SIBIS User Manual
Contents
1. Z w l gpa ERA T J 4d S age geiz Ey is M D D E l 5 cg a lt ee 7 Ng e S P E Ay mele 7 2 a Redeye RD GDR Oi es nate SIBIS User Manual SIBIS Manual version 1 1 Aug 2009 Contents General navigation in SIBIS ccc cccccccccccccccceeeeeeeaasseesssseeeeeeeeeeeeeeseeeceseeeeeeesaeeeseeeaeees 6 TAS ATA CONE TT 1 Ovr B SSe AT aa A E E E A EE E EAEE ee 8 Baap ends tees ieee an eee aunt 10 PCOS TT 10 CREW Custodians of Rare and Endangered Wildflowers cccccccccccccccsssseeeeeeeeeeees 10 INTIS o DNA Ree ere 10 TAT CH NCC oo Te TTT 10 MSB Millennium Secedbani 11 PRECIS Pretoria Computerised Information SYStenmi sss sees sese eee 11 POCTA a E E E genoa eo 11 RISE TRT DaO e E E eee eee E 12 TSP Threatened Species Programit sssirsscos ernari ane NENEN EEEE 12 S LT 13 UTA EE E e ee EAA AIEA A EAI EAO A S EREA EI E AE A AEAT 18 Taano e a E E E EAE T A 19 Common Name Greig s sxs zsz sacs a xet aza aah enrage on tesos Taan aag Raa RER na ES siini 20 HK SS STs RTT 21 DSC a TT 23 Or ON CSU e EE TR N E E AE E 24 KEIT eT e E E EE E E E 24 RENA Y ONT SI e e E E E E E A 24 Species 1 TTS 25 EOR CU Ta U LT 29 e Ea EE E TE E er ee eo ee EO A E E ET 30 Aa a E T E o AT E EE E AE a deceeetiouees 30 Downloading the specimen Shapeless sese 30 Using the map to select SpeciImeng ee 31 Using the map to build a species checklist 33 a ai sg aoe cs aces ee aceite elas ape taceneraiies 38 PUNE E aar e2. The second way to change your current species is by doing a New search on the Interactive map to find a list of specimens within a particular area If you click on the details of one of the specimens listed your current species is set to that species The diagram below provides details of the effect of all the actions you can take on your SIBIS context comprising Species Results Current Species Specimen Results and Current Specimen Specimen results Species results Current species Specimen results FIN SIBIS Manual version 1 1 Aug 2009
3. then you can use the checkboxes to the right of the three dropdowns Select All species more threatened than selected status to perform this search South African Threatened Status IUCH Endangered 7 Ji Criteria All species with selected status OR CITES C 7 All species less threatened than selected status OR NEMEBA F 7 All species more threatened than selected status Included on the lists are useful composite criteria For the IUCN you can select Threatened which includes species which are vulnerable endangered or critically endangered For CITES picking Any will include all species listed on any of the appendices NEMBA option Listed will include all species listed by NEMBA You may also tick the right hand three checkboxes to find all species which have simply been classified according to IUCN CITES or NEMBA criteria Specimen Results criteria SIBIS Manual version 1 1 Aug 2009 299 The Specimen Results criteria are used in conjunction with the Interactive Map to limit the species returned to those with specimen or observation records found within a particular area in addition to any other criteria you may define on the Species search page This allows you to search for for example threatened species that are found in the Kogelberg or Agapanthus species in East London More detail on how to include this in your searches will be described in the Mapp
4. Data Sources Statistics Feedback nationa C TLE biodiversity Contact Details reha S AN B Species Search SANBI s Integrated Biodiversity Information System Species Results GUNENESNECIES SANBI s biodiversity information is now available online SIBIS offers Interactive Map e Threatened species information S e Distribution maps Current Specimen e Area checklists e General species details Views SEES stati care Search Options SIBIS is the gateway to SANBI s biodiversity information and information shared by SANBI partners SIBIS provides access to over 1 6 million occurrence records and comprehensive coverage of South Africa s 22 000 plant species Animal species are being added as they become available Where Am I SIBIS is a new product so please let us know if you have any suggestions Newsflash Data downloads coming soon national biodiversity institute B AN B Adansonia digitata D Adenium muilfifiorum Aloe dich ofoma Quiver Aloe ferox Bitter alc Aspalathus linearis Rooibe Bradypodion pumilum Brunsvigia orientalis Cande Clivia miniata Bush lily Disa uniflora Red d Erythrina caffra Coral tree Leucospermum cordifolium Pin Lithops optica Ston Podocarpus latifolius Sceletium tortuosum Ke Widdringtonia cedarberge Hf S Clanwilliam cec a General navigation in SIBIS SIBIS has a menu on the left of the screen which i
5. Plants Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details S AN B 14 14 Page 1 of15 Go b pi The Species Search Results page can be reached by clicking on the Search button on the Species Search screen or by clicking on the Species Results button on the left hand menu At any point you can click on the Species Results button to see the current list of species that you are working with The Species Results lists the matching species based on your current search options The number of matching species is displayed above the list Species Search Results 1 20 of 292 The results are listed in pages containing twenty items each To move between the pages you can use the controls at the foot of the list of 15 Lb Lp 4 Page 1 Click on the arrows to move to the first previous next and last page respectively You can also enter a specific page number in the text box labeled Page and click the Go button to jump to a specific page directly Listed species details The information that you see in columns for each species in the list is determined by what criteria you used for your search Family Species and Category are always SIBIS Manual version 1 1 Aug 2009 zJ included The table below indicates what details are added to the list when you include criteria
6. Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE KI 4 Page 1 of11 Ic SIBIS Manual version 1 1 Aug 2009 Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum 20 Feb 1976 6 Oct 1991 19 Nov 1991 19 Nov 1991 20 Nov 1991 24 Jan 1992 24 Jan 1992 7 Mar 1992 7 Mar 1992 12 Apr 1992 15 Aug 1992 1 Nov 1992 29 Nov 1992 29 Nov 1992 13 Nov 1994 29 Dec 1994 17 Apr 1995 14 Jan 1996 14 Jan 1996 11 Feb 1996 3318CD 3418BB 3318CD 3318CD 3318CD 3318CD 3318CD 3318DD 3318DD 3318CD 3318DC 3419BA 3318CD 3318CD 3318DC 3418AB 3318CD 3318CD 3318CD 3318CD Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants P
7. T8115 KLASSENKOP 695M Distance to Place 1 Soil Type Aspect Slope Hab Asp Slope Planted Flowering Loam North East Ea st Cones seedheads only Soil Colour Slope Veg Desc Seedlings Age Brown Gentle slopes gt 5 Suburban urban None 0 0 Geology Land Form Veg Island Desc Average Height New Shoots Deep soils no bedrock visible Extensive natural gt 5m Much gt 1 2 bushes Notes Type You can view the Specimen Details page by clicking on the Details button for a specimen on the list of Specimen Results You can also return to a previously selected specimen by clicking on the Current Specimen button on the menu The Specimen Details page is organised in a similar way to the Species Details page It is broken into two parts the upper comprising the details which are common to all specimens while the lower section gives details specific to the data source from which the specimen is drawn Note that at present the Longitude Latitude and Locality fields have been blanked out as sensitive data these may appear greyed out in the interface For animal samples the Collectors are also not made public SIBIS Manual version 1 1 Aug 2009 S C If you notice an error in the specimen data or
