News 

last updated: 04.04.2019
  • New BacDive Release

    A new BacDive release is online since April 2019 comprising new data content and new features
    Compared to the major update in 2018, the overall data content has increased by 26 %. Currently we offer metadata on 80,584 strains, including 13,498 type strains.
     

    BacDive Section Release 09/2017 Release 07/2018  Release 04/2019  2017-2018 increase
    Name and taxonomic classification* 111,832 156,229 208,353 33%
    Morphology and physiology* 126,992 228,761 295,040 29%
    Culture and growth conditions* 77,471 119,126 125,775 6%
    Isolation, sampling and environmental information* 25,509 77,883 136,791 76%
    Application and interaction* 18,863 19,111 19,111 0%
    Molecular biology* 23,349 30,475 34,578 13%
    Strain availability* 68,853 81,373 81,373 0%
     overall entries* 452,869 712,958 901,021 26%
    *) Denotes the distinct combination of strain, reference, data entry

    Data for 19,505 strains were imported from the Swedish Culture Collection University of Gothenburg (CCUG). Moreover, manually annotated data from 756 IJSEM species descriptions were integrated, giving a total of  6224 data sets with species description data.  Over 1500 pictures were imported  from the internal files of the DSMZ showing e.g. colony morphology on agar plates or sporulation.

    DSM 20300 Corynebacterium glutamicum
    DSM 20300

    DSM 14716 Cystobacter ferrugineus
    DSM 14716

  • Publication out now

    The latest Publication on BacDive is now available.

    BacDive in 2019: bacterial phenotypic data for High-throughput biodiversity analysis
    Reimer, L. C., Vetcininova, A., Sardà Carbasse, J., Söhngen, C., Gleim, D., Ebeling, C., Overmann, J.
    Nucleic Acids Research; database issue 2019.

    Please cite BacDive and results obtained by the use of the BacDive database.
  • New BacDive Release

    A new BacDive release is online since July 2018 comprising new data content and new features
    Compared to the major update in 2017, the overall data content has increased by 146 %. Currently we offer metadata on 63,669 strains.
     

    BacDive Section Release 09/2017  Release 01/2018 Release 07/2018  2017-2018 increase
    Name and taxonomic classification* 111,832 154,264  156,229 51 %
    Morphology and physiology* 126,992 198,091 228,761 485 %
    Culture and growth conditions* 77,471 117,181 119,126 391 %
    Isolation, sampling and environmental information* 25,509 35,840 77,883 247 %
    Application and interaction* 18,863 18,855 19,111 22 %
    Molecular biology* 23,349 28,279 30,475 76 %
    Strain availability* 68,853 80,600 81,373 22 %
     overall entries* 452,869 633,110 712,958 146 %
    *) Denotes the distinct combination of strain, reference, data entry

    New Microbial Isolation Source tags were introduced that describe the original isolation source entry with terms from a controlled vocabulary and make them systematically searchable. Additionally, a map was implemented, that displays the source of isolation, either based on geographic coordinates (if available) or on country data.
    Isolation source

    To make strains with microbial isolation source tags searchable, the Microbial Isolation Source Search was develeoped. This tool enables the search for multiple isolation source tag combinations and allows to filter the result by additional fields like species name, country or the original isolation source entry.
    Microbial Isolation Source Search
  • New BacDive Release

    A new BacDive release is online since January 2018 comprising new data content.
    The overall data content has increased by 40 %. Currently we offer metadata on 62,683 strains.
     

    BacDive Section Release 09/2015  Release 09/2016  Release 09/2017  Release 01/2018  2017-2018 increase
    Name and taxonomic classification* 106,952 108,226  111,832 154,264 38%
    Morphology and physiology* 39,087 54,129 126,992 198,091 56%
    Culture and growth conditions* 24,280 58,206 77,471 117,181 51%
    Isolation, sampling and environmental information* 22,448 23,077 25,509 35,840 40%
    Application and interaction* 15,680 15,873 18,863 18,855 0%
    Molecular biology* 17,668 20,029 23,349 28,279 21%
    Strain availability* 66,832
    68,798 68,853 80,600 17%
     overall entries* 292,947 373,628 452,869 633,110 40%
    *) Denotes the distinct combination of strain, reference, data entry

    The increase in data content originates from two new data sources:
    New data field fatty acid data: BacDive now also offers fatty acid data for 161 strains, searchable in the advanced search.




  • New BacDive Major Release

    The new BacDive major release is online since September 2017 with some new features and new data content.
    The overall data content has increased by 30 %. Currently we offer metadata on 56,420 strains.
     

