Pollinator Data Digitizer
Contents
1. 3 General Interface Overview There are several common elements that appear throughout the interface of the Pollinator Data Digitizer online interface The following paragraphs describe each of these elements their function and how to use them e Home icon f home Click on the Home icon to return to the Home page of the Pollinator Data Digitizer N e IABIN PTN icon iabin ptn Click on the IABIN PTN icon to go to the Home page of the IABIN Pollinators Thematic Network Web site e User Guide icon user guide Click on the User Guide icon to view instructions in a pop up window e Required field Required fields are indicated by the label Required that appears to the right of the field If you click on the Insert button before you have filled all of the required fields a warning message will display IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 6 e g e Ins Attention you must fill the fields Scientific name ert button net Click on the Insert button to add or save the information selected filled in the form e Other checkbox Other Other checkboxes are associated with some of the fields in the user interface of this tool They allow the user to add new options to drop lists The Other checkbox is displayed when the Null checkbox is not selected Click in the Other checkbox to display a text field in which the user can type2. labin Inter American Biodiversity Information Network Pollinators Thematic Network PTN The Pollinator Information Network of the Americas Pollinator Data Digitizer User Manual and Training Guide Editors Antonio Saraiva Etienne A Cartolano Jr Elizabeth Sellers Pedro Correa Cassandra Harrison Laurie Davies Adams Date July 2009 sa on Laboratory of Agricultural Automation Polytechnic School University of Sao Paulo lt http www laa pcs poli usp br gt National Biological Information Infrastructure NBII lt http www nbii gov gt http www pollinator or TABLE OF CONTENTS 1 INTRODUCTION rede 4 2 HOME PAGE oson ra E E E E E 4 2 1 OVERVIEW oee E E E 4 3 General interface Overviem uurm4vdaertrarekske seksere 6 4 Save Preserved or Observed Specimen Data scscsssscscscsccccscsccccccscsccceccccscsceseccecnces 7 4 1 NE 7 4 1 1 Specimens Record level elements rrrrrrrnrnnrrrnnnnnrrnnnnnrrvnrnnnrrnnnnnernnnnnsernnnnvssennnn 7 4 1 2 SPECIMENS Taxonomic elements ccccccsssccccesececeeseceeeeeseceeeeececseeceeseneeeeeas 10 4 1 3 Specimens Identification qualifier element rrrrnrrrnnnnnrrnnnnnnrnnnnnnrrnnnnnernnnnneeene 11 4 1 4 Specimens Locality elements cccescccccsssecccesececeesecceeesecesseeceseeneceeeeeeeeeees 12 4 1 5 Specimens Collecting ClOMENtS scsccscssssessossrectenssscnessssensoussectenssscneaus
3. Lestrimelitta limao Lestrimelitta limao BEELAB IBUSP CEPANN 141 gt gt Lestrimelitta limao Lestrimelitta limao BEELAB IBUSP CEFANN 142 gt gt Lestrimelitta limao Lestrimelitta limao BEELAB IBUSP CEPANN 143 gt Lestrimelitta limao Lestrimelitta limao BEELAB IBUSP CEPANN 648 gt gt Scaptotrigona sp Scaptotrigona sp BEELAB IBUSP CEPSNN 649 gt gt Scaptotrigona sp Scaptotrigona Sp BEELAB IBUSP CEPANN 650 gt gt Scaptotrigona sp Scaptotrigona sp BEELAB IBUSP CEPANN 651 gt Scaptotrigona sp Scaptotrigona Sp BEELAB IBUSP CEPANN 652 gt gt Scaptotrigona sp Scaptotrigona sp BEELAB IBUSP CEPSNN 653 gt gt Scaptotrigona sp Scaptotrigona Sp Figure 14 View Saved Records IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 26 6 1 1 View Preserved Specimens Selecting the View Preserved Specimens option from the horizontal navigation bar on the View Saved Records page will display a listing of Preserved Specimen records Click on the icon that is next to each record to display an expanded list of the elements within that record Figure 15 Click on the name of an element group to expand or collapse a detailed view of it Delete Warning Click only if you are sure you wish to delete this record Global unique identifier Scientific name BEELAB BUSF CEFANN 140 gt Lestrimelitta limao Lestrimelitta limao gt Record level elements global unique ide
4. Null Figure 6 Save Preserved or Observed Specimen Data Collecting elements table Collecting method field To define the name of reference to or brief description of the method or protocol under which the collecting event occurred in this field choose an option from the drop list that displays that displays after clicking in the Null checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 13 Valid distribution flag field To define a flag true or false that indicates whether the locality information represents a valid distribution occurrence for a specimen in this field choose an option from the drop list that displays after clicking in the Null checkbox Specimens taken from captivity and showing the captive location should use the value false Earliest date collected field To define the earliest date time common era calendar in a date time period during which an organism or group of organisms was collected or observed in this field type the date into the text field that displays after clicking in the Null checkbox If the event is recorded as occurring at a single date time populate both earliestdatecollected and latestdatecollected with the same value see Item 4 below Note The earliest date collected should be entered in the format yyyy mm dd hh mm ss Latest date collected field To define the latest date time common era calendar in a date t
5. a null value by default Locality element fields To define a full unabbreviated name of a continent water body island group island country state or province county or locality in or over which the organism was collected or observed to these fields choose an option from the drop list that displays after clicking in the Null checkbox Note To add a new option to any Locality element drop list type the name of the option into the text field that displays after clicking in the Other checkbox Note To return to the drop list of any Locality element field click on the Other checkbox to deselect it To return any Locality element field to the default null value click in or select the Null checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 12 Minimum elevation in meters field To add the minimum or actual elevation at which the collection or observation was made to this field type the elevation value into the field that displays after clicking in the Null checkbox Use negative values for locations below sea level Maximum elevation in meters field To add the maximum or actual elevation at which the collection or observation was made type the elevation value into the field that displays after clicking in the Null checkbox Use negative values for locations below sea level Minimum depth in meters field To add the minimum or actual depth at which the collect