8. ground level You can also zoom to a specific area on the map by clicking on the Zoom in button on the right and then drawing a box around the area of interest on the map Zoom out using the Zoom out button scrolling your mouse wheel while over the map will also zoom in or out To move the map either use the blue compass P above the zoom slider which will set the map moving in whichever direction you click on or click on the Hand button on the right and then click and drag the map as needed Downloading the specimen shapefiles Shapefiles are used in Geographic Information Systems GIS such as ESRI ArcView or ArcGIS to display data Various free desktop GIS tools are also available such as MapWindow GIS http Awww mapwindow org You can download the shapefiles of the specimens you are viewing on the map by clicking on the link at the foot of the map SIBIS Manual version 1 1 Aug 2009 99 This will only download the specimen data the other layers or background image are not downloaded You can then open the shapefiles in your desktop GIS system two shapefiles are downloaded one for the QDS scale specimens a polygon shapefile and one for the point precision specimens a point shapefile If there are no point precision data available which is the current situation then only the polygon shapefile will be downloaded The attributes which are downloaded with your shapefiles are as follows
9. x 2 maximum size is only 4 QDS s you may get results from up to 9 QDS s if your selection overlaps with them SIBIS Manual version 1 1 Aug 2009 34 s FISSIDENTACEAE Fissidens arnellii ap weasel eect Yoo see cee Reload Current Species Tools Loskop For best performance please use Internet Explorer 7 or later or FireFox 3 Since the search may take a few seconds SIBIS temporarily disables the interface and displays a message Busy with request Busy searching for matching specimens This migh take a some time please be patient Once the search is complete you are presented with a list of specimens for the selected area SIBIS Manual version 1 1 Aug 2009 SIBIS SIBIS Home Data Sources Statistics News and events Contact Details Species Search Species Results Current Species Interactive Map Specimen Results Current Specimen Change Settings Click here to view information about your current search national biodiversity Institute B AN B Specimen Search Results Specimen Search Results 1 20 of 1428 35 Show Species List Source ty Family Name ty Species Name Date t QDS y Category Details Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks Acocks POACEAE POACEAE POACEAE POACEAE POACEAE POACEAE FABACEAE MALVACEA
10. Curent Name According fo TSP List of Details A T Kingdom 1 Phylum of Class B Order n Family PROTEACEAE SOUrCB PRECIS Protea Atlas TSP Gardens HG1 Molecular Lab PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE Proteaceae Values Common Names Gardens PRE PROTEACEAE Language Commontamnes English Silver Tree Afrikaans itteboom English Cape Silver Tree English Silver Conetree Close Window Afrikaans Silwerboom The single line of coloured dots particular piece of information displays the discrete range of values for that Taxonomic Details Threat Status According to PRECIS Name Status 15 a Current Name According to TSP T Kingdom List of Details A 1 Phylum Values of Class PROTEACEAE Proteaceae 6 Onder ft Family PROTEACEAE Common Names Language commonMames English Silver Tree Afrikaans vVitteboom English Cape Silver Tree English Silver Conetree Afrikaans Silwerboom Close Window If a species has synonyms these are listed under Known synonyms You can view any of these entries by clicking on the item and then clicking the View Synonym button In general synonyms will have less information associated with them and may have fewer distribution points than the currently valid species names since specimens will have been reassessed in the light of the revised taxonomy Known Synonyms Synonyms PROTEACEAE Leucadendron
11. History etc In the future SIBIS will include additional sections of species information depending on what is available in the data sources and requests from users Please let us know the types of species information you would like to see Since the information is drawn from many different sources there are overlaps where more than one data source contains information on for example the family to which a species belongs These may not always agree At the top of a section you will see the data source whose information is being presented Taxonomic Details According ia PRECIS The default data source which is shown is generally the most authoritative for example PRECIS is considered to be the most qualified reference for plant taxonomy within SANBI so its version of the species taxonomy is shown by default You can examine the different versions of information by selecting the data source from the dropdown list All the information within the section will then be drawn from the new data source To interrogate the data in more detail click on the View l button at the top of the page This will display additional icons adjacent to each field The square of coloured dots will produce a complete listing of all the opinions of the data sources regarding that particular piece of information SIBIS Manual version 1 1 Aug 2009 OF x Taxonomic Details Threat Status Accarding io PRECIS Name Status 5 a
12. from that section in your search Result list details Current name synonym arava ONAE Threatened status IUCN CITES and NEMBA ratings This means that a search for threatened Threatened status mesembs family Aizoaceae Taxonomic will include the various IUCN CITES and NEMBA ratings as well as an indication of the current synonym status of each species name listed Sorting your results By default the results are sorted by Family and Species Sort the list of species by clicking on one of the column headings The icon on the right of the column heading will change from the paired arrows to a down arrow 1 indicating that the selected column is the first 1 priority for sorting and that the sort is in ascending order i e from A to Z The column will also be highlighted To change the sort order for the column bringing the last entries to the top of the list click on the down arrow icon 1 at the head of the column This will change to an up arrow 1 indicating that the sort is now in descending order from Z to A To sort by more than one column click on the Plus icon shown in the column headings This will add the selected column to the sort criteria and indicate that it is of secondary priority by the 2 in the new down arrow icon at the top of the column To remove the sort order from the listing click on the Clear sort button above the column headings This will restore the list to the default l
13. have a query regarding the specimen you can click on the Report a problem with this specimen link at the top of the screen This will create an email message with the details of the specimen which you can send to SANBI SIBIS Manual version 1 1 Aug 2009 AD x Frequently Asked Questions Listed below are some of the more common queries about SIBIS If you have a question which is not answered here please let us know Why isn t my search returning any species The most common cause of a search not returning any results is that the criteria are too specific The Search screen remembers your last search settings so if you entered some taxonomic criteria say Fi for Family and then perform a new search where you add some criteria around threat status it is possible that no species will match both criteria Either clear the search before entering your new criteria or use the checkboxes on the left of the section headings to turn off irrelevant criteria iv Taxonomic Name Status Is Current ls Not Current Not Specified Family n You may also click on the Where am I button below the menu to see the criteria which are being applied You may have disabled the data sources needed to find the information Click on the Search options button to see if there are additional data sources that may contain the species you are looking for It could be that SANBI does not have any data t
