From Susan Altenbach, 2/1/94 Updated, Jon Wong, 2/5/96 GUIDELINES FOR ASSIGNING UNIQUE IDENTIFIERS TO GRAINGENES REFERENCES Each reference entered into Graingenes must have a unique alpha-numeric identifier. Most unique identifiers will consist of three parts: the first part will be a three letter code that identifies the source (i.e. journal/ bulletin/ proceeding/ thesis/ book/ etc.) of the reference. A master list of the "source codes" will be maintained by the curators of Graingenes; see the file "Source Codes for References" in this gopher menu. Sources not included in the list should be referred to the curator for assignment of a "source code" so that the master list can be maintained. The "source code" will be followed by a hyphen and a number that identifies the volume of the "source" (or, in some cases, the year in which the "source" was published), a second hyphen and a number or letter code that further identifies the reference; in most cases, the third part of the unique identifier will refer to the first page of a given article. Before entry into Graingenes, the unique identifiers will be checked against a master list of Graingenes references maintained by the Graingenes curators. General guidelines for assigning unique identifiers for different types of references follow. References that do not fit within the categories below should be referred to the Graingenes curators. 1) Articles Contained in Journals/Bulletins/Newsletters: The first three letters of the unique identifier will refer to the specific journal, bulletin, newsletter, etc. in which the article was published. The three letter code will be followed by a hyphen, the volume of the journal, another hypen and the first page number of the article. For example, the reference "Martin TJ, Harvey TL, Hatchett JH. 1982. Registration of greenbug and hessian fly resistant wheat germplasm. Crop Sci. 22: 1089" will have the unique identifier "CRS-22-1089". 2) Dissertations: Unique identifiers for dissertations will begin with a D followed by a two letter code for the university at which the dissertation was completed. This code will be followed by a hyphen and the last two digits of the year in which the thesis was published, another hyphen and the initials of the author (first, middle, last). For example, the reference "Hu ML. 1974. Genetic analyses of semidwarfing and insensitivity to gibberellin GA3 in hexaploid wheat (Triticum aestivum L. em Thell.). Ph.D. Thesis, Washington State University." will have the unique identifier "DWS-74-MLH" and the reference "Inbal E., 1982, Morphogenetic, genetic and physiologic aspects of stunting expression in wheat (Triticum aestivum L.), Ph.D. Thesis, Weizmann Institute, 122 pp." will have the unique identifier "DWI-82-EI". 3) Articles Contained in Books: Unique identifiers articles contained in books will begin with an X followed by a two letter code for the specific book, a hyphen and the last two digits of the year of publication, followed by a hyphen and the first page number. For example, the reference "Brown AHD 1983 Barley. Isozymes in Plant Genetics and Breeding, Part B, Elsevier Science Publishers B.V., Amsterdam. (Tanksley SD & Orton TJ eds.), 57-77. " will have the unique identifier "XIB-83-57". 4) Books Unique identifiers for books will begin with an X followed by a two letter code for the specific book, a hyphen and the last two digits of the year of publication. For example, the book "Isozymes in Plant Genetics and Breeding, Part B, 1983, Elsevier Science Publishers B.V., Amsterdam. (Tanksley SD & Orton TJ eds.), 57-77. " will have the unique identifier "XIB-83". 5) Articles Contained in Symposium Proceedings Unique identifiers for articles contained in proceedings from symposia will begin with a three letter code for the proceedings followed by a hyphen and the last two digits of the year of publication. This will be followed by a second hyphen and the first page of the article. For example, the reference "Bšrner A & Mettin D 1988 The genetic control of giberellic acid insensitivity of the wheat variety Ai-Bian 1. Proceedings of the 7th International Wheat Genetics Symposium, Institute of Plant Science Research, Cambridge, UK (Miller TE & Koebner RMD eds.): 489-492. " will have the unique identifier "WGS-88-489". 