multi-crop passport descriptors

Multi-Crop Passport Description – EU Project GrapeGen06

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MULTI-CROP PASSPORT DESCRIPTORS (MCPD) for Grapevine

to be used for the European Project

Index

Document 1. FAO/Bioversity Multi-Crop Passport Descriptors - -General all species

Document 2. Multi-Crop Passport Descriptors - Specific for Grapevine

Document 3. Palic Meeting (APPENDIX II): Passport data and descriptor recording rules to be applied for the European Vitis Database (www.eu-vitis.de)

Document 4. Excel file format, for uploading MCPD data into the European Vitis Database and the exchange of MCPD data among partners, is downloadable from the cited website.


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Document n. 1

FAO/Bioversity MULTI-CROP PASSPORT DESCRIPTORS

December 2001

The list of multi-crop passport descriptors (MCPD) is developed jointly by Bioversity and FAO to provide international standards to facilitate germplasm passport information exchange. These descriptors aim to be compatible with Bioversity crop descriptor lists and with the descriptors used for the FAO World Information and Early Warning System (WIEWS) on plant genetic resources (PGR). For each multi-crop passport descriptor, a brief explanation of content, coding scheme and suggested fieldname (in parentheses) is provided to assist in the computerized exchange of this type of data. It is recognized that networks or groups of users may want to further expand this MCPD List to meet their specific needs. As long as these additions allow for an easy conversion to the format proposed in the multi-crop passport descriptors, basic passport data can be exchanged worldwide in a consistent manner. General comments:

• If a field allows multiple values, these values should be separated by a semicolon (;) without space(s), (i.e. Accession name:Rheinische Vorgebirgstrauben;Emma;Avlon).

• A field for which no value is available should be left empty (i.e. Elevation). If data are exchanged in ASCII format for a field with a missing numeric value, it should be left empty. If data are exchanged in a database format, missing numeric values should be represented by generic NULL values.

• Dates are recorded as YYYYMMDD. If the month and/or day are missing this should be indicated with hyphens. Leading zeros are required (i.e. 197506--, or 1975----).

• Latitude and longitude are recorded in an alphanumeric format. If the minutes or seconds are missing, this should be indicated with hyphens. Leading zeros are required.

• Country names: Three letter ISO codes are used for countries. The ISO 3166-1: Code List and the Country or the Country or area numerical codes added or changed are not available on-line, but can be obtained from Bioversity [[email protected]]

• For institutes the codes from FAO should be used. These codes are available from http://apps3.fao.org/wiews/ for registered WIEWS users. From the Main Menu select: ‘PGR’ and ‘Download’. If new Institute Codes are required, they can be generated online by national WIEWS administrators, or by the FAO WIEWS administrator [[email protected]].

• The preferred language for free text fields is English (i.e. Location of collecting site and Remarks).


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MULTI-CROP PASSPORT DESCRIPTORS

1. Institute code (INSTCODE)

FAO Institute Code of the institute where the accession is maintained.

Example: NLD037

2. Accession number (ACCENUMB)

This number serves as a unique identifier for accessions within a genebank collection, and is assigned when a sample is

entered into the genebank collection.

Example: CGN00254

3. Collecting number (COLLNUMB)

Original number assigned by the collector(s) of the sample, normally composed of the name or initials of the collector(s)

followed by a number. This number is essential for identifying duplicates held in different collections.

Example: FA90-110

4. Collecting institute code (COLLCODE)

Code of the Institute collecting the sample. If the holding institute has collected the material, the collecting institute code

(COLLCODE) should be the same as the holding institute code (INSTCODE).

Example: NLD037

5. Genus (GENUS)

Genus name for taxon, in latin. Initial uppercase letter required.

Example: Allium

6. Species (SPECIES)

Specific epithet portion of the scientific name, in latin, in lowercase letters. Following abbreviation is allowed: ‘sp.’

Example: paniculatum

7. Species authority (SPAUTHOR)

The authority for the species name.

Example: L.

8. Subtaxa (SUBTAXA)

Subtaxa can be used to store any additional taxonomic identifier, in latin. Following abbreviations are allowed: ‘subsp.’ (for

subspecies); ‘convar.’ (for convariety); ‘var.’ (for variety); ‘f.’ (for form).