14. inclusion as a search SIBIS Manual version 1 1 Aug 2009 21 criterion Hopefully as the quality of the data improves we will be able to review this to include further South African languages as distinct options Threatened Status criteria CI South African Threatened Status IUCH F Criteria All species with selected status OR CITES C 7 Pa L All species less threatened than selected status IR HEMEA E 2 All species more threatened than selected status The Threatened Status options allow you to filter the species by their South African threat status You can pick from the categories defined by the IUCN CITES or NEMBA In general these will be the most recently defined categories in use by these organisations though certain additions may be made for local terminology e g Rare Note that the categories are local so Extinct means Locally extinct as opposed to globally extinct If you select an option for more than one threat listing e g IUCN and CITES then you will find species which match according to either of these criteria not those species which appear on both lists By default SIBIS searches for species matching the option you have selected If you would like to find species that are more threatened than the option you have selected for example to find all species with an IUCN status of Endangered Critically Endangered Extinct in the Wild or Extinct
15. with a single species then it will simply list that single entry SIBIS Manual version 1 1 Aug 2009 AQ Specimen details SIBIS SIBIS Home Report a problem with this specimen SANBI Specimen Details Data Sources PROTEACEAE Leucadendron argenteum Statistics Feedback Specimen ID AGR92012401 LDARGE Source Protea Atlas Institution Contact Details Date 24 Jan 1992 Type Observation ID Qualifier Collector s AGR Collector Number Species Search Species Results QDS 3318CD Province See QDS None Country South Africa See QDS Latitude Lat Lon Precision 011 nE Longitude Current Species Interactive Map Altitude 20m Alt Precision 6 20m Contour Specimen Results Locality Description Current Specimen Not available to the general public Search Options Notes Where Am I Please see the notes below under the Protea Atlas specific section Specimen Details related to Protea Atlas only Population Size Variable Pop Number Common 101 10 000 Aliens None national Reserve Name Kirstenbosch NBG IsaReserve Y biodiversity E institute S AN B Signs of Fire No Fire Survival Alien Density Distance to Sea More than 2km to the sea Near Place
16. 009 9 Finally click the Confirm button to save your new settings The new results will be automatically loaded into your specimen and species result lists Contirm SIBIS Manual version 1 1 Aug 2009 10 SIBIS Data Sources Acocks This database represents the computerisation of all John Acocks field notes Acocks initiatives in the 1940 s and 1950 s to document and map the vegetation of South Africa had a significant effect on ecology in the country The database comprises over 250000 observation records for over 3000 sites For more information on Acocks email Mike Rutherford sanbi org CREW Custodians of Rare and Endangered Wildflowers The CREW Programme collates site based information for threatened species including population statistics and threats to the populations from aliens or development The CREW database comprises details of over 2 000 site visits and over 14 000 occurrence records For more information on CREW email Ismail Ebrahim sanbi org SANBI s DNA Laboratories The Lesley Hill Laboratory is the main facility for SANBI s Molecular Ecology and Evolution Program MEEP The laboratory also houses a national DNA bank for plants and a tissue bank for South African reptiles In connection with the Southern African Reptile Conservation Assessment Amphibians As of end 2008 the database comprised details of over 2 000 animal tissue accessions and close to 5 000 plant accessions F
17. 6 00 to 10 00 institute SANBI Eastern Cape Tree no Gauteng PE Altitude range m 400 to 600 Search Details related to Plants only Pollinators Life History Pollinators Life History Hymenoptera Bees Wasps Perennial medicinal poison Growth Forms Growth Form Tree large tree over 5 m tree The Species Details page can be reached by clicking on the Details button for one of the species on the Species Results page or by clicking on the Current Species button if you have previously viewed the species The Species Details page provides an overview of the species combining information from all the selected data sources In addition you can now click on the View Map button at the top of the screen to view a distribution map for the species or the View Specimens to see a list of specimen and observation records for the species To return to your list of search results click on the Back to List button SIBIS Manual version 1 1 Aug 2009 26 The information on the Species Details page is broken down into generic and specific information The generic information is common to all species e Taxonomic Details Threat Status Common Names Known Synonyms Is a Synonym for South Africa Provinces Notes The specific information is specific to the type of species that you are looking at For plants this will include sections for Pollinators Growth Forms Life
18. E THYMELAEACEAE ASTERACEAE POACEAE APOCYNACEAE ASTERACEAE RUBIACEAE POACEAE ASTERACEAE POACEAE POACEAE POACEAE POACEAE Tristachya leucothrix Elionurus muticus Eragrostis capensis Eragrostis racemosa Eragrostis curvula Themeda triandra Rhynchosia totta var totta Hermannia depressa Gnidia kraussiana var kraussiana Felicia muricata subsp cinerascens Trichoneura grandiglumis Asclepias multicaulis Lactuca inermis Anthospermum rigidum subsp pumilum Brachiaria serrata Helichrysum rugulosum Aristida diffusa subsp burkei Cymbopogon pospischilii Eragrostis curvula Eragrostis plana NIL Page 1 of 72 gt gt i 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 17 Jan 1946 2828B8D 28288D 2828BD 2828BD 2828BD 2828BD 2828B8D 2828BD 28288D 28288D 28288D 2828BD 2828BD 2828B8D 2828BD 28288D 28288D 2828BD 28288D 2828BD Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details You can now click on the Show species list butto
19. Explorer 6 or higher SIBIS version 1 Species details page The current public version of SIBIS was re architected and built from the ground up by SANBI staff The system is written in Java using the NetBeans development environment We use an open source mapping tool called OpenMap and the MySQL database platform As a consequence there are no licensing costs for SIBIS since it has been built entirely from free and open source components Java and NetBeans are registered trademarks of Sun Microsystems OpenMap is a trademark of BBN Technologies MySQL is a trademark of MySQL AB SIBIS Manual version 1 1 Aug 2009 Basics http sibis sanbi org SIBIS is a website not a desktop application SIBIS is accessible on the World Wide Web using any modern browser including Internet Explorer IE Firefox and Opera While we hope that anyone can use SIBIS successfully the site does not fully comply with Web Content Accessibility Guidelines WCAG 2 0 Users who are experiencing difficulties accessing any part of the site are encouraged to let us know and we will attempt to resolve the issue as soon as possible Contact the team Selwyn Willoughby Director SANBI Biodiversity Information Management willoughby sanbi org Reuben Roberts SIBIS Coordinator roberts sanbi org Henry de Lange SIBIS Developer delange sanbi org SIBIS Manual version 1 1 Aug 2009 Getting started with SIBIS SIBIS 3 SIBIS Home
20. Lab Animal Tissue Gardens KEGI Gardens PRE Species Status Selected Categories Plants Animals Search Dates Any 1900 to May 2009 Number of Results for Species Search 131 Number of Results for Specimen Search 7 The Information panel shows your current species selection and the criteria that you used to find it The number of species and specimen results are shown at the bottom of the panel For more information on how your actions may affect your context please see Why has my current species changed in the Frequently Asked Questions section change the active data sources and other settings click on the Search options Search Options button SIBIS Manual version 1 1 Aug 2009 Overall SIBIS settings SIBIS iati ddei Search Options Data Sources naar Statistics Select the Categories to search in icin Feedback Plants Contact Details Animals Reset Everything Species Search Species Results Select the Data Sources to use Current Species Acocks Interactive Map CREN Specimen Results DNA Lab Plants Current Specimen DNA Lab Cold Blooded Gardens KBG Search Options Gardens PRE Where Am I Millennium Seedbank PRECIS Protea Atlas Species Status This will affect the CITES and NEMBA threat status searches TSP This will affect the IUCN based threat status search Select the Date Range to search in national Begin Date biod t raki Year 1800 v Month Any S A N B End Da
21. Me Species Search Note All search words are automatically ended witt Data Sources Statistics O Taxonomic Feedback Name Status O ls Current Is Not Current Not Specified Contact Details Family Show List ommon name searches are also additionally started with one Genus Show List S Search Species Search Species Show List Species Results Subspecies Current Species Variety S x m Clear Search Interactive Map Other Clear Search Specimen Results Current Specimen O Common Name Search Options Language All Where Am I Name O South African Threatened Status IUCN all Please select a status a Criteria All species with selected status CITES g Please select a status me _ All species less threatened than selected status NEMBA S Please selecta status iw IS _ Al species more threatened than selected status national biodiversity institute SANS O Specimen Results 0 species derived from the Specimen Results The Species Search is accessed from the Species Search button on the menu Use the Species Search to find the species you are interested in The form allows you to search by a number of different criteria Once you have entered the criteria click on the Search button to see the matching species SIBIS remembers your search terms so if you return to the page the
22. National Herbarium in Pretoria The PRECIS project mission is to develop maintain and expand an electronic database system on southern African plants for the provision of an efficient customer driven information service and for producing computer generated electronic and publishable products through PRECIS National Herbarium Pretoria PRE Computerised Information Service This activity is administered from the National Herbarium in Pretoria PRE where the complete southern African collection from the region south of the Limpopo and Kunene Rivers has been computerised and now complete covers 736 424 specimens in 24 500 taxa species and infraspecific The cultivated collection of 21 169 sheets is computerised separately The rest of the African holdings will be added to the database in the near future under the SABONET programme For further information on PRECIS email precis sanbi org Protea Atlas The Protea Atlas Project records the geographical location of Proteas throughout southern Africa for the benefit of conservation rural communities farmers reserve managers tourism the cut flower trade and botany Over 250 000 sight records from 60 000 localities of 380 Proteaceae species and 400 hybrids are recorded For more information on Protea Atlas email Tony Rebelo sanbi org SIBIS Manual version 1 1 Aug 2009 a LZ Species Status Database SANBI s Species Status Database provides a centralised storage location for inf
23. Source Family Species Collection date Category Plant Animal Using the map to select specimens You can refine your specimen list to select only a subset of the specimens which are currently being shown on the map To refine your list of specimens click on the Select specimens button on the right of the map Then click and drag a box around the specimens you would like to focus on When you have dragged the box SIBIS will return with a specimen list reflecting the specimens falling within your selected area If the data is at QDS resolution then if your selection overlaps with the QDS the data will be included point resolution data is only included if it falls within your selected area SIBIS Manual version 1 1 Aug 2009 9 Reload Current Species SIBIS Map S S Ei lez The selection above returns the following specimens for Leucadendron argenteum the Silver tree SIBIS ecipie SIBIS Home Show Species List Specimen Search Results Specimen Search Results 1 20 of 215 Statistics gt BELCE lank News and events Contact Details Species Search Species Results Current Species Interactive Map Specimen Results Current Specimen Change Settings national biodiversity institute BAN B Source Family Name t Species Name TL Date ODS 4 Category Details Gardens KBG Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas
24. box To find all species with specific epithets starting with afr enter afr in the Species text box To find all species with specific epithets containing afr e g to find austroafricana then you must put the wildcard at the start of your entry i e afr or afr since SIBIS otherwise assumes that your entry forms the start of the name When searching you don t need to enter complete names so you could use Aco and op for Genus and Species respectively if you were interested in finding the species Acokanthera oppositifolia lf you would like to pick from the genera within a family enter the family name or part of the family name in the Family text box and then click on the Show list link next to the Genus text box to see a list of genera Taxonomic Name Status ls Current ls Mot Current Not Specified Family Proteaceae show List Genus Po oe Show Tet Box Species Adenanthos Show List Agastachys Alloxylon Warlety AU an Banksia Subspecies Other Beauprea Bellendena Arabejurm Buckinghamia O Common Nar carawettia Language Camarvonia ee ee Name SIBIS Manual version 1 1 Aug 2009 Mo You can use the same technique to see a list of species within a genus If you are unsure of the spelling of a family genus or species you can enter a few letters with or without wildcards and click the adjacent Show List link A list of matching entrie
25. e ee oe ee eee ee eee a aero ee cern ae ree mee meee eee treme 40 OO Arken LTO ae sensei ee iigeleet nested 42 SIBIS Manual version 1 1 Aug 2009 About SIBIS SANBI s Integrated Biodiversity Information System SIBIS is a product of the South African National Biodiversity Institute SANBI developed by the Biodiversity Information Management team SIBIS is the gateway to SANBI s biodiversity information and information shared by SANBI partners SIBIS provides access to over 1 6 million species occurrence records and comprehensive coverage of South Africa s 22 000 plant species Animal species are being added as they become available SIBIS offers e Threatened species information e Distribution maps e Area checklists e General species details SIBIS focuses on species and specimen information for landscape and mapping information you may wish to try Biodiversity GIS http bgis sanbi org SIBIS contains information from a number of SANBI databases Acocks plant species observations CREW threatened plant species localities DNA laboratories plant and reptile DNA accessions Garden Accessions plant collection records MSB plant seed collection records PRECIS taxonomy and herbarium specimens Protea Atlas Proteaceae species occurrence records Species Status NEMBA listed species TSP threatened plant species Further data sets will be added over time Note that sensitive information is not shown For example
26. ecent is the initiation of SANBI s non plant related work compared to the age of the herbarium holdings over 47 000 specimens were collected before 1900 The spikes in plant records in the 1940s and 1950s reflect Acocks contributions over and above the ongoing herbarium specimen encoding work The spike in the 1990 s reflects the Protea Atlas Project which gathered many observation records for members of the Proteaceae family V Records per QDS 1 5 5 10 10 50 50 100 100 500 500 1000 1000 5000 E 5000 10000 E 10000 50000 Fig 5a Number of specimens or observation records per QDS Region SIBIS Manual version 1 1 Aug 2009 16 a ig aa L i E a sn HM E E l Z B i EE E SCR o REE I 1 i j 3 IS R 8 BR Records per QDS 1 5 5 10 10 50 50 100 4100 500 500 1000 1000 5000 E 5000 10000 E 10000 50000 Fig 5b Number of specimens or observation records per QDS South Africa Figure 5 illustrates the collecting intensity of SANBI s data holdings with some quarter degree squares QDS s having over 15000 distinct specimens and observation records On the other hand there are still QDS s in South Africa that have seen no recorded activity e g 3021CA 2920CC 2921BA 2721DA B and C and the spread of data is thin outside the borders of the country The figures also provide an indication that all data is not necessarily accurately g
27. ens by category As you can see from Table 1 and Figure 1 the overwhelming majority of SANBI s data is still plant oriented This is an artifact of its historic mandate as the National Botanical Institute and its predecessors In future additional animal related data may be added to SIBIS through SANBI s network of partners Data source Last updated Species names Specimens or Georeferenced observations QDS or better Acocks 2009 7 524 289 488 100 0 Animal DNA __ 2009 2 630 83 1 SIBIS Manual version 1 1 Aug 2009 14 SP Table 2 Data breakdown by data source _ Atlas L TSP PRECIS lt a Species Status K DCOChS Animal Tissue CREWS Gardens Molecular Lab MSB Fig 2a Number of species by data source I Animal Tissue r CREW Gardens Molecular Lab Fig 2b Number of specimens and observations by data source Table 2 and Figure 2 indicate the spread of data between the various databases PRECIS is a major source of plant specimen and species names while Acocks and Protea Atlas have significant plant observation holdings Fig 3 Shared species the percentage of species that are found in n data sources SIBIS Manual version 1 1 Aug 2009 15 Fercentage of specimens or observations by decade Percentage of specimens or observations by decade Fig 4 Percentage of specimens or observations collected by decade X axis value indicates end of decade in question Figure 4 demonstrates how r
28. eocoded with obvious errors placing records in the oceans There is ongoing work to correct these errors and SIBIS will assist in bringing them to light SIBIS Manual version 1 1 Aug 2009 17 E T T l T ARREARS HS LL L EM EEM ENNEM a T im TE Em E L RRR 222 ECE Si i a nae nah HERR Re BER att LL aE L Tr TTT Ee T T T GSE a E LIT GS SIT EE ZEE GB Le kda A to Bae EERE E esas H S 85959 SE A E HEI E A H SHR 29 S 9 99 D 9 a RHB E lra SI L T de EC Ce 2 baa ES S Er L S 9992 89 a LEM TL BnS nd EE RTT T konmi TTT m EH 1E BBE Ee ZAER L ES L BREE ley Sw BR HE EEEMEMME E AET A TETE Ho PEE ob E BEE Fig Hae EEE H H RTT TTT TOTE rT TT AMR SIG Wa EI pai 888 ari SEE HERBER EERE HSR L x b 9 1 TTT SFH L PE El m E Ea R BEE F E C US S T PHE A i me e CCC ie Fa L Figure 6 Threatened species IUCN CITES or NEMBA listed per QDS Figure 6 illustrates the distribution of all species within SIBIS listed by the IUCN CITES or NEMBA This provides a dramatic snapshot of the areas within South Africa that are most in need of conservation to preserve these species although the intensity of collection activity must also be taken into account particularly in less visited areas that may support as yet unknown sensitive species SIBIS Manual version 1 1 Aug 2009 18 Finding Species SIBIS ie be S
29. fic point as determined by a GPS for example the map will display red squares Point resolution data is displayed as points on the map If there are no georeferenced records for the current species then the map will be blank Overlapping records found in the same area will result in a darker red colour Note that point resolution data is currently regarded as sensitive so you will only see QDS scale distributions in SIBIS SIBIS Manual version 1 1 Aug 2009 30 Selecting layers Layers are sets of information such as towns rivers and protected areas To change the layers which are visible on the map click on the blue G button on the upper right of the map frame A list of available layers will be shown Turn the layers on or off by using the checkboxes next to each one You can also toggle between a world map and the Google Earth coverage as an underlying backdrop to the other layers When you have finished click on the B button to hide the layer panel again Base Layer World Google Overlays i Provinces 4 Quarter degree Squares C Protected Areas E Rivers amp Main Roads B Provincial Capitals E Other Towns B Specimens QDS Please let us know if there other layers which you would find useful Zooming and moving the map Use the slider on the left to zoom in or out on the map Moving the slider up will bring you closer to the surface while moving it down will take you further away from
30. hat matches your search Why is my map blank If you have selected a species from the result list you expect the Interactive Map to display the specimens and observation records as red squares and points on the map Sometimes the map does not display any records This can be due to a lack of specimens for the selected species or because the specimens that do exist are not georeferenced and thus cannot be displayed Click on the Specimen Results button on the menu to see if there are specimens if so then the most probably cause for the lack of display on the map is that they have not yet been georeferenced or are georeferenced at a resolution cruder than quarter degree square If you were looking at a synonym species name then it is quite likely that no specimens are associated with it You need to select its current name or one of its current names if it has been split and view the distribution map of that species If you have not selected a species by picking an entry on the species result list and clicking on the Details button then SIBIS will not display anything on the map At present you cannot display the specimens from more than one species on the map except by doing a spatial search using the New button on the right of the map to pick species within a particular area You cannot move directly from the SIBIS Manual version 1 1 Aug 2009 C Species Results page to the Interactive Map page t
31. ing Species Distribution section of the guide under Using the map to build a species list SIBIS Manual version 1 1 Aug 2009 aye Species Results SIBIS SIBIS Home Species Search Results i aie Statistics Feedback Contact Details Species Search Species Results Current Species Interactive Map Specimen Results Current Specimen Search Options Where Am P national biodiversity institute L Family t Species t Current Name t Category ts Details AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE AIZOACEAE Acrosanthes anceps Acrosanthes angustifolia Acrosanthes decandra Acrosanthes fistulosa Acrosanthes humifusa Acrosanthes microphylla Acrosanthes sp Acrosanthes teretifolia Aizoanthemum dinteri Aizoanthemum galenioides Aizoanthemum hispanicum Aizoanthemum membrumconnectens Aizoanthemum mossamedense Aizoanthemum rehmannii Aizoanthemum sp Aizoanthemum sphingis Aizoanthemum stellatum Aizoon angustifolium Aizoon argenteum Aizoon asbestinum true true false false true true true true true true true false true true true false false false false true Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants
32. isting order Viewing a species To examine a species click the Details Details button on the right of the species this will take you to the Current Species page for the selected species This also loads the relevant specimens into the Specimen Results page and prepares the Interactive Map page with the distribution for that species Refining your search To refine your search criteria click on the Refine search button at the top of the page SIBIS Manual version 1 1 Aug 2009 E Species Details SIBIS Enis Dene Back to List Statistics Feedback Taxonomic Details South African Threat Status Contact Details According to PRECIS Name Status s a Current Name According to TSP Species Search Phylum h Species argenteum Species Results Class Subspecies Unknown Current Species Order Variety Interactive Map Family PROTEACEAE Other Unknown Specimen Results Current Specimen Common Names Known Synonyms Is a Synonym for Language CommonNames Synonyms Synonym For Search Options English Silver Tree Where Am I Afrikaans Witteboom English Cape Silver Tree English Silver Conetree Afrikaans Silwerboom English Silver Pine Tree View Synonym Provinces Notes Provinces Accordingto PRECIS Western Cape national p Plant height m biodiversity Other