6) Symposium Proceedings Unique identifiers for proceedings from symposia will begin with a three letter code for the proceedings followed by a hyphen and the last two digits of the year of publication. For example, Proceedings of the 7th International Wheat Genetics Symposium, Institute of Plant Science Research, Cambridge, UK (Miller TE & Koebner RMD eds.): 489-492. " will have the unique identifier "WGS-88". (Please note that the year in which a symposium takes place does not necessarily match the year of publication of the proceedings of the symposium. For example, the 8th International Wheat Genetics Symposium took place in 1993, yet its Proceedings were published in 1995; its Reference ID is given as "WGS-95", not "WGS-93".) 7) Exceptions Not all of the references to be entered in Graingenes will have a format consistent with this scheme. Guidelines for dealing with some of the exceptions follow. a) Catalogue of Gene Symbols for Wheat (aka Wheat Gene Catalogue) The 1993 version of the Wheat Gene Catalogue has not yet been published. However, the Wheat Gene Catalogue will appear in several different sources. GrainGenes will use the code "WGC-93" to refer to the 1993 version of the Wheat Gene Catalogue. **The 1993 version of the Wheat Gene Catalogue may now be found in the Proceedings of the 8th International Wheat Genetics Symposium, pub- lished in 1995. As such, it has been assigned the Reference ID "WGS-95-1333", consistent with the naming scheme described in (5) above. The preceding paragraph is retained to highlight this change. Future editions of the Wheat Gene Catalogue may undergo similar trans- formations in their Reference IDs (initially given a temporary desig- nation, pending future publication in an established source). b) Personal communications/unpublished manuscripts/in preparation/ submitted references found in the Cataloge of Gene Symbols for Wheat and its Supplements: References labeled "personal communications", "unpublished manuscripts", "in preparation", or "submitted" and found in the reference sections of the 1993 version of the Wheat Gene Catalogue, the 1994 Supplement to the Wheat Gene Catalogue, and the 1995 Supplement to the Wheat Gene Catalogue will be identified with the following source codes: WGS-95-1333, AWN-40-362, and AWN-41-330, respectively. Appended to the source codes, will be a hyphen, the designation "Ref#", and the reference number assigned to that reference in the Wheat Gene Catalogue or the Wheat Gene Catalogue supplements. For example, the reference: 9411. Porter DR 1993 Personal Communication found in the 1994 Wheat Gene Catalogue Supplement, will be referenced as "AWN-40-362-Ref#9411". c) Citations without volume numbers: In cases where annual reports, bulletins, surveys or abstracts produced in different years contain no volume numbers, the last two digits of the year in which the annual report, bulletin, survey or abstract was published will be used in place of the volume number. The reference "Priestley RH, Bayles RA, Crofts J. 1982. Yellow rust of wheat. U.K. Cereal Pathogen Virulence Survey. 1981 Ann. Rep., N.I.A.B. pp 18-28." will have the unique identifier CPV-82-18" while the reference "Bennett FGA, van Kints T. 1983. Mildew of wheat. U.K. cereal pathogen virulence survey. 1983 Annual Report, pp 7-21." will have the unique identifier "CPV-83-7". Likewise, the reference "Kaveh H, Williams ND, Gough FJ. 1968. Allelic and linkage relations among genes for reaction to wheat stem rust. Agron. Abstr. p. 12." will have the unique identifier "AAB-68-12" while the reference "Bergman JW, Williams ND. 1972. Isozyme variants of esterase and malate dehydrogenase among wheat aneuploids. Agronomy Abstracts, p. 23." will be distinguished as "AAB-72-23". d) Citations without specific page numbers: In cases where an entire bulletin/document is cited in entirety, the page number will be omitted from the unique identifier. For example, the reference "Bressman EN. 1931. Varietal resistance, physiologic specialization and inheritance studies in bunt of wheat. Oregon Agr. Exp. Sta. Bull., 281, 44 pp." will have the unique identifier "OSB-281". e) Abstracts/short articles with the same unique identifiers Two or more short articles or abstracts will sometimes have the same unique identifier when the guidelines have been followed. In these cases, a hyphen and an additional letter (A, B, C etc.) must be added at the end of the identifier to distinguish the references. It does not matter which of the references is followed by the "A" and which is followed by the "B", only that the references are distinguished from each other. The addition of this letter code will be done by the curators before entry into the database. For example, the references "Brennan PS, Martin DJ, The D, McIntosh RA., 1983, Torres., J. Aust. Inst. Agric. Sci. 49: 47" and "Syme JR, Martin DJ, Law DP, Rees RG.,1983, King, J. Aust. Inst. Agric. Sci. 49: 47-48" will be distinguished by the unique identifiers "AAS-49-47-A" and "AAS-49-47-B". f) Supplements to a particular volume of a serial publication A supplement to a particular volume of a series will be denoted by a code consisting of three parts: the first part will be the three letter source code for the series, the second part will be the volume number which is being supplemented, and the third part will be the abbreviation "sup", optionally followed by the supplement number if the supplement is one in a number of supplements. Each part is separated by a hyphen. An article within such a supplement will be denoted by appending to the supplement's identifier a hyphen and the beginning page number of the article. For example, the reference "The use of induced mutations in plant breeding; Supplement No. 3 to Radiation Botany, v. 5, pg. 189" will be referenced by "RAB-5-sup3-189". (If there is only one supplement for the volume in question, no number follows "sup"; that is, "sup3" becomes "sup"). **Please note that references falling into the three cases described below receive temporary Reference IDs only. The rules describing the construc- tion of these IDs are included for informational purposes only. g) Journal articles in press (these references will be assigned reference IDs by GrainGenes staff only): Articles not yet published, but in press, will be assigned a two-part ID consisting of the normal source code for the journal in which the article will be published, followed by a hyphen, the term "InPress", and a number describing how many "InPress" references currently exist for that journal, incremented up by one to reflect the newly created reference (if the journal in which the article will be published is not given, the first author name will be used in its place). For example, the reference: 9541. Devos KM, Dubcovsky J, Dvorak J, Chinoy CN & Gale MD 1995 Elucidation of the 4A/5A/7A translocation in wheat through RFLP mapping. Theor Appl Genet (In Press) found in the 1995 Wheat Gene Catalogue supplement would be referenced as "TAG-InPress2", since at the time of its creation, only "TAG-Inpress1" existed. Similarly, the reference: 9431. Maystrenko OI 1993 Establishing allelism in the B1 locus on expression of common wheat awnedness inhibitor. (In press). (In Russian). found in the 1994 Wheat Gene Catalogue supplement would be referenced as "Maystrenko-InPress2", since at the time of its creation, only "Maystrenko-InPress1" existed. h) Books in press (these references will be assigned reference IDs by GrainGenes staff only): References for books not yet published but in press, will be assigned a two-part ID consisting of a three-letter abbreviation for the book (first letter is always 'X'), followed by a hyphen, and the term "InPress". i) Articles from books in press (these references will be assigned reference IDs by GrainGenes staff only): Articles from books not yet published, but in press, will be assigned a three-part ID consisting of the first author name of the article being referenced, followed by a hyphen, a three-letter abbreviation for the book (first letter is always 'X' for a book), a hyphen, the term "InPress", and a number describing how many "InPress" references currently exist for that book, incremented up by one to reflect the newly created reference. For example, the reference: 323. Gulli M, Maestri E, Hartings H, Raho G, Perrotta C, Devos KM, & Marmiroli N Isolation and characterization of abscisic acid inducible genes in barley seedlings and their responsive- ness to environmental stress. Life Science Advances - Plant Physiology (In Press). found in the 1995 Wheat Gene Catalogue supplement would be referenced as "Gulli-XLS-InPress1", since at the time of its creation, no other reference for XLS existed.