    BacDive Section
     Release 09/2013
    Release 09/2014 Release 09/2015  Release 09/2016  Release 09/2017  2016-2017 increase
    Name and taxonomic classification* 23,458 104,922 106,952 108,226  111,832 3%
    Morphology and physiology* 11,521 23,928 39,087 54,129 126,992 135%
    Culture and growth conditions* 21,605 23,696 24,280 58,206 77,471 33%
    Isolation, sampling and environmental information* 20,769 21,873 22,448 23,077 25,509 11%
    Application and interaction* 14,639 15,637 15,680 15,873 18,863 19%
    Molecular biology* 14,591 16,168 17,668 20,029 23,349 17%
    Strain availability* 18,459 62,888 66,832
    68,798 68,853 0.1%
     overall entries* 125,042 269,112 292,947 373,628 452,869 30%
    *) Denotes the distinct combination of strain, reference, data entry


    Besides the increase of data content, we offer some new features in the BacDive Webportal:

    API test finder:
    API-test finderThe API test finder is a new tool to find matching API tests within the database.

    Antibiotic susceptibility tests 
    Antibiotic susceptibility test
    Data on antibiotic susceptibility tests is now available. Inhibition zone diameters can be queried via the advanced search.
    Digital Object identifier (DOI) and PDF archiving system 
    DOI/PDF archive
    The PDF archive for each strain and the according DOIs can be found under "PDF archive" in the strain detail view (upper right corner).

  • Video tutorials online

    BacDive now offers short video tutorials on the usage of the BacDive GUI. These tutorials deal with the topics "basic functions", "advanced search" and "export functions" and can be found in the tutorial section.

  • New BacDive Minor Release

    The new BacDive minor release is online since February 2017. This update includes some smaller database changes and additional data content, including extracted data from 523 initial strain descriptions published in the International Journal of Systematic and Evolutionary Microbiology (IJSEM). This data set comprises predominantly data on the morphology and physiology of strains and in consequence the data content of this section has increased by 74 %.  Due to optimization of data structures the content for Culture and growth conditions has slightly decreased. Overall the data content has increased by 11 % and BacDive now offers metadata on 55.687 strains.
     

    BacDive Section
     Release 09/2013
    Release 09/2014 Release 09/2015  Release 09/2016  Release 02/2017  2016-2017 increase
    Name and taxonomic classification* 23,458 104,922 106,952 108,226  110,385 2%
    Morphology and physiology* 11,521 23,928 39,087 54,129 94,158 74%
    Culture and growth conditions* 21,605 23,696 24,280 83,496 74,024 -11%
    Isolation, sampling and environmental information* 20,769 21,873 22,448 23,077 24,648 7%
    Application and interaction* 14,639 15,637 15,680 15,873 18,766 18%
    Molecular biology* 14,591 16,168 17,668 20,029 22,565 13%
    Strain availability* 18,459 62,888 66,832
    68,798 68,991 0.3%
     overall entries* 125,042 269,112 292,947 373,628 413,537 11%
    *) Denotes the distinct combination of strain, reference, data entry


  • Downtime due to server maintenance at 10./11.12

    Due to a server maintenance, BacDive will be temporarily unavailable during the 10./11.12.
  • User satisfaction survey

    BacDive is a part of the German Network for Bioinformatics Infrastructure de.NBI.

    de.NBI-logo  

    To evaluate and improve the quality of our service we need your feedback.
    Please help us by participating in this short survey.

  • Training for the use of BacDive on 2nd of November 2016

    In the course of the de.NBI training sessions there will be a training for the database BacDive. The training comprises an introduction, a detailed presentation of the utilization possibilities and comprehensive exercises. Please find detailed information in this flyer or at the de.NBI page.
    The training is free of charge. However the participants have to cover their travelling and hotel expenses. The application is open to all though de.NBI members will be preferred.

    Location:               
    DSMZ-Building at the HZI-Campus Braunschweig
    Inhoffenstraße 7B  38124 Braunschweig

    Date:          
    2. November 2016, 10 a.m. to 4 p.m.

    Please register at training@bacdive.de


  • New BacDive Major Release

    The new BacDive major release is online since September 2016 with a refurbished Webportal and some new features. Additionally the data content has increased by 23%. Currently we offer metadata on 54,610 strains.
     

    BacDive Section
     Release 09/2013
    Release 09/2014 Release 09/2015  Release 09/2016  2015-2016 increase
    Name and taxonomic classification* 23,458 104,922 106,952 108,226  4%
    Morphology and physiology* 11,521 23,928 39,087 54,129 28%
    Culture and growth conditions* 21,605 23,696 24,280 83,496 71%
    Isolation, sampling and environmental information* 20,769 21,873 22,448 23,077 3%
    Application and interaction* 14,639 15,637 15,680 15,873 1%
    Molecular biology* 14,591 16,168 17,668 20,029 13%
    Strain availability* 18,459 62,888 66,832
    68,798 3%
    ? overall entries* 125,042 269,112 292,947 373,628 23%
    *) Denotes the distinct combination of strain, reference, data entry

    Besides the increase of data content, we offer some new features in the BacDive Webportal:

    TAXplorer:

    TAXplorer »
    The TAXplorer offers the opportunity to filter all available strains by their taxonomic classification. Thereby you are able to browse through taxonomy and narrow down the list until you received the desired strain(s).
    API-test data

    API-test data
    » The section morphology and physiology offers a substantially increased amount of API-test data, that can be viewed by clicking the expand button.
    Custom CSV export: