molecular Sequence Data	Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.	Sequence Data, Molecular,Molecular Sequencing Data,Data, Molecular Sequence,Data, Molecular Sequencing,Sequencing Data, Molecular
D010802	Phylogeny	The relationships of groups of organisms as reflected by their genetic makeup.	Community Phylogenetics,Molecular Phylogenetics,Phylogenetic Analyses,Phylogenetic Analysis,Phylogenetic Clustering,Phylogenetic Comparative Analysis,Phylogenetic Comparative Methods,Phylogenetic Distance,Phylogenetic Generalized Least Squares,Phylogenetic Groups,Phylogenetic Incongruence,Phylogenetic Inference,Phylogenetic Networks,Phylogenetic Reconstruction,Phylogenetic Relatedness,Phylogenetic Relationships,Phylogenetic Signal,Phylogenetic Structure,Phylogenetic Tree,Phylogenetic Trees,Phylogenomics,Analyse, Phylogenetic,Analysis, Phylogenetic,Analysis, Phylogenetic Comparative,Clustering, Phylogenetic,Community Phylogenetic,Comparative Analysis, Phylogenetic,Comparative Method, Phylogenetic,Distance, Phylogenetic,Group, Phylogenetic,Incongruence, Phylogenetic,Inference, Phylogenetic,Method, Phylogenetic Comparative,Molecular Phylogenetic,Network, Phylogenetic,Phylogenetic Analyse,Phylogenetic Clusterings,Phylogenetic Comparative Analyses,Phylogenetic Comparative Method,Phylogenetic Distances,Phylogenetic Group,Phylogenetic Incongruences,Phylogenetic Inferences,Phylogenetic Network,Phylogenetic Reconstructions,Phylogenetic Relatednesses,Phylogenetic Relationship,Phylogenetic Signals,Phylogenetic Structures,Phylogenetic, Community,Phylogenetic, Molecular,Phylogenies,Phylogenomic,Reconstruction, Phylogenetic,Relatedness, Phylogenetic,Relationship, Phylogenetic,Signal, Phylogenetic,Structure, Phylogenetic,Tree, Phylogenetic
D003968	Diarrhea, Infantile	DIARRHEA occurring in infants from newborn to 24-months old.	Infantile Diarrhea,Diarrheas, Infantile,Infantile Diarrheas
D006801	Humans	Members of the species Homo sapiens.	Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D000595	Amino Acid Sequence	The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.	Protein Structure, Primary,Amino Acid Sequences,Sequence, Amino Acid,Sequences, Amino Acid,Primary Protein Structure,Primary Protein Structures,Protein Structures, Primary,Structure, Primary Protein,Structures, Primary Protein
D000956	Antigens, Viral	Substances elaborated by viruses that have antigenic activity.	Viral Antigen,Viral Antigens,Antigen, Viral
D012400	Rotavirus Infections	Infection with any of the rotaviruses. Specific infections include human infantile diarrhea, neonatal calf diarrhea, and epidemic diarrhea of infant mice.	Infection, Rotavirus,Infections, Rotavirus,Rotavirus Infection
D012401	Rotavirus	A genus of REOVIRIDAE, causing acute gastroenteritis in BIRDS and MAMMALS, including humans. Transmission is horizontal and by environmental contamination. Seven species (Rotaviruses A thru G) are recognized.	Neonatal Calf Diarrhea Virus,Rotaviruses
D012703	Serotyping	Process of determining and distinguishing species of bacteria or viruses based on antigens they share.	Serotypings