33. lants Plants Plants Plants Plants Plants Plants Plants Plants Plants Details BEILE BACILE Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details HE l 33 If you now return to the interactive map you will notice that only the specimens that you have selected are shown excluding in the case of the example above those specimens found in Gauteng and the Eastern Cape For best performance please use Internet Explorer 7 or later or FireFox 3 Using the map to build a species checklist You can use the map to find all specimens of all species which occur within a particular area This in turn provides you with a species list for that area at least as far as SIBIS has specimen and observation records for that area Note that with QDS resolution data this is not likely to be a very accurate list except for large scale areas To create a checklist click on the New button on the map interface and drag a box to select the area of interest Since the search is database intensive you are limited to an area no bigger than half a degree latitude by half a degree longitude If you attempt to select a larger area a pop up message requesting a smaller selection will be shown As with the Refine search QDS resolution data which overlap with your selected box will be included so although the 2
34. lbaghia leucantha Alternanthera sessilis Gomphrena celosioides Guilleminea densa Hermbstaedtia caffra Boophone disticha Brunsvigia radulosa Cyrtanthus stenanthus var stenanthus Haemanthus humilis subsp hirsutus Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details Details UI Page 1 of36 Go ic To further refine this list of species you can go to the Species Search screen and use the Specimen Results option combined with additional criteria to select matching species You will notice that the Specimen Results section of the search now indicates how many species you can choose to work with these are the species from the area you selected on the map Note that you must tick the checkbox next to the Specimen Results section to restrict your search to these species For instance to identify which species from that area are threatened you might choose to add an IUCN Threatened criterion South African Threatened Status IUCN Threatened VU EN and Criteria All species with selected status OR CITES F _ All species less threatened than selected status OR NEMBA 7 F All specie
35. n above the list of specimens on the right to see the species list of the selected area If you view the details of one of these specimens the distribution of that soecimen s species can be mapped by returning to the Interactive Map and clicking the Reload Current Species AA ea button Otherwise the map will display the specimen data in your selected area and the title of the map will be More than one species in Specimen List SIBIS Manual version 1 1 Aug 2009 SIBIS SIBIS Home Data Sources Statistics News and events Contact Details Species Search Species Results Current Species Interactive Map Specimen Results Current Specimen Change Settings Click here to view information about your current search Species Search Results 36 Species Search Results 1 20 of 715 D Family ty Species ty Category t Details ACANTHACEAE ACANTHACEAE ACANTHACEAE ACAROSPORACEAE ACAROSPORACEAE ACHARIACEAE ACHARIACEAE ACHARIACEAE AGAPANTHACEAE AGAPANTHACEAE ALLIACEAE ALLIACEAE AMARANTHACEAE AMARANTHACEAE AMARANTHACEAE AMARANTHACEAE AMARYLLIDACEAE AMARYLLIDACEAE AMARYLLIDACEAE AMARYLLIDACEAE Barleria monticola Blepharis integrifolia var clarkei Crabbea acaulis Acarospora laeta Acarospora porinoides Ceratiosicyos laevis Guthriea capensis Kiggelaria africana Agapanthus campanulatus subsp campanulatus Agapanthus campanulatus subsp patens Tulbaghia acutiloba Tu
36. ng transparency in the images that are loaded You can check the version of your browser by clicking on Help and About from the main menu e About Internet Explorer pael Explorer Version 6 0 2900 2180 xpsp_spz_gfe 070227 2300 Cipher Strength 128 bit Product ID 76487 OEM 001 1903 00102 Update Versions SPZ Based on NCSA Mosaic MCSA Mosaic TM was developed at the National Center for Supercomputing Applications at the University of Illinois at Urbana Champaign Copyright 1995 2004 Microsoft Corp If you are using Firefox and the map page never loads completely this may indicate a problem with the configuration of your proxy server Please let the people who manage your network and us Know How do find threatened species for an area You can use the map to find species within an area with the New button Then filter this list to just threatened species or whatever other criteria you want on the Species Search page For further details see Using the map to build a species list in the Mapping Species Distribution section of this guide Why is there so little data for animals We hope to have more animal data available soon One artifact of SANBI s history as the National Botanical Institute is that the older data sets tend to be plant focused Newer work at SANBI and through the network of SANBI partners will bring a more balanced perspective to SIBIS Where are the picture
37. nts Plants Plants Details Details Details Details Details Details Details Details Details Details Details Details Details You can view the Specimen Results page by clicking on the Specimen Results button on the menu or by using the Interactive Map and Refining your specimens or selecting a New area to retrieve a complete checklist of specimens The Specimen Results page provides a list of the specimens for your current species or a subset of these if you have selected some of these on the map The page can also list specimens for a range of species if you have used the map to get a specimen set for a selected area The Specimen Results page is similar to the Species Results page in the functionality it offers for sorting the list Please refer to that section of the manual to learn how to sort by various columns Unlike the Species Results page the list of specimens always include the same columns namely e Data source Family Species Collection date Quarter degree grid Species category plant or animal Clicking on the Details DESB button will show the details of the selected specimen SIBIS Manual version 1 1 Aug 2009 T Clicking on the Show Species List button is useful if you have used the map to select all specimens within a particular area the Show Species List will then give you a species list for that area If you are already only working
38. o see the combined distribution of all your species Why is my map pink Or not loading at all Er that s not right Please let us know and we ll take a look It could be a problem with your firewall or network settings blocking port 8080 Why can t I search for species by growth form flower colour etc 7 Let us know what options you would like and if SANBI has the data to support those type of searches we may be able to add it to SIBIS Why does my search return two copies of the same species lf you search for Leucospermum bolusii you may well find two copies of this species one of which is currently valid and one of which is a synonym There are a relatively small number of species that appear to be duplicated but you may encounter them from time to time The reason for this is as follows because we are not showing the taxonomic authority for the species some species which share a name and are only distinguished by the person who named them will appear identical In the above case the synonymous species is actually Leucospermum bolusii E Phillips Leucospermum cordifolium while the current species is Leucospermum bolusii Gand Why does the map only show squares doesn t SANBI have fine scale data SANBI does have specimen and observation data at finer resolution than QDS In the next version of SIBIS we plan to allow users to log in and see information at the best resolution available At present some informa
39. or more information on the DNA Laboratories email Krystal Tolley sanbi org Garden Accessions The Garden Accessions database contains records of all plants collected and planted in SANBI s 9 botanical gardens At present the Pretoria and Kirstenbosch gardens accessions are available on SIBIS each contributing over 25 000 plant records For more information on the Garden Accessions email Anthony Hitchcock sanbi org SIBIS Manual version 1 1 Aug 2009 11 MSB Millennium Seedbank In 2000 the Royal Botanic Gardens Kew signed an agreement with the south Africa National Biodiversity Institute SANBI The initial 5 year agreement aimed at conserving ex situ the seed of indigenous plant species from south Africa s flora in the Millennium Seed Bank This agreement was renewed in 2005 for a further five years until 2010 The overall objectives of the South African Project are to e Collect and conserve 2 500 of South Africa s flora by 2010 at least 80 of those being endangered economic or endemic species e Develop capacity in South Africa in support of seed conservation At the end of 2008 the Project had already collected and conserved over 3 000 seed collections representing an estimated 2 100 species in the Millennium Seed Bank Approaching the end of Phase 2 plans are underway to develop a strategy that will take the Project beyond 2010 PRECIS Pretoria Computerised Information System SIE PRECIS is based at the