6. collection records 5 Save Interaction Data 5 1 OVERVIEW The Save Interaction Data pages Figure 11 can be accessed by clicking on the Save Interaction Data link on the Home page of the Pollinator Data Digitizer application The Save Interaction Data page allows users to create records of interactions between specimens These interactions can be recorded as occurring between two organisms that are each represented by a preserved specimen record Preserved specimens interaction between one organism represented by a preserved specimen record and another organism represented by an observed specimen record Preserved and observed specimens interaction and between two organisms that are each represented by observed specimen records Observed specimens interaction There is a different version of the Save Interaction Data page for each of the interaction types described here Each version can be accessed by selecting one of the three navigation options listed horizontally on the Save Interaction Data page Note Before attempting to create records of interactions between specimens preserved or observed the individual records of each of the two specimens involved in the interaction must have been created Preserved specimens interaction Preserved and observed specimens interaction Observed specimens interaction Figure 10 Save Interaction Data Navigation Options The following paragraphs describe each of the pages for creating
7. gt BEELAB IBUSP CEPANN P 83 Byrsonima intermedia gt gt BEELAB IBUSP CEPANN P 84 Figure 13 Save Observed Specimens Interaction Data User Manual and Training Guide 25 6 View Saved Records 6 1 OVERVIEW The View Saved Records page Figure 14 allows users to view three different types of data preserved specimen observed specimen and interaction data Each view can be accessed by selecting one of the three navigation options in the horizontal navigation bar on the page Figure 14 The View Saved Records page can be accessed by clicking on the View Saved Records link on the Home page of the Pollinator Data Digitizer application Users can choose to display only 100 1000 5000 or All records by selecting an option from the Number of records drop list Figure 14 And the Order by drop list allows users to order the list of records by global unique identifier or scientific name Figure 14 PTN Pollinators Thematic Network fi home og iabin ptn m user guide Ei pt br E es IABIN PTN Pollinator Data Digitizer This is the ABIN PTN tool for data entry of preserved and observed specimens data and for plant pollinator interaction data based on the Darwin Core schema and its Interaction Extension Number of records 110 Order by Global unique identifier View preserved specimens View observed specimens View interaction data Global unique identifier Scientific name BEELAB IBUSP CEPANN 140 gt
8. interaction records and the elements they contain their function and how to use them IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 19 5 1 1 Preserved Specimens Interactions Save interaction data The Save interaction data page Figure 11 allows users to register information about an interaction between two organisms that are each represented by a specimen record It can be accessed by clicking on the Save interaction data link on the Home page of the Pollinator Data Digitizer application To create an interaction record define the first organism by choosing the corresponding Global Unique Identifier from the Preserved specimens list then define the related organism by choosing the corresponding Global Unique Identifier from the Preserved specimens list and choose an option from the Interaction type list that describes the type of interaction that occurs between these two organisms Add any related information about the interaction in the Related information text field and save the interaction record by clicking on the Insert button Note Before attempting to create records of interactions between preserved specimens the individual records of each of the two specimens involved in the interaction must have been created They will then appear on the specimen list Note The Related information text field in the Interaction table is set to Null by default To add te
9. select the Null checkbox Specific epithet To define a specific epithet of the scientific name applied to the organism in this field choose an option from the drop list that displays after clicking in the Null checkbox Infraspecific rank To define an infraspecific rank subspecies variety forma of the infraspecific epithet of the organism in this field choose an option from the drop list that displays after clicking in the Null checkbox Infraspecific epithet To define an infraspecific epithet of the scientific name applied to the organism to this field choose an option from the drop list that displays after clicking in the Null checkbox Author year scient name To define an author and year of publication in this field choose an option from the drop list that displays after clicking in the Null checkbox More than one author can be listed in a concatenated string e g Smith 1985 Jones 1992 The text in this field should be formatted with parentheses and year according to the conventions of the applicable nomenclatural code Nomenclatural code The Nomenclatural code field is set to a null value by default To add a nomenclatural code to this field choose an option from the drop list that displays after clicking in the Null checkbox 4 1 3 Specimens Identification qualifier element The Identification qualifier element allows users to register a standard term that qualifies the identification of the organism when doubts have ar
