AGRICOLA -- Guide to Subject Indexing

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OMIM = Online Mendelian Inheritance in Man (McKusick)PDB = Protein Data Bank (Brookhaven Crystallographic Database)PIR = Protein Identification Resource (amino acid sequences)PRFSEQDB = Protein Research Foundation (Amino Acid Seq. Japan)SWISSPROT = Protein Sequence Database (translated EMBL)If you encounter a databank which is not on this list, consult the PlantGenome Coordinator immediately.2. Databank abbreviation/accession number formatNucleotide sequence accession numbers are usually designated by asingle letter followed by a 5-digit number. Be careful to distinguish zeros(0) and "ohs" (O) in the accession number to avoid errors in transcribing.If an accession number is suspect, indexers should photocopy the pageon which the accession number occurs and give the photocopy to thePlant Genome Coordinator. (Technicians should input all 653 entries inlowercase even though the examples presented here are in uppercase foremphasis).3. Invalid databank abbreviationsNote that some journals are using the abbreviation NBRF or NBRF-PIR.NBRF is an abbreviation for the National Biomedical ResearchFoundation, the group that sponsors the PIR. For these articles, use PIRas the databank abbreviation in the 653 field.MIPS and JIPID are databanks that work in cooperation with the PIRdatabank. Do not use MIPS or JIPID databanks in the 653 field. Use thePIR databank abbreviation for these databanks.Since the first Notes to Indexers #21, September 1990, AGRICOLAindexers have used multiple 653 entries for GENBANK, EMBL andDDBJ. For example, if sequences are assigned a joint accession numberby GENBANK, DDBJ and EMBL (e.g., GENBANK/DDBJ/EMBLJ03482), three separate 653's were entered, i.e., GENBANK/J03482;DDBJ/J03482; EMBL/J03482.Effective immediately with the March 1993 revision of Notes to Indexers#21, indexers are to use the databank abbreviation GENBANK for allarticles that cite DDBJ (DNA Data Bank of Japan) or EMBL (EMBLData Library). DDBJ and EMBL are no longer valid databankabbreviations. Use the GENBANK databank for these databanks.Multiple entries are no longer required for GENBANK, EMBL, andDDBJ since the three databanks share accession numbers.4. Limits on the number of databank abbreviation/accession number entries34
Since the first Notes to Indexer #21, September 1990, there has been nolimit on the number of databank abbreviation/accession number entriesin the 653 field.Effective immediately with the March 1993 revision of Notes to Indexers#21, there will be a maximum of 30 (thirty) entries in the 653 field. If thearticle at hand contains in excess of 30 entries, designate this by placinga "+" at the end of the thirtieth entry (i.e. GENBANK/M34562+).5. Location of databank abbreviation/accession numbers in textSearch diligently for the databank abbreviation and accession number inthe body of the text, in the abstract, in the Materials and Methodssection, or in figures. It is often buried in a small-print footnote. Thisfootnote is often on the first page of the article, but sometimes alsoappears in other places, e.g., with the legend to the figure illustrating thesequence.4. SEARCHING TIPSTerms entered in the descriptor field, field 650, may be searched with DIALOGsuffix code /DE and on SilverPlatter as IN DE. Terms entered in the identifierfield, field 653, may be searched with DIALOG suffix code /ID and onSilverPlatter as IN ID.No. 22, September 1990SUBJECT: Use of PROTEIN/PROTEINS Descriptors in CAB Thesaurus 1990EditionCABI has introduced in the 1990 edition of the CAB Thesaurus a distinction betweenPROTEIN and PROTEINS. This distinction is found in several pairs of descriptors,e.g., ANIMAL PROTEIN vs. ANIMAL PROTEINS, BACTERIAL PROTEIN vs.BACTERIAL PROTEINS, BLOOD PROTEIN vs. BLOOD PROTEINS,CEREAL PROTEIN vs. CEREAL PROTEINS, EGG PROTEIN vs. EGGPROTEINS, MILK PROTEIN vs. MILK PROTEINS, and PLANT PROTEIN vs.PLANT PROTEINS. Although CABI has included scope notes and/or structured thehierarchies in an attempt to make the intended distinction clear, we are concerned thatindexers will have difficulty applying these terms consistently, and that this will lead toretrieval problems.Follow these general guidelines in making your decisions. It is critical to note thatauthor usage of the singular vs. plural form of the word `protein' is NOT a reliable35
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