Biomaterial Database

Ty3/gypsy-like retrotransposon sequences in tomato. 1997

P Y Su, and T A Brown

Department of Biomolecular Sciences, UMIST, Manchester M60 1QD, United Kingdom.

Polymerase chain reactions (PCRs) were carried out with DNAs of eight tomato species using primers directed at the reverse transcriptase domain of Ty3/gypsy-like LTR retrotransposons. All DNAs gave PCR products of the expected size which, after cloning and sequencing, were confirmed as representing Ty3/gypsy-like elements. The sequences were heterogeneous, only 3 of the 16 being identical and the most diverse showing 124/426 pairwise nucleotide differences. Multiple alignment and construction of neighbor joining trees divided the sequences into six groups, three comprising five, three, and five sequences respectively, and the other three containing a single sequence each.

UI	MeSH Term	Description	Entries
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
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
D001483	Base Sequence	The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.	DNA Sequence,Nucleotide Sequence,RNA Sequence,DNA Sequences,Base Sequences,Nucleotide Sequences,RNA Sequences,Sequence, Base,Sequence, DNA,Sequence, Nucleotide,Sequence, RNA,Sequences, Base,Sequences, DNA,Sequences, Nucleotide,Sequences, RNA
D012689	Sequence Homology, Nucleic Acid	The sequential correspondence of nucleotides in one nucleic acid molecule with those of another nucleic acid molecule. Sequence homology is an indication of the genetic relatedness of different organisms and gene function.	Base Sequence Homology,Homologous Sequences, Nucleic Acid,Homologs, Nucleic Acid Sequence,Homology, Base Sequence,Homology, Nucleic Acid Sequence,Nucleic Acid Sequence Homologs,Nucleic Acid Sequence Homology,Sequence Homology, Base,Base Sequence Homologies,Homologies, Base Sequence,Sequence Homologies, Base
D017386	Sequence Homology, Amino Acid	The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.	Homologous Sequences, Amino Acid,Amino Acid Sequence Homology,Homologs, Amino Acid Sequence,Homologs, Protein Sequence,Homology, Protein Sequence,Protein Sequence Homologs,Protein Sequence Homology,Sequence Homology, Protein,Homolog, Protein Sequence,Homologies, Protein Sequence,Protein Sequence Homolog,Protein Sequence Homologies,Sequence Homolog, Protein,Sequence Homologies, Protein,Sequence Homologs, Protein
D018551	Solanum lycopersicum	A plant species of the family SOLANACEAE, native of South America, widely cultivated for their edible, fleshy, usually red fruit.	Lycopersicon esculentum,Tomatoes,Tomato
D018626	Retroelements	Elements that are transcribed into RNA, reverse-transcribed into DNA and then inserted into a new site in the genome. Long terminal repeats (LTRs) similar to those from retroviruses are contained in retrotransposons and retrovirus-like elements. Retroposons, such as LONG INTERSPERSED NUCLEOTIDE ELEMENTS and SHORT INTERSPERSED NUCLEOTIDE ELEMENTS do not contain LTRs.	MDG1 Retrotransposons,Mobile Dispersed Genetic Elements,Retroposons,Retrotransposons,Retrovirus-like Elements,Ty1 Transposon,Element, Retrovirus-like,Elements, Retrovirus-like,MDG1 Retrotransposon,Retroelement,Retroposon,Retrotransposon,Retrotransposon, MDG1,Retrotransposons, MDG1,Retrovirus like Elements,Retrovirus-like Element,Transposon, Ty1,Transposons, Ty1,Ty1 Transposons
D018744	DNA, Plant	Deoxyribonucleic acid that makes up the genetic material of plants.	Plant DNA