10. specimens Institution code drop list Choose an institution code from the drop list The institution code is a code or acronym identifying the institution administering the collection in which the organism record is cataloged No global registry currently exists for institutional codes use the code that is standard at your institution or in your discipline Collection code Choose a collection code from the drop list The collection code is a code or acronym identifying the collection within the institution in which the organism record is cataloged Catalog number field Type the catalog number of the organism record into the text field The catalog number is an alphanumeric value identifying a record within the collection It is highly recommended that each record be uniquely identified within a collection by this value It is also recommended that each record be uniquely identified in a global context by the combination of institutioncode collectioncode and catalognumber Information withheld field To add information to this field type the information into the text field that displays after clicking in the Null checkbox The field may contain brief descriptions of IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 9 additional information that may exist but that has not been made public Information about obtaining the withheld information should be sought from the ad
11. 2 43254 Verbatim Coordinate System field The name of the system in which the verbatim geographic coordinates were recorded Examples decimal degrees degrees minutes seconds degrees decimal minutes UTM Georeference Protocol field A reference to the methods used for determining the coordinates and uncertainties Example http manisnet org GeorefGuide html Georeference Sources field A list of maps gazetteers or other resources used to georeference the locality The content of this concept is meant to be specific enough to allow anyone in the future to use the same resource to georeference the same locality Examples USGS 1 24000 Florence Montana Quad Terrametrics 2008 on Google Earth Georeference Verification Status field A categorical description of the extent to which the georeference has been verified to represent the location where the specimen or observation was collected This element should be vocabulary controlled Examples requires verification verified by collector verified by curator Georeference Remarks field Comments about the spatial description determination explaining assumptions made in addition or opposition to those formalized in the method referred to in GeoreferenceProtocol Footprint WKT field A Well Known Text WKT see lt http en wikipedia org wiki Well known text gt representation of the shape footprint geometry that defines the location of the occurrence The same plac
12. EELAB IBUSP CEPANN P 74 s F 3 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 75 Global unique identifier Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 76 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 81 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 82 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEFANN P 83 Byrsonima intermedia gt gt BEELAB IBUSP CEPANN P 84 Figure 12 Save Preserved Specimen and Observed Specimens Interaction Data IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 23 5 1 3 Save Observed Specimens Interactions The Save Observed Specimens Interaction data page Figure 13 allows users to register information about an interaction between two organisms that are both represented by an observation record The Save Observed Specimens Interaction data page can be accessed by clicking on the Save Interaction Data link on the Home page of the Pollinator Data Digitizer application and then choosing the Save Observed Specimens Interaction data option from the horizontal navigation bar To create an observed specimens interaction record define the Observed specimens by choosing the Global Unique Identifier of the specimens from the Observed specimens list then define the related specimens by choosing the Global Unique Identifier of the specimens from the Observed specimens list and choose an
13. as possible including name author year of authorship sensu or sec according to or following author and indication of uncertainty A scientific name is conceptually equivalent to a full taxonomic identification as given by the identifier verbatim It does not include the identifier name or date of identification Note To add a new scientific name to the Scientific name list type the new scientific name into the text field that displays after clicking in the Other checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 10 Taxonomic fields To define the name of the taxonomic group in which the organism is classified choose an option from the drop list that displays after clicking in the Null checkbox To add a new taxonomic group name to a drop list type the name of the Kingdom Phylum Class Order Family or Genus into the text field that displays after clicking in the Other checkbox To return to the drop list for each of these fields deselect the Other checkbox To return these fields to a null value click in the Null checkbox Note To add a new option to any Taxonomic element drop list type the name of the option into the text field that displays after clicking in the Other Note To return to the drop list of any Taxonomic element field click on the Other checkbox to deselect it To return any Taxonomic element field to the default null value click in or
14. cessed by clicking on the Save Interaction Data link on the Home page of the Pollinator Data Digitizer application and then choosing the Preserved and Observed Specimens Interaction option from the horizontal navigation bar To create a preserved and observed specimens interaction record define the Preserved specimen by choosing the corresponding Global Unique Identifier from the Preserved specimens list then define the related specimens by choosing the Global Unique Identifier of the specimens from the Observed specimens list and choose an option from the Interaction type list that describes the type of interaction that occurs between these two organisms Add any related information about the interaction in the Related information text field and save the interaction record by clicking on the Insert button Note The Related information text field in the Interaction table is set to Null by default To add text to this field type in the text field that displays after clicking in the Null checkbox This is Required for interactions involving specimen data derived from bibliographic sources rather than from collection records IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 22 PTN Pollinators Thematic Network E home og iabin ptn m user guide E pt br Elles IABIN PTN Pollinator Data Digitizer This is the IABIN FTN tool for data entry of preserved and observed specime
