In collaboration with the NGO Ecotourism and Conservation Society Malaysia (ECOMY) we have begun a new digitisation project to digitise the Museum’s collections that occur in Malaysia and its surrounding regions. Continue reading
The Digital Collections Programme has completed four crowdsourcing projects in 2017. We wanted to say a massive thank-you to the 2,000+ volunteers who together have helped us to capture data from over 15,000 specimens this year. You have made a significant contribution to Science.
We can digitally image individual microscope slides at a rate of up to 1000 slides per day, but we still need help with capturing the label information on each slide. Transcription is an essential part of our digitisation process.
To commemorate the Wellcome Trust Sanger Institute turning 25 in 2018, the Institute and its collaborators are sequencing 25 new genomes of species that reside in the UK and represent the richness of species in this country. Continue reading
For Explore Your Archive Week Jordan Risebury-Crisp, Internal Communications Officer at the Museum, recalls how the Hintze Hall redevelopment prompted his own adventure in to the Museum’s past.
The Museum has seen a number of changes in the last few years. In 2015 it was announced that the much beloved and iconic Diplodocus cast, affectionately called Dippy, was to be removed from his position in the Museum’s Hintze Hall where he had stood proudly on display, greeting visitors as they arrived at the Museum for over four decades.
Following Dippy’s departure the entire hall would then undergo a multi-million pound transformation, involving renovation, re-imagining of displays and bringing our Museum into the 21st century; a tough feat to accomplish considering the hall has been open to the public from 1881.
The Arctic is warming at rates more than twice the global average, and much larger changes are projected for high northern latitudes by the end of this century. In our project we study freshwater microbiology to identify sentinel microbiome properties of northern freshwater environments that can be used to improve surveillance of Arctic ecosystem health in the face of these increasing climate perturbations. The project is funded by funded by a UK-Canadian partnership bursary and in collaboration with researchers from Laval University and Centre for Northern Studies (CEN) – and is part of Sentinel North.
Of particular importance are cyanobacteria, also known as blue-green algae, as they are keystone primary producers, contributors of bioavailable nitrogen, drivers of food webs and carbon cycling in Arctic freshwater ecosystems. However, little is known about their biodiversity in the Canadian Arctic. I therefore, visited Canada this August to carry out field work and collect samples from freshwater environments such as lakes, ponds and streams to carry out DNA sequencing analysis of the freshwater microbiology.
The final batch of data from the iCollections project has now been released through the Museum’s Data Portal – a total of 260,000 Lepidoptera specimen records, bringing the total number of Museum specimen records accessible on the Portal to just over 3.8 million.
What was iCollections?
In 2013 the Museum started to look at the best way to digitise Butterflies and Moths from the UK and Ireland, a collection estimated at half a million specimens. This was a pilot project to develop quick and efficient ways to digitise large Museum collections.
During the pilot project we trialled and adapted methods of image capture to suit the specimens, giving us an efficient workflow which can be used to digitise wider pinned insect collections. We place each specimen in a specially designed unit tray, with raised sides where we position the specimen’s labels and add a barcode encoded with the unique specimen number. We place each tray in a light box under a DSLR camera to capture an image containing the majority of specimen data. These images are ingested into a bespoke database, which allows species name and location (within the collection) to be added to the file. The database transcription interface lets us add additional data from labels.
During the iCollections project, we became much more efficient with the time taken to photograph a single specimen, whilst ensuring that the damage to these precious specimens from handling is kept to a minimum. We digitised the entire butterfly collection of over 180,000 specimens and made a significant start on the moths by digitising over 260,000 specimens.
In 2016 we secured further funding to carry on the digitisation of the British and Irish moths with our refined workflow. Once this has been completed, further data will be released on the Data Portal. When complete we will have just over half a million Lepidoptera specimens accessible to anyone in the world with an internet connection. This enhances access to our collection, which traditionally will have been via visits or specimen loans. In some cases the researcher may only require a digital specimen, or the digital records could help a researcher narrow down the scope of what they may want to study on a visit to the museum.
iCollections enabled us to come up with an efficient and bespoke workflow for pinned insects which we have been able to re-use. We have published a paper on the iCollections method, to share this with the natural history community. We have also used the learning from iCollections to start new projects, such as our current project to digitise Madagascan Lepidoptera type specimens.
Why Butterflies and Moths?
The British Lepidoptera collection contains over half a million pinned specimens collected in the UK and Ireland spanning over 200 years. It includes donations from important collectors of the twentieth and twenty-first centuries. As we digitise the Lepidoptera collections we are georeferencing each record, mapping the distribution of species and revealing collecting trends since the mid-nineteenth century.
By providing access to this unrivalled historical, taxonomic and geographical data we can equip more scientists to conduct new research in new ways. For example, Museum scientists, Steve Brooks et al. have been able to compare butterfly data to historical temperature records and found that 92% of the 51 species emerged earlier in years with higher spring temperatures.
‘The warming climate is already causing butterflies to emerge earlier – and unless their food plants adapt at the same rate, the insects could emerge too early to survive.’ (S.Brooks et al., 2016)
When it comes to digitising Lepidoptera, our digitisers can now process up to 300 a day. They get to see and interact with the specimens up close and become extremely fast with a pair of forceps! Our digitiser Peter Wing told us “My favourite image to digitise was a Monarch Butterfly that was pinned with a sewing needle.” While digitising, we uncover some fascinating stories behind the collection. We have been sharing some of these enlightening moments by using #MothMonday on twitter.
Who’s using our data?
We are on a mission to digitise the Museum collection of 80 million specimens. We want to make available our unrivalled historical, geographic and taxonomic specimen data gathered in the last 250 years available to the global scientific community. These data, along with associated specimen images are released through the Museum’s Data Portal.
Through the Data Portal and those of our partners like the Global Biodiversity Information Facility (GBIF), more than 5.9 billion records have been accessed in over 115,500 downloads since April 2015. Through GBIF we are also able to see which scientists are using our data as part of their papers and through Altmetric how many people are talking about our data online. So far we have been cited in 44 papers and referenced over 100 times online.
The Data Portal currently has around 200 non-museum users each day and contains more than 700,000 species-level (index lot) records and over 90 research datasets uploaded by NHM staff and other institutions. This includes 3D scans, images and audio recordings as well as more traditional data.
Critical information is currently locked away within hundreds of millions of specimens, labels and archives in collections across the globe. Our ultimate goal is to unlock this treasure trove of information so that scientists, researchers and data analysts from around the world can use this information to tackle some of the big questions of our time.
To make use of the Museum’s iCollections data please visit the Data Portal To hear more stories behind the Lepidoptera collection you can follow our #MothMonday content on twitter or keep up to date with the Museum’s digitisation projects on the website.