40. ormation on the status of South African species The database provides basic information pertaining to the relevant species such as descriptions of their habitat common names and distribution ranges Amongst others it will provide information on the status of species under the various legislation that govern species in South Africa as well as IUCN red data list assessments of the conservation status of species For more information on the database and the legislation governing species in South Africa as well as IUCN red data list assessments go to http www speciesstatus sanbi org or e mail speciesstatus sanbi org TSP Threatened Species Programme The Threatened Species Programme collates assessment information for south African plant species that may be threatened or subject to pressure from harvesting or trade The TSP database contains detailed assessments for over 6 500 species For more information on TSP email Tilla Raimondo sanbi org SIBIS Manual version 1 1 Aug 2009 B C SIBIS Statistics SIBIS contains species and specimen information for both plants and animals The tables and figures below show the range of the data which is available For the latest up to date statistics please visit the Statistics page on the SIBIS site 5A 685 A2 821 1 649 030 Table 1 Overall numbers of plant and animal species synonymous names and specimens Fig 1a Number of species by category Fig 1b Number of specim
41. proteoides View Synonym SIBIS Manual version 1 1 Aug 2009 28 You can sort the entries in the tabular layouts e g Common name by clicking on the column header To view the distribution map for the species based on its specimens and observation records click on the Interactive Map button on the menu or use the View Map button in the upper right hand corner SIBIS Manual version 1 1 Aug 2009 Biso Mapping species distribution SIDIG a y SIBIS Home Reload Species Data Sources otatistics Feedback Contact Details Species Search Species Results Current Species l Select Interactive Map 4 ETT specimens Specimen Results s Create Current Specimen checklist Search Options Where Am Legend B Few specimens E Many specimens national Protected area biodiversity F Road institute Z River Town 22 50035 28 91049 For best performance please use Internet Explorer 7 or later or FireFox 3 Download shapefiles of the visible specimens no other layers are downloaded Download shapefiles zip The SIBIS Map page is reached by clicking on the Interactive Map button on the menu This page displays a map with the distribution of the current species based on the specimen and observation records found in SIBIS For data which is at the quarter degree square QDS resolution i e the specimen is only identified as being found in a particular QDS as opposed to a speci
42. s Images of species will be added to SIBIS soon At present you should look on Plants of southern Africa http oosa sanbi org for plant images SIBIS Manual version 1 1 Aug 2009 45 I would like to download the data is this possible We intend to allow users to download data in the near future This will comprise species and specimen lists and will be available in zipped delimited text formats for incorporation into your own databases Please respect the Terms of Use for the data and acknowledge its source appropriately Since this is still in development let us know if you have any ideas How can I find a specimen SIBIS allows you to find specimens in two ways either by first identifying the species or by using the map to find all specimens within a selected area There is no Specimen search screen in the same format as the Species search screen If this is something that you would find particularly useful please let us know and describe what criteria you would like to use to uncover the specimens you are interested in such as collector s name etc Why is everything behaving strangely Do you have two browser tabs open with SIBIS in each The site cannot differentiate between your tabs so it treats them as a single session what you do on one tab will affect the other as well so you will notice inconsistencies as you move from page to page We advise you to only work with one copy of SIBIS open on your compu
43. s Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas 4 Page 1 of 12 Go L gt pu PROTEACEAE Proteaceae PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE PROTEACEAE Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum Leucadendron argenteum 20 Feb 1976 19 Sep 2003 6 Oct 1991 19 Nov 1991 19 Nov 1991 20 Nov 1991 24 Jan 1992 24 Jan 1992 7 Mar 1992 7 Mar 1992 12 Apr 1992 15 Aug 1992 1 Nov 1992 29 Nov 1992 29 Nov 1992 13 Nov 1994 29 Dec 1994 17 Apr 1995 14 Jan 1996 14 Jan 1996 3318CD 3418B5 3318CD 3318CD 3318CD 3318CD 3318CD 3318DD 3318DD 3318CD 3318DC 3419BA 3318CD 3318CD 3318DC 3418AB 3318CD 3318CD 3318CD Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Plants Pla
44. s broken into two main parts The green items are the same whenever you look at them and provide information about SIBIS Manual version 1 1 Aug 2009 SIBIS in general The yellow and red menu items will show different things depending on what you have been doing on the site To search for a species click on the Species Search button Once you have found a species you are interested in you can view its details and then click on the Interactive Map button to see a distribution map of its specimens and observational data You can also click on the Specimen Results button to see a list of its specimens and from there view the details of any specimen At any time you can click on the Species Results button to see the list of species found in your last search Similarly you can always click on the Current species eee button to see the particular species that you are currently working with The mapping and specimen buttons work in the same fashion they will show you your current map and specimen respectively Checking your context If at any point you are not sure of what you are seeing or how you reached that point then you should click on the Where am I button This will pop up a window with a summary of your SIBIS status Currently Selected Species FABACEAE Aspalathus attenuata Search Criteria Taxon Threat Active Data Sources PRECIS Protea Atlas TSP CREW Acocks Molecular
45. s more threatened than selected status Specimen Results 686 species derived from the Specimen Results This will return the IUCN threatened species from the list of 686 species that were present in the selected area SIBIS Manual version 1 1 Aug 2009 merge Species Search Results Species Search Results 11 E AMARYLLIDACEAE Boophone disticha YU Plants AQUIFOLIACEAE llex mitis var mitis VU Plants Details ASTERACEAE Cineraria atriplicifolia VU Plants Details CELASTRACEAE Pterocelastrus rostratus VU Plants Details HYPOXIDACEAE Hypoxis hemerocallidea YU Plants Details MYRSINACEAE Rapanea melanophloeos VU Plants Details PROTEACEAE Protea nubigena CR Plants Details PROTEACEAE Protea roupelliae subsp hamiltonii CR Plants Details PROTEACEAE Protea subvestita VU Plants Details ROSACEAE Prunus africana VU Plants Details ZAMIACEAE Encephalartos ghellinckii VU Plants Details SIBIS Manual version 1 1 Aug 2009 38 Specimen results SIBIS SIBIS Home Specimen Search Results D Data Sources Statistics Feedback t Species Name t Date t aps t Category t Details Source ty Family Name Contact Details Species Search Species Results Current Species Interactive Map Specimen Results Current Specimen Search Options Where Am P national biodiversity institute S AN B Gardens KBG Plant DNA Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atlas Protea Atla