15. e 1 Pollinator Data Digitizer HOME Page rrrrrnnnnnrrnnnnnnrrnnnnnnrnnnnnnrnnnnnnrvnnnnnevnnnnnevnnnnnnsnnnnnene 5 Figure 2 Save Preserved or Observed Specimen Data Record level elements table 9 Figure 3 Save Preserved or Observed Specimen Data Taxonomic elements table 10 Figure 4 Save Preserved or Observed Specimen Data Identification qualifier 066 12 Figure 5 Save Preserved or Observed Specimen Data Locality elements table 0 12 Figure 6 Save Preserved or Observed Specimen Data Collecting elements table 13 Figure 7 Save Preserved or Observed Specimen Data Biological elements table 15 Figure 8 Save Preserved or Observed Specimen Data Geospatial elements table 16 Figure 9 Save Observation or Species Data Specimens References elements table 18 Figure 10 Save Interaction Data Navigation Options cccsccsseccssccseccseceeececeeeeeeeceeeseees 19 Figure 11 Save Preserved Specimens Interaction Data ccccscccsssecccsseccessecceeceeeeceseneeeeeness 21 Figure 12 Save Preserved Specimen and Observed Specimens Interaction Data 0866 23 Figure 13 Save Observed Specimens Interaction Data ccccccsssssececceeseeceeeeeeseeeeseeeneeeeeseas 25 Figure 14 View Saved Records cicsacdiieisieccncwesencasnsaessaecesaieubsevessanabasmuendersniesse
16. e may have both a point radius representation see i bin view DarwinCore DecimalLatitude gt and a footprint IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 17 representation and they may differ from each other for the same occurrence Example the one degree bounding box with opposite corners at longitude 10 latitude 20 and longitude 11 latitude 21 would be expressed in well known text as POLYGON 10 20 11 20 11 21 10 21 10 20 Footprint Spatial Fit field A measure of how well the geometry expressed in the footprint match the original spatial representation as a ratio of the area of the footprint given to the area of the original spatial representation Legal values are 0 greater than or equal to 1 or undefined A value of 1 is an exact match or 100 overlap A value of 0 should be used if the given georeference does not completely contain the original representation The FootprintSpatialFit is undefined if the original representation is a point without uncertainty and the given georeference is not that same point without uncertainty If both the original and the given georeference are the same point the FootprintSpatialFit is 1 Detailed explanations with graphical examples can be found in the Guide to Best Practices for Georeferencing lt http www gbif org prog digit Georeferencing gt Chapman and Wieczorek eds 2006 4 1 8 Specimens References el
17. ements The References elements table on the Save Observations or Species Data page allows users to register reference or source information associated with an organism observation or specimen For the definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each taxonomic element Note All elements in the References elements table are set to a null value by default Note To add a new option to any References elements drop list type the new option into the text field that displays after clicking in the Other checkbox Note To return to the drop list of any References elements field click on the Other checkbox to deselect it To return any References elements field to the default null value click in or select the Null checkbox References elements Image url Null Figure 9 Save Observation or Species Data Specimens References elements table Reference elements To define an image URL such as for a photograph of a specimen or related information into each of these fields type the URL or related information into the text field that displays after clicking in the Null checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 18 Note This field is Required for specimen data preserved or observed specimens derived from bibliographic sources rather than from
18. er Manual and Training Guide 27 Tapir provider Preserved or Observed Specimen Interaction 6 2 OVERVIEW The Pollinator Data Digitizer provides the capability for generating a TAPIR provider for serving specimen records and interaction records to data portals such as the IABIN PTN Data Portal and the Global Biodiversity Information Facility Metadata associated with each of these TAPIR provider services can be viewed by clicking on the Tapir provider Preserved or Observed Specimen or Tapir provider Interaction links on the Home page of the of the Pollinator Data Digitizer application Users can also view the capabilities of each provider including detailed views of Mapped schemas by clicking on the See TAPIR capabilities link at the bottom of the metadata page for each service IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 28
19. f InfectedBy NectarExtractedBy NestedInf ParasiteOf PathogenOf PollinatedBy Pollinates PreyedUpon PreyedUponBy ResinExtractedBy Seed WasDispersedBy UsedAsNestBy VisitedFlowerOf Interaction type Vinul Required in case of interaction involving species data from bibliography Preserved specimen Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 140 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 141 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 142 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 143 Global unique identifier Paratrigona subnuda Paratrigona subnuda Paratrigona subnuda Paratrigona subnuda Paratrigona subnuda Faratrigona subnuda gt gt BEELAB IBUSP CEPANN 713 gt gt BEELAB IBUSP CEPANN 714 gt gt BEELAB IBUSP CEPANN 715 gt gt BEELAB IBUSP CEPANN 716 gt gt BEELAB IBUSP CEPANN 717 gt gt BEELAB IBUSP CEPANN 718 Figure 11 Save Preserved Specimens Interaction Data IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 21 5 1 2 Save Preserved and Observed Specimens Interaction The Save Preserved and Observed Specimens Interaction page Figure 12 allows users to register information about an interaction between an organism that is represented by a preserved specimen record and an organism that is represented by an observed specimen record The Save Preserved and Observed Specimens Interaction data page can be ac
20. fined by the coordinates and uncertainty match the original spatial representation as a ratio of the area of the circle to the IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 16 area of the original spatial representation Legal values are 0 greater than or equal to 1 or undefined A value of 1 is an exact match or 100 overlap A value of 0 should be used if the given georeference does not completely contain the original representation The PointRadiusSpatialFit is undefined if the original representation is a point without uncertainty and the given georeference is not that same point without uncertainty If both the original and the given georeference are the same point the PointRadiusSpatialFit is 1 Detailed explanations with graphical examples can be found in the Guide to Best Practices for Georeferencing lt http www gbif org prog digit Georeferencing gt Chapman and Wieczorek eds 2006 Verbatim Coordinates field A text representation of the coordinate data Latitude Longitude UTM TRS etc from its original source if it cannot be separated into its component parts Example 470999 1234300 Verbatim Latitude field A text representation of the Latitude part of the coordinate data from its original source Example 47d09 99 N Verbatim Longitude field A text representation of the Longitude part of the coordinate data from its original source Example 12
21. he definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each taxonomic element Note All elements in the Geospatial elements table are set to a null value by default Note To add a new option to any Geospatial elements drop list type the new option into the text field that displays after clickingin the Other checkbox Note To return to the drop list of any Geospatial elements field click on the Other checkbox to deselect it To return any Geospatial elements field to the default null value click in or select the Null checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 15 Geospatial elements Decimal latitude W mun Decimal longitude E Nun Geodetic datum Null Coordinate uncertainty nut Point radius spatial fit W mun Verbatim coordinates Null Verbatim latitude Nun Verbatim longitude E mun Verbatim coordinate system Null Georeference protocol IM Null Georeference sources Mf Null Verification status W mun Geospatial remarks mun Footprintwkt Null Footprintspatialfit mun Figure 8 Save Preserved or Observed Specimen Data Geospatial elements table Geospatial elements To define the latitude and longitude at which the observation or specimen was collected the coordinate uncertainty and any additio
22. ilMetsecsmeecvencneceaessees 26 Figure 15 View Observation Data Expanded record View rrrarrrnnrnnrrrnrnnrrrnrnnnernnnnnerrnrnneseennnn 27 IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 3 1 INTRODUCTION This manual includes instructions for pollinator specimen collection and observation data managers that wish to digitize pollinator and plant pollination interaction records using the online Pollinator Data Digitizer The Pollinator Data Digitizer is an online tool for digitizing pollinator soecimen and observation records and plant pollinator interaction records Digital records created using this tool are standardized according to the DarwinCore schema DwC and the Interaction Extension These digital records of Pollinator observations and specimens can be served to the IABIN PTN Data Portal lt http pollinators iabin net portal gt and through it to the Global Biodiversity Information Facility GBIF lt http www gbif org gt The first version of the Interaction Extension to the DwC schema was jointly developed by the Agricultural Automation Laboratory at the Universidade de S o Paulo with support from IABIN and FAPESP The State of Sao Paulo Research Foundation and by the Reference Center on Environmental Information CRIA with support from FAO The United Nations Food and Agriculture Organization The Pollinator Data Digitizer is one of
23. ime period during which an organism or group of organisms was collected or observed in this field type the date into the field that displays after clicking in the Null checkbox If the event is recorded as occurring at a single date time populate both earliestdatecollected and latestdatecollected with the same value Note The latest date collected should be entered in the format yyyy mm dd hh mm ss Day of year field To define the ordinal day of the year on which the object or observation was collected in this field choose an option from the drop list that displays after clicking in the Null checkbox If the earliestdatecollected and latestdatecollected do not occur on the same day do not include information in this field Collector field To define the name of the collector of the observation or specimen choose an option from the drop list that displays after clicking in the Null checkbox 4 1 6 Specimens Biological elements The Biological elements table on the Save Preserved or Observed Specimen Data page allows users to register biological information about an organism that was observed or about a specimen For the definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each taxonomic element Note All elements in the Biological elements table are set to a null value by default Note To add a new option to any Biological element drop
24. ion or observation was made type the depth value into the field that displays after clicking in the Null checkbox Use positive values for locations below the surface Maximum depth in meters field To add the maximum or actual depth at which the collection or observation was made type the depth value into the field that displays after clicking in the Null checkbox Use positive values for locations below the surface 4 1 5 Specimens Collecting elements The Collecting elements table on the Save Preserved or Observed Specimen Data page allows users to register information about how the specimen or observation was collected For the definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each taxonomic element Note All elements in the Collecting elements table are set to a null value by default Note To add a new option to any Collecting element drop list type the new option into the text field that displays after clicking in the Other checkbox Note To return to the drop list of any Collecting element field click on the Other checkbox to deselect it To return any Collecting element field to the default null value click in or select the Null checkbox Collecting elements Collecting method G W Nun Valid distribution flag F nun Earliest date collected 7 nun Latest date collected nul Day of year Y Null Collector
25. isen as to its identity Darwin core 2 elements definitions v1 4 Example e Subspecies is in question IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 11 To add an Identification qualifier in this field type it into the text field that displays after clicking in the Null checkbox Click on the Insert button to add or save the Identification qualifier information Identification qualifier Identification qualifier nun Figure 4 Save Preserved or Observed Specimen Data Identification qualifier 4 1 4 Specimens Locality elements This Locality elements table on the Save Preserved or Observed Specimen Data page allows users to register geographic or locality information specific to or at the individual record level For the definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each element Locality elements Continent I Null Water body VI Null Island group V Null Island Y Null Country Null State or province Y Null County Y Null Locality Null Minimum elevation in meters Null Maximum elevation in meters Y Null Minimum depth in meters Y Null Maximum depth in meters l E Null Figure 5 Save Preserved or Observed Specimen Data Locality elements table Note All elements in the Locality elements table are set to