Example: subsp. fuscum

9. Subtaxa authority (SUBTAUTHOR)

The subtaxa authority at the most detailed taxonomic level.

Example: (Waldst. et Kit.) Arc.

10. Common crop name (CROPNAME)

Name of the crop in colloquial language, preferably English.

Example: malting barley

Example: cauliflower

11. Accession name (ACCENAME)

Either a registered or other formal designation given to the accession. First letter uppercase. Multiple names separated with

semicolon without space.

Example: Rheinische Vorgebirgstrauben;Emma;Avlon

12. Acquisition date (ACQDATE)

Date on which the accession entered the collection as YYYYMMDD. Missing data (MM or DD) should be indicated with

hyphens. Leading zeros are required.

Example: 1968----

Example: 20020620


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13. Country of origin (ORIGCTY)

Code of the country in which the sample was originally collected.

Example: NLD

14. Location of collecting site (COLLSITE)

Location information below the country level that describes where the accession was collected. This might include the distance

in kilometres and direction from the nearest town, village or map grid reference point.

Example: 7 km south of Curitiba in the state of Parana

15. Latitude of collecting site (LATITUDE)

Degree (2 digits) minutes (2 digits), and seconds (2 digits) followed by N (North) or S (South). Every missing digit (minutes or

seconds) should be indicated with a hyphen. Leading zeros are required.

Example: 10----S

Example: 011530N

Example: 4531--S

16. Longitude of collecting site (LONGITUDE)

Degree (3 digits), minutes (2 digits), and seconds (2 digits) followed by E (East) or W (West). Every missing digit (minutes or

seconds) should be indicated with a hyphen. Leading zeros are required.

Example: 0762510W

Example: 076----W

17. Elevation of collecting site (ELEVATION)

Elevation of collecting site expressed in meters above sea level. Negative values are allowed.

Example: 763

18. Collecting date of sample (COLLDATE)

Collecting date of the sample as YYYYMMDD. Missing data (MM or DD) should be indicated with hyphens. Leading zeros are

required.

Example: 1968----

Example: 20020620

19. Breeding institute code (BREDCODE)

FAO Institute Code of the institute that has bred the material.

20. Biological status of accession (SAMPSTAT)

The coding scheme proposed can be used at 3 different levels of detail: either by using the general codes (in boldface) such as 100, 200, 300, 400 or by using the more specific codes such as 110, 120 etc.

100) Wild 110) Natural 120) Semi-natural/wild 200) Weedy 300) Traditional cultivar/landrace 400) Breeding/research material 410) Breeder's line 411) Synthetic population 412) Hybrid 413) Founder stock/base population 414) Inbred line (parent of hybrid cultivar) 415) Segregating population 420) Mutant/genetic stock 500) Advanced/improved cultivar 999) Other (Elaborate in REMARKS field)


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21. Ancestral data (ANCEST)

Information about either pedigree or other description of ancestral information (i.e. parent variety in case of mutant or

selection).

Example: Hanna/7*Atlas//Turk/8*Atlas

Example: mutation found in Hanna

Example: selection from Irene

Example: cross involving amongst others Hanna and Irene

22. Collecting/acquisition source (COLLSRC)

The coding scheme proposed can be used at 2 different levels of detail: either by using the general codes (in boldface) such

as 10, 20, 30, 40 or by using the more specific codes such as 11, 12 etc.

10) Wild habitat 11) Forest/woodland 12) Shrubland 13) Grassland 14) Desert/tundra 15) Aquatic habitat 20) Farm or cultivated habitat 21) Field 22) Orchard 23) Backyard, kitchen or home garden (urban, peri-urban or rural) 24) Fallow land 25) Pasture 26) Farm store 27) Threshing floor 28) Park 30) Market or shop 40) Institute, Experimental station, Research organization, Genebank 50) Seed company 60) Weedy, disturbed or ruderal habitat 61) Roadside 62) Field margin 99) Other (Elaborate in REMARKS field)

23. Donor institute code (DONORCODE)

FAO Institute Code for the donor institute.

24. Donor accession number (DONORNUMB)

Number assigned to an accession by the donor.

Example: NGB1912

25. Other identification (numbers) associated with the accession (OTHERNUMB)

Any other identification (numbers) known to exist in other collections for this accession. Use the following system:

INSTCODE:ACCENUMB;INSTCODE:ACCENUMB;… INSTCODE and ACCENUMB follow the standard described above and

are separated by a colon. Pairs of INSTCODE and ACCENUMB are separated by a semicolon without space. When the

institute is not known, the number should be preceded by a colon.

Example: NLD037:CGN00254

26. Location of safety duplicates (DUPLSITE)

FAO Institute Code of the institute where a safety duplicate of the accession is maintained. The codes consist of the 3-letter ISO 3166 country code of the country where the institute is located plus a number.


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27. Type of germplasm storage (STORAGE)

If germplasm is maintained under different types of storage, multiple choices are allowed (separated by a semicolon). (Refer to

FAO/IPGRI Genebank Standards 1994 for details on storage type.)

10) Seed collection 11) Short term 12) Medium term 13) Long term 20) Field collection 30) In vitro collection (Slow growth) 40) Cryopreserved collection 99) Other (elaborate in REMARKS field)

28. Remarks (REMARKS)

The remarks field is used to add notes or to elaborate on descriptors with value 99 or 999 (=Other). Prefix remarks with the

field name they refer to and a colon. Separate remarks referring to different fields are separated by semicolons without space.

Example: COLLSRC:roadside

29. Decoded collecting institute (COLLDESCR)

Brief name and location of the collecting institute. Only to be used if COLLCODE can not be used since the FAO Institution

Code for this institute is not (yet) available.

Example: Tuinartikelen Jan van Zomeren, Arnhem, The Netherlands

30. Decoded breeding institute (BREDDESCR)

Brief name and location of the breeding institute. Only to be used if BREDCODE can not be used since the FAO Institution


Example: CFFR from Chile

31. Decoded donor institute (DONORDESCR)

Brief name and location of the donor institute. Only to be used if DONORCODE can not be used since the FAO Institution


Example: Nelly Goudwaard, Groningen, The Netherlands

32. Decoded safety duplication location (DUPLDESCR)

Brief name and location of the institute maintaining the safety duplicate. Only to be used if DUPLSITE can not be used since

the FAO Institution Code for this institute is not (yet) available.

Example: Pakhoed Freezers inc., Paramaribo, Surinam

33. Accession URL (ACCEURL)

URL linking to additional data about the accession either in the holding genebank or from another source.

Example: www.cgn.wageningen-ur.nl/pgr/collections/passdeta.asp?accenumb=CGN04848

34. MLS Status (MLSSTAT)

The coded status of an accession with regards to the Multilateral System (MLS) of the International Treaty on Plant Genetic Resources for Food and Agriculture.

Provides the information, whether the accession is included in the MLS.

0- not part of the MLS 1- part of the MLS.

If the MLS status is unknown, the field stays empty

35. AEGIS Status (AEGISSTAT)

The coded status of an accession with regards to the European Genebank Integrated System (AEGIS).

Provides the information, whether the accession is conserved for AEGIS.

0- not part of AEGIS 1- part of AEGIS.

If the AEGIS status is unknown, the field stays empty


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A. Variety Name

Name of the cultivated variety (cultivar), after it has been identified with certainty

Example: Prokupaz

B. Berry color

Color of the berry skin: B (white), N (black), Rs (rose), G (grey) and Rg (red)

Example: Rs

C. Country of origin of the variety

Code of the country in which the variety originated

Example: ARM

D. Year of crossing (BREDYEAR)

Year in which the variety was created as YYYY

Example: 1926


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Document n. 2

Vitis specific remarks on FAO/Bioversity MULTI-CROP PASSPORT DESCRIPTORS

(E. Maul – IRZ Geilweilerhof – 23.04.2007)

NOTES : For additional information see the official paper of FAO/Bioversity above (document 1) (Red marked passport descriptors can be employed if the material to be entered in the grapevine collection refers to collection in-situ or on farm) Remark: - if no information is available leave the field blank


SPECIFIC FOR GRAPEVINE

0 - TRUENESS_TO_TYPE

This descriptor refers to “A. Variety name”. If an accession is truly identified the variety name is indicated. yes, no, not checked, no reference, uncertain

1 - INSTCODE (Institute code) - Maximum field length = 7 characters

FAO Institute Code of the institute where the accession is maintained. Example: GRC051 2 - ACCENUMB (Accession number) – Maximum field length = 25 characters This number serves as a unique identifier for accessions within a genebank collection, and is assigned when a sample is entered into the genebank collection.The accession number should be composed of or preceded by the institute code to avoid its accidental multiple occurrence in different grapevine collections. Example: DEU098-1993-296 3 - COLLNUMB -. Maximum field length = 15 characters

Original number assigned by the collector(s) of the sample, normally composed of the name or initials of the collector(s) followed by a number. This number is essential for identifying duplicates held in different collections.