46. s will then be shown Taxonomic Name Status ts Current ls Not Current Not Specified Family Show List Genus Show Text Box Leucobarleria lt w Species Show List Leucocorne Subspecies Leucosphaera Variety Leucojum Other Leuconotis Leucampys Leucantherum Leuceria Leucoblepharis Common Nam eucomeris Language Leucopholis Name To remove the drop down list of options so that you can again type in the box click on the Show Text Box link By default SIBIS will find species names for both current species and synonyms in your search results If you want to omit the synonyms toggle the Name status options to Is Current Note that this does not affect the dropdown lists described above which always show all possible names Name Status Conversely if you want synonymous names select Is Not Current from the Name Status options Common Name criteria Common Name Language All Name Mouse Enter a common name or part of a common name In the search above species commonly called Woodland mouse as well as mouse barley will be returned Selecting a language from the drop down list will ensure that the results are restricted to only that language Because we do not have equal coverage of names in various languages not all are included in the drop down There may be entries in other languages but not enough at present to justify their
47. te Year 2009 l Month August O Use months only This will include results for all years but the results will be between the above selected months Click on the Search options button on the menu to reach the Search Options page This page allows you to set what data SIBIS will include for your session You can specify which broad categories of data to include by toggling the checkboxes below the Select the Categories to search in heading For more specific control over which databases you would like to include the checkboxes under the Select the Data Sources to use heading are also available You can also limit the specimen or observation records which will be listed and mapped to those collected within a particular period of time Under Select the Date Range to search in you can indicate a beginning and ending year and month if necessary For example to find only specimens collected since 1980 you could set the Begin Date Year to 1980 and the End Date Year to the current year If you are interested in information from all years but only for specimens collected between August and October you could select those months in the Begin Date Month and End Date Month dropdowns and then check the Use months only checkbox E Use months only This will include results for all years but the results will be between the above selected months SIBIS Manual version 1 1 Aug 2
48. ter But we are flattered by your enthusiasm Why do none of the specimens have latitude longitude or localities At present these are considered sensitive and only the quarter degree grid value is being made available I used SIBIS to generate a species list for an area know I never realised it was so diverse While it may indeed be mega diverse please be aware that the resolution of the data may lead to inaccurate results particularly at a small scale for instance using SIBIS to generate a species list for a team member s suburban garden indicates 768 species Given that most data is at QDS resolution all the species found in the overlaid QDS s will be included including the specimen records from the 1800 s unless you have filtered those out on the Search Options page These species may sadly no longer occur in the area Why has my current species changed Your current species dictates what you will see when you click on the Current Species button on the menu as well as which species distribution will be plotted on the Interactive Map and which specimens will be shown on the Specimen Results page It is important to Know how the current species is set You can set your current species in two different ways The most common is when you select a species from the Species Results list this will show you the details of that species and change your current species to that species SIBIS Manual version 1 1 Aug 2009 AG
49. tion is sensitive such as the precise locality details of species at risk of harvesting The public anonymous SIBIS user will not be able to see the precise coordinates or locality descriptions for specimens I ve noticed an error in SIBIS If you notice some information on the site which you know is wrong drop us an email or better yet email the owner of the record identified on the Data Sources page Hopefully the next time we load that data set the problem will have been resolved If you notice a bug in the code or if the site doesn t work properly please let us know at BIMhelp sanbi org In future versions of SIBIS logged in users may be able to add and review comments on the data displayed Why can I only search small areas on the map The search for all specimens within a particular area is quite time consuming to run We have made a judgment call on what is a reasonable area to be interested in and SIBIS Manual version 1 1 Aug 2009 44 limited the search accordingly If you think we ve miscalculated let us know why and perhaps we can find a way of expanding the searchable area But not the entire country please Why is mapping so slow Mapping may be slow because of bandwidth issues you might want to turn off the Google backdrop or some of the other layers or because of the browser you are using Internet Explorer 6 is particularly prone to this problem unfortunately since it cannot handle varyi
50. we don t show the precise localities of species though this may change in the future for non sensitive species SIBIS is a new product launched in June 2009 Please let us know if you have other requests or features that you think we should add Contact information is listed on the website SIBIS Manual version 1 1 Aug 2009 Background SIBIS was first conceptualised in 2005 A version of SIBIS based on that concept was available to SANBI staff from November 2008 this version included much detail from the PRECIS database but only two other data sources TSP and CREW For information about these databases please see the SIBIS Data Sources section of this manual Through the experience of launching this first version of SIBIS we decided to re architect SIBIS for public release SIBIS SANBI s Integrated Biodiversity Information System 2 version O 9xXxx Taxon gt Search gt Details Back to search results Login Here Cyrtanthus carneus Lindl Current name Red Status VU TSP Specimens Flora ie Flora Hab Common Names Growth Forms Threat Info synonymy 3 Taxonomy Growth form List of growth forms Geophyte v Growth form Occurrence Occurrence Details commonly v 1 Publications People Specimens Herbaria Regions TSP CREW Maps eet k 2 REPORT A BUG Threat List FP C SANBI 2006 All rights reserved Terms of use Help Notes Best viewed at 1024x768 with Internet
51. y will appear as you last entered them You can then modify them and search again or click on the Clear search button to start a new search Clear Search You can combine search criteria from the four main groups shown Taxonomic Common Name Threatened Status and Specimen Results For example to find threatened species within the Poaceae taxonomic family you could enter the appropriate details in Family and pick an IUCN CITES or NEMBA status as needed for your search There may be additional criteria which you would like to use to find species such as growth form flower colour or endemism Please let us know what you would like and it may be included in future versions of SIBIS SIBIS Manual version 1 1 Aug 2009 sA O Adjacent to each of the four main search groups is a checkbox which will indicate whether that group is being used in the current search You can manually turn criteria on and off by toggling these checkboxes The Search criteria on the Information panel will list the active criteria that you are using Taxonomic criteria C Taxonomic Name Status ls Current ls Not Current Not Specified Family show List Genus Show List Species Show List Subspecies Variety Other To search using taxonomic criteria enter the taxon name or part of the name in the appropriate text box For example to find all species in the Protea genus enter Protea in the Genus text
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