26. izer lt http pollinators iabin net digitizer gt User Manual and Training Guide 7 Note To add a new option to the Institution code or Collection code drop lists type the name of the new option into the text field that displays after clicking in the Other checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 8 PTN Pollinators Thematic Network GR home og iabin ptn ial user guide EJ pt br EC es IABIN PTN Pollinator Data Digitizer This is the IABIN PTN tool for data entry of preserved and observed specimens data and for plant pollinator interaction data based on the Darwin Core schema and its Interaction Extension Preserved or observed specimen Record level elements ae EERE T a p biz A 5 P EER orse Rei i Ulother Required Catalog number Required Information with held Null Remarks l E nul Figure 2 Save Preserved or Observed Specimen Data Record level elements table Basis of record drop list Choose an option from the drop list that defines the basis of the record you are digitizing This is a descriptive term that indicates whether the record represents an object or an observation The options currently available are PreservedSpecimen which should be used for collected specimens and HumanObservation which should be used for observations or observed
27. list type the new option into the text field that displays after clicking in the Other checkbox Note To return to the drop list of any Biological element field click on the Other checkbox to deselect it To return any Biological element field to the default null value click in or select the Null checkbox IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 14 Biological elements Sex FI nul Life stage E Null Attributes l W Null Figure 7 Save Preserved or Observed Specimen Data Biological elements table Sex field To define the sex of a biological individual represented by the cataloged object or observation in this field choose an option from the drop list that displays after clicking in the Null checkbox Life stage field To define the age class reproductive stage or life stage of the biological individual in this field choose an option from the drop list that displays after clicking in the Null checkbox Attributes field Type a list of additional measurements or characteristics concatenated and separated for which there is no existing semantic element but which the data provider nevertheless feels the desire to share in this text field 4 1 7 Specimens Geospatial elements The Geospatial elements table on the Save Observations or Species Data page allows users to register geospatial information about an organism observation or specimen For t
28. ministrative contact identified in the TAPIR provider resource metadata curator collection manager Remarks field To add information to this field type the information into the text field that displays after clicking in the Null checkbox 4 1 2 Specimens Taxonomic elements The Taxonomic elements table on the Save Preserved or Observed Specimen Data page allows users to register taxonomic information specific to or at the individual record level For the definitions of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each element Note Refer to the Integrated Taxonomic Information System ITIS lt http www itis gov gt for correct spelling of taxonomic terms A World Bee Checklist is also available at ITIS Taxonomic elements Scientific name G egress ener other Required Kingdom G Mull Phylum Mull Class Mull Order Mull Family Mull Genus G Mull Specific epithet Mull Infraspecific rank Mull Infraspecific epithet Mull Author year scient name Mull Nomenclatural code Mull Figure 3 Save Preserved or Observed Specimen Data Taxonomic elements table Scientific name list Choose a scientific name that describes the species in the record you are digitizing This is the full name of the lowest level taxon to which the organism has been identified in the most recent accepted determination specified as precisely
29. nal geospatial remarks in the corresponding fields type the values in the formats outlined below into the text field that displays after clicking in the Null checkbox Decimal Latitude field format The latitude of the geographic center of a location where the event occurred organism collected observation made expressed in decimal degrees Positive values are North of the Equator negative values are South of the Equator e g 41 0983423 Decimal Longitude field format The longitude of the geographic center of a location where an event occurred organism collected observation made expressed in decimal degrees Positive values are East of the Greenwich Meridian negative values are West of the Greenwich Meridian e g 71 0943235 Geodetic Datum field The geodetic datum to which the latitude and longitude refer If not known use not recorded Example WGS84 Coordinate uncertainty in meters field The upper limit of the distance in meters from the given DecimalLatitude and DecimalLongitude describing a circle within which the whole of the described locality lies Leave the value empty if the uncertainty is unknown cannot be estimated or is not applicable because there are no coordinates Describes the point radius representation of the location along with DecimalLatitude DecimalLongitude and GeodeticDatum Zero is not a valid value for this element E g 0 5 Point radius spatial fit field A measure of how well the circle de