Example: FA90-110 4 - COLLCODE - Maximum field length = 7 characters

Code of the Institute collecting the sample. If the holding institute has collected the material, the collecting institute code (COLLCODE) should be the same as the holding institute code (INSTCODE).

Example: DEU098 5 - GENUS - Maximum field length = 50 characters Example : Vitis


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6 - SPECIES - Maximum field length = 70 characters

Example : vinifera 7 - SPAUTHOR - Maximum field length = 50 characters Example: Linné 8 - SUBTAXA - Maximum field length = 40 characters Subtaxa can be used to store any additional taxonomic identifier, in latin. Following abbreviations are allowed: ‘subsp.’ (for subspecies); ‘convar.’ (for convariety); ‘var.’ (for variety); ‘f.’ (for form). Example: subsp. sylvestris 9 - SUBTAUTHOR - Maximum field length = 50 characters

10 - CROPNAME (Common crop name – utilization) wine grape, table grape, raisin grape, rootstock, ornamental grape, wild grape If multi-use exists, different uses have to be separated by semicolon without spaces. Example: wine grape;table grape 11 - ACCENAME (Accession name) – Maximum field length = 50 characters

Designation of the accession. Multiple names separated with semicolon without space. Example: Ruländer 12 - ACQDATE (Acquisition date) Date on which the accession entered the collection as YYYYMMDD. Missing data (MM or DD) should be indicated as hyphens. Leading zeros are required.

Example: 1968----

Example: 20020620 13 - ORIGCTY - Maximum field length = 10 characters

Code of the country in which the sample was originally collected.

Example: ARM 14 – COLLSITE - Maximum field length = 70 characters

Location information below the country level that describes where the accession was collected. This might include the distance in kilometres and direction from the nearest town, village or map grid reference point.

Example: 7 km south of Speyer in the state of Württemberg 15 - LATITUDE - Maximum field length = 7 characters

Degree (2 digits) minutes (2 digits), and seconds (2 digits) followed by N (North) or S (South). Every missing digit (minutes or seconds) should be indicated with a hyphen. Leading zeros are required.

Example: 10----S Example: 011530N Example: 4531--S 16 - LONGITUDE - Maximum field length = 8 characters

Degree (3 digits), minutes (2 digits), and seconds (2 digits) followed by E (East) or W (West). Every missing digit (minutes or seconds) should be indicated with a hyphen. Leading zeros are required.

Example: 0762510W Example: 076----W 17 - ELEVATION - Maximum field length = 5 characters

Elevation of collecting site expressed in meters above sea level. Negative values are allowed.

Example: 763


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18 - COLLDATE

Collecting date of the sample as YYYYMMDD. Missing data (MM or DD) should be indicated as hyphens. Leading zeros are required.

Example: 1968----

Example: 20020620 19 - BREDCODE (Breeding institute code) - Maximum field length = 7 characters FAO Institute Code of the institute that has bred the material Example: AUT024 30 - BREDDESCR (Decoded breeding institute) - Maximum field length = 150 characters

Brief name and location of the breeding institute. Only to be used if BREDCODE can not be used since the FAO Institution Code for this institute is not (yet) available Example: Seibel from Aubenas Ardèche France 20 - SAMPSTAT (Biological status of accession) The coding scheme proposed can be used at 3 different levels of detail: either by using the general codes (in boldface) such as 100, 200, 300, 400 or by using the more specific codes such as 110, 120 etc.

100) Wild 110) Natural (Example: Vitis vinifera ssp. sylvestris) 120) Semi-natural/wild 200) Weedy 300) Traditional cultivar/landrace 310) Local cultivar spread all over; international cultivar (Example: Barbera) 320) Major local cultivar; of local importance, but extensively grown (Example: Dolcetto) 330) Minor local cultivar; of local importance, fairly utilized (Example: Arneis) 340) Local neglected cultivar, officially registered, grown in a very limited extend (Example: Nascetta) 350) Local neglected cultivar under evaluation (Example: Montanera) 360) Local neglected cultivar in danger of extinction (Example: Gouais blanc) 400) Breeding/research material 410) Breeder's line 411) Synthetic population 412) Hybrid 413) Founder stock/base population 414) Inbred line (parent of hybrid cultivar) 415) Segregating population 416) Interspecific cross (Example: Castor) 417) Intraspecific cross (Example: Italia) 420) Mutant/genetic stock 500) Advanced/improved cultivar (Example: Pinot noir clone) 999) Other (Elaborate in REMARKS field) 21 - ANCEST (Ancestral data) - Maximum field length = 255 characters Information about either pedigree or other description of ancestral information (i.e. parent variety in case of mutant or selection). Example: Pinot x Heunisch Example: Pinot noir mutation Example: Pinot noir open pollination Example: Pinot noir self pollination


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22 - COLLSRC (Collecting/acquisition source)

The coding scheme proposed can be used at 2 different levels of detail: either by using the general codes (in boldface) such as 10, 20, 30, 40 or by using the more specific codes such as 11, 12 etc.

10) Wild habitat 11) Forest/woodland 12) Shrubland 13) Grassland 14) Desert/tundra 15) Aquatic habitat 20) Farm or cultivated habitat 21) Field 22) Orchard 23) Backyard, kitchen or home garden (urban, peri-urban or rural) 24) Fallow land 25) Pasture 26) Farm store 27) Threshing floor 28) Park 30) Market or shop 40) Institute, Experimental station, Research organization, Genebank (most cases) 50) Seed company 60) Weedy, disturbed or ruderal habitat 61) Roadside 62) Field margin 99) Other (Elaborate in REMARKS field) 23 - DONORCODE (Donor institute code) - Maximum field length = 7 characters FAO Institute Code for the donor institute Example: DEU098 31 - DONORDESCR (Decoded donor institute) - Maximum field length = 150 characters

Brief name and location of the donor institute. Only to be used if DONORCODE can not be used since the FAO Institution Code for this institute is not (yet) available. Example: Radebeul from Germany 24 - DONORNUMB (Donor accession number) - Maximum field length = 25 characters Number assigned to an accession by the donor. Example: DEU098-1995-023

25 - OTHERNUMB (Other identification (numbers) associated with the accession) - Maximum field length = 25 characters

Example: DEU454:GHEIM789 26 - DUPLSITE (Location of safety duplicates) - Maximum field length = 7 characters 27 - STORAGE (Type of germplasm storage) - Maximum field length = 15 characters

If germplasm is maintained under different types of storage, multiple choices are allowed (separated by a semicolon). (Refer to FAO/IPGRI Genebank Standards 1994 for details on storage type.)

10) Seed collection 11) Short term 12) Medium term 13) Long term 20) Field collection (most cases) 30) In vitro collection (Slow growth) 40) Cryopreserved collection 99) Other (elaborate in REMARKS field)


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28 - REMARKS (Remarks) - Maximum field length = 255 characters 29 - COLLDESCR (Decoded collecting institute) - Maximum field length = 150 characters 32 - DUPLDESCR (Decoded safety duplication location) - Maximum field length = 150 characters 33 - ACCEURL (Accession URL) - Maximum field length = 100 characters

34 - MLS Status (MLSSTAT)

The coded status of an accession with regards to the Multilateral System (MLS) of the International Treaty on Plant Genetic Resources for Food and Agriculture.

Provides the information, whether the accession is included in the MLS.

0- not part of the MLS 1- part of the MLS. If the MLS status is unknown, the field stays empty

35 - AEGIS Status (AEGISSTAT)

The coded status of an accession with regards to the European Genebank Integrated System (AEGIS).

Provides the information, whether the accession is conserved for AEGIS.

0- not part of AEGIS 1- part of AEGIS 2- proposed for AEGIS.