30. ns data and for plant pollinator interaction data based on the Darwin Core schema and its Interaction Extension Preserved specimens interaction Preserved and observed specimens interaction Observed specimens interaction Preserved specimen Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 140 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 141 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 142 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 143 i Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 713 Global unique identifier Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 714 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 715 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 716 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 717 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 718 Interaction Interaction DispersedSeedOf ExtractedNectarFrom ExtractedResinFrom FlowerVisitedBy HostOf InfectedBy NectarExtractedBy NestedInf ParasiteOf PathogenOf PollinatedBy Pollinates PreyedUpon PreyedUponBy ResinExtractedBy SeedWasDispersedBy UsedAsNestBy VisitedFlowerOf Interaction type IV Null Required in case of interaction involving species data from bibliography Observed specimen Acacia polyphylla gt gt BEELAB IBUSP CEPANN P 67 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 72 Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 73 Archontophoenix cunninghamiana gt gt B
31. ntifier BEELAB IBUSP CEPANN 140 date last modified 2009 06 22 22 24 06 basis of record Preservedspecimem institution BEELAB IBUSP collection CEPANN catalog number 140 reference KNOLL F R N BEGO LR amp IMPERATRIZ FONSECA V L 2004 Abelhas da Jur ia In Esta o remarks Ecol gica Jur ia Itatins Ambiente fisico flora e fauna MARQUES O amp DULEBA W Eds Ribeir o Freto oP Holos p 222 279 gt Taxonomic elements gt Locality elements gt Geospatial elements Delete Figure 15 View Observation Data Expanded record view 6 1 2 View Observed Specimens Selecting the View Observed Specimens option from the horizontal navigation bar on the View Saved Records page will display a listing of Observed Specimen records Click on the icon that is next to each record to display an expanded list of the elements within the record Figure 15 Click on the name of an element group to expand or collapse a detailed view of it 6 1 3 View Interaction Data Selecting the View Interaction data option from the horizontal navigation bar on the View Saved Records page will display a listing of related Interaction records Click on the amp icon that is next to each record to display an expanded list of the elements within that record Figure 15 Click on the name of an element group to expand or collapse a detailed view of it IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt Us
32. oenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 72 cunninghamiana gt gt BEELAB IBUSP CEPANN P 73 cunninghamiana gt gt BEELAB IBUSP CEPANN P 74 cunninghamiana gt gt BEELAB IBUSP CEPANN P 75 cunninghamiana gt gt BEELAB IBUSP CEPANN P 76 cunninghamiana gt gt BEELAB IBUSP CEPANN P 81 cunninghamiana gt gt BEELAB IBUSP CEPANN P 82 cunninghamiana gt BEELAB IBUSP CEPANN P 83 Byrsonima intermedia gt gt BEELAB IBUSP CEPANN P 84 DispersedSeedOf ExtractedNectarFrom ExtractedResinFrom FlowerVisitedBy HostOf InfectedBy NectarExtractedBy NestedInf FarasiteOCf PathogenOf PollinatedBy Pollinates PreyedUpon PreyedUponBy ResinExtractedBy SeedWasDispersedBy UisedAsNestBy WisitedFlowerOf E Null Required in case of interaction involving re ette 5 data fre m biblic See y Acacia polyphylla gt gt BEELAB IBUSP CEPANN P 67 Archontophoenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix Archontophoenix cunninghamiana gt gt BEELAB IBUSP CEPANN P 72 cunninghamiana gt gt BEELAB IBUSP CEPANN P 73 cunninghamiana gt gt BEELAB IBUSP CEPANN P 74 cunninghamiana gt gt BEELAB IBUSP CEPANN P 75 cunninghamiana gt gt BEELAB IBUSP CEPANN P 76 cunninghamiana gt gt BEELAB IBUSP CEPANN P 81 cunninghamiana gt gt BEELAB IBUSP CEPANN P 82 cunninghamiana gt
33. option from the Interaction type list that describes the type of interaction that occurs between these two organisms Add any related information about the interaction in the Related information text field and save the interaction record by clicking on the Insert button Note The Related information text field in the Interaction table is set to Null by default To add text to this field type in the text field that displays after clicking in the Null checkbox This field is Required for interactions involving specimen data derived from bibliographic sources rather than from collection records IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 24 PTN Pollinators Thematic Network fa home og labin ptn ial user guide Ej pt br Elles IABIN PTN Pollinator Data Digitizer This is the IABIN FTN tool for data entry of preserved and observed specimens data and for plant pollinator interaction data based on the Darwin Core schema and its Interaction Extension Preserved specimens interaction Preserved and observed specimens interaction Observed specimens interaction Observed specimen Acacia polyphylla gt gt BEELAB IBUSP CEPANN P 67 Global unique identifier Interaction type Observed specimen Global unique identifier IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt Archontophoenix Archontophoenix Archontoph
34. renss 13 4 1 6 Specimens Biological elements cccccesssecccesececeesececeeeseceeseeceeeeneceeseueeeeeas 14 4 1 7 Specimens Geospatial CIEMENHS cccccsssccccessececeeseccceescceeaeeceeseeceeseeeeeeeas 15 4 1 8 Specimens References ClOMENUS ccccccsssecccessececeeseceeeescceseuseceseeeeceeseneeeetes 18 5 SAVES INECTACLION DAU iiss sioncscassonasensravancnusacasunwearessnsarensensmasunmeneniuneesesevieenseiseneduwess 19 5 1 MEN ere eee eee nen eer eee eer 19 Deed Preserved Specimens Interactions Save interaction data cccccccseeseeeeeeeees 20 5 1 2 Save Preserved and Observed Specimens INteraction ccccsesecccesseeeeeeeeeeees 22 5 1 3 Save Observed Specimens Interactions ccccceeseccceeseccceeescceeaesececeueceeseneeeeeas 24 6 View Saved Records ics caciponssinncncecesacenscenvannesensnnasostiannssnarasacusmeansdacineelanimecasienceieress 26 6 1 VM 26 6 1 1 View Preserved SPECIMENS rrrnnnrnnnnnrnnnnnrnnnnrrnnnnennnnnennnnsvnnnnsvnnnnsvnnnnsnnnnssnnnnssnnnnee 27 6 1 2 VIEW Observed Spemann ua vvs 27 6 1 3 View Interaction Data esssessssressessseesesrssseesseosssrssreosseesesrssseesseosesrssseesseeseses 27 Tapir provider Preserved or Observed Specimen Interaction ccscssccsscsscsscssscsscscseees 28 6 2 VEN 28 IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 2 TABLE OF FIGURES Figur