If the AEGIS status is unknown, the field stays empty

A. Variety Name – Maximum field length = 255 characters

Name of the variety, after it has been identified with certainty

Example: Prokupaz

B. Berry color

Color of the berry skin: green, green-grey, green-rose, green-red, green-black, grey, grey-rose, rose, red, red-violet, black, black-red, black-grey

Example: green-rose

C. Country of origin of the variety - Maximum field length = 10 characters

Code of the country in which the variety originated

Example: ARM

D. BREDYEAR (Year of crossing)

Year in which the variety was created as YYYY

Example: 1926

E. Variety number - Maximum field length = 6 characters

Number of the variety in the Vitis International Variety Catalogue (www.vivc.de). This number assists the search for identical varieties which might exist under different names (synonyms) in grapevine collections. Example: 12350 F. Confirmation by ampelography- Maximum field length = 255 characters Example: yes;after comparison with morphology of accession Riesling (accenumb DEU098-1980-315) G. Confirmation by SSR-markers - Maximum field length = 255 characters Example: yes


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H. Confirmation by bibliography - Maximum field length = 255 characters

Bibliographical references refer: a) to an ancient book where the description of the variety clearly allows to identify the observed accession with that variety; b) to an actual reference description of the variety (more recently published) in the case the examined variety was not found in an ancient publication

Example (a): yes;BABO, L. VON, 1844: Der Weinstock und seine Varietäten, Brönner, Frankfurt or Example (b): yes;Varieties and Varietal Wines from the Merbein Grape Germplasm Collection.

IV. Varieties Producing Delicate White Wines. Australian Grapegrower Winemaker, (283) 17-23, 1987

I. Bibliography (volume) - Maximum field length = 6 characters Example: 4 K. Bibliography (page) - Maximum field length = 6 characters

Example: 234 L. Confirmation by others - Maximum field length = 255 characters Example: ampelographer M. Remarks to the accession name misnomer, synonym, homonym, dialectic term, alternative spelling, cannot be defined, true name N. Questionable variety In case of WP5 accessions which could not be identified or other not identified accessions quote "yes". If accessions have been identified by marker data comparison between European Vitis Database partners and by ampelographic verification quote as “identified”.


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Document n. 3

Palic Meeting – Discussion and Recommendations

APPENDIX II

Passport data and descriptor recording rules for the compilation of the European Vitis Database General remark: any field without information should be left blank. The provided format file should be strictly adhered to.

1. Passport data a. The adopted model is the complete list of the “FAO/IPGRI Multi Crop passport

data”, extended with the EURISCO descriptors (see Appendix I), consisting of 33 descriptors.

b. Within those 33 descriptors, the following should be given priority: Species, Accession number, Accession name, Institute code, Donor institute code, Common crop name (i.e. Table grape, Wine grape, Raisin grape, etc.), Ancestral data and Acquisition date.

c. Four additional passport descriptors for Vitis are: i) berry color with the recommended notations: B (white), N (black), Rs (rose), G (grey) and Rg (red) ii) The variety name, after identification iii) country of origin ot the variety: code of the country in which the variety originated and iv) year of crossing: year in which the variety was created. (The last two descriptors have been added after the Palic meeting.)

2. Primary descriptors (ampelographic)

a. Notations consist of numbers from 1 to 9 b. More than one notation can be adopted for one single descriptor if:

i. Two or more expression levels occur during the observation (phenotype variability)

ii. The appropriate notation is between the two closest expressions levels. In the previous cases, use the two or more notations separated by | without spaces (examples: 5|7 or 3|7|9) c. For qualitative descriptors the expression levels can occasionally be

discontinuous (examples: 1|5|7 or 1|2|4)

3. Primary descriptors (ampelometric): a. Do not use expression levels (1, 3, 5, 7, 9) but measured parameters b. One single notation is recommended (average) c. Values in mm for lengths and in degrees for angles (no decimals)


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4. Secondary descriptors

a. Give proper attention to measurement units and decimals indicated in descriptor definitions

5. Molecular markers

a. Data must be coded following the rules specified in the descriptor definitions (example: N+14)

b. The first data recorded has to be the smaller allele. In case of homozygosis, use the same value for the second recorded data. In case a third allele occurs, record a third data.

c. Rough data (non codified) can be given referring to the 2 or 3 alleles. d. Publication references can be provided.

multi-crop passport descriptors

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