35. s and the Credits link instructions for contacting them the Contact Us link and the application version can be found at the bottom or in the footer area of all pages on this Web application including the Home page Figure 1 Item 7 PTN Pollinators Thematic Network og iabin ptn ial user guide EJ pt br les IABIN PTN Pollinator Data Digitizer This is the IABIN PTN tool for data entry of preserved and observed specimens data and for plant pollinator interaction data based on the Darwin Core schema and its Interaction Extension gt Save preserved or observed specimen data gt Save interaction data gt View saved records gt Tapir provider Preserved or observed specimen gt Tapir provider Interaction Figure 1 Pollinator Data Digitizer Home Page The following items and sections describe each of the components on the Home page their function and how to use them Available Languages icons Click on one of the flag icons in the top right corner of the home page to choose your preferred language The Pollinator Data Digitizer interface is available in Ed pt br Portuguese Brazilian H en English and B es Spanish Note The preferred language options available in the Pollinator Data Digitizer tool s online interface only affect inline text in the interface Text in records digitized using this tool will be displayed in the language in which it was submitted or typed in by the user IABIN PTN Pollina
36. the name or value of a new option that is to be added to a drop list e Null checkbox t Mull Null checkboxes are associated with some of the fields in the user interface of this tool They are often selected by default Either choose an option from the drop list that displays after clicking in the Null checkbox or add options to the drop list by typing them into the field that displays after clicking in the Other checkbox 4 Save Preserved or Observed Specimen Data 4 1 OVERVIEW The Save Preserved or Observed Specimen Data page Figure 2 allows users to create records that consist of several tables of elements Record level elements Taxonomic elements Identification qualifier Locality elements Collecting elements Biological elements Geospatial elements and References elements The following numbered paragraphs describe each of these tables and the elements they contain their function and how to use them 4 1 1 Specimens Record level elements The Record level elements table on the Save Preserved or Observed Specimen Data page allows users to register information specific to or at the individual record level For definitions and examples of each of the elements in this table reference Darwin core 2 elements definitions v1 4 or click on the Help icon 9 that is displayed next to each record level element Available at lt http wiki tdwg org twiki bin view DarwinCore DarwinCoreDraftStandard gt IABIN PTN Pollinator Data Digit
37. the products of the IABIN Pollinators Thematic Network IABIN PTN a consortium that consists of the Pollinator Partnership coordinating institution Agricultural Automation Laboratory LAA of the University of S o Paulo the Integrated Taxonomic Information System ITIS and the National Biological Information Infrastructure NBII The Pollinator Data Digitizer was developed by the Agricultural Automation Laboratory LAA team in cooperation with and with the support and review from the team members of the IABIN PTN 2 HOME PAGE 2 1 OVERVIEW The Pollinator Data Digitizer is available online at lt http pollinators iabin net digitizer gt To access the digitizer Home page type this URL into the address line of your Internet browser application and press the Enter key Note The Web interface of the Pollinator Data Digitizer may be browsed using Microsoft Internet Explorer Mozilla Firefox and Netscape On the Home page users can choose their preferred language find explanations or instructions for using the digitizer and choose between the following functional areas IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 4 Save preserved or observed specimen data Save interaction data e View saved records Tapir provider Preserved or observed specimen Tapir provider Interaction More information about the developers of this tool organization name
38. tor Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 5 Save preserved species or observed specimen data link Provides access to the Save Preserved or Observed Specimen Data page Figure 2 where users can create or digitize preserved or observed specimen records by defining taxonomic biological geospatial and many other elements associated with each specimen Save interaction data link Provides access to the Save Interaction Data page where users can digitize records of interactions between specimens that are represented by preserved or observed specimens View saved records link Provides access to the View Saved Records page where users can view three different types of data that they have digitized preserved specimens observed specimens and interaction data Tapir provider Preserved or observed specimen link Provides access to metadata about the TAPIR provider service for serving specimen observed or preserved records to data portals Tapir provider Interaction link Provides access to metadata about the TAPIR provider service for serving specimen interaction records to data portals Footer area More information about the developers of this tool organization names and the Credits link instructions for contacting them the Contact Us link and the application version can be found at the bottom or in the footer area of all pages on this Web application including the Home page
39. xt to this field type in the text field that displays after clicking in the Null checkbox This field is Required for interactions involving specimen data that is derived from bibliographic sources rather than from collection records IABIN PTN Pollinator Data Digitizer lt http pollinators iabin net digitizer gt User Manual and Training Guide 20 PTN Pollinators Thematic Network G home og labin ptn ial user guide EJ ptbr E es IABIN PTN Pollinator Data Digitizer This is the IABIN PTN tool for data entry of preserved and observed specimens data and for plant pollinator interaction data based on the Darwin Core schema and tts Interaction Extension Preserved specimens interaction Preserved and observed specimens interaction Observed specimens interaction Preserved specimen Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 140 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 141 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 142 Lestrimelitta limao gt gt BEELAB IBUSP CEPANN 143 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 713 Faratrigona subnuda gt gt BEELAB IBUSP CEPANN 714 Paratrigona subnuda gt gt BEELAB IBUSP CEPANN 715 Paratrigona subnuda BEELAB IBUSP CEPANN 716 Paratrigona subnuda BEELAB IBUSP CEPANN 717 Faratrigona subnuda BEELAB IBUSP CEPANN 713 Global unique identifier Interaction Interaction DispersedS5eedOf ExtractedNectarFrom ExtractedResinFrom FlowerVisitedBy HostO
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