Sir Joseph Banks, Born 24 February 1743 was a collector of natural history specimens. He was an avid botanist and his collection included a significant collection of insects. Continue reading “Bringing Joseph Banks into the 21st Century | Digital Collection Programme”
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 “Sequencing genomes with the Museum’s Frozen Collection | Digital Collections Programme”
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.
October 23 – 29, 2017 is International Open Access Week and on this tenth anniversary of the event, institutions have been asked to discuss the benefits of making data openly accessible.
Earlier this year, the Natural History Museum signed the International Open Data Accord stating that the Museum recognises the opportunities and challenges of the data revolution and adopts a set of internationally recognised principles support open access to our data. Continue reading “Open Access Week 2017 | Digital Collections Programme”
On the 19-22 October, the Museum will be running a digital volunteering event in collaboration with the third annual WeDigBio event. WeDigBio is a four day event that engages global participants online and on-site in digitising natural history collections. Continue reading “We need your help to set our collections data free! |Digital Collections Programme”
Today many people, both children and adults, dread going to the dentist. Whether it’s the odd smells, the gritty taste of the polishing paste, or the fear of being told you need a root canal, most people find it to be an unpleasant experience. For me, however, as an Anthropologist who has seen just how bad dental health can be, I look forward to my dentist visits! It only takes looking at the teeth of people from the past to make me brush my teeth and floss everyday.
A growing number of museums are joining open data initiatives to publish their collection databases and digital reproductions online. The Museum has operated a policy of open by-default on our digital scientific collections.
By signing the International Open Data Accord, the Museum recognises the opportunities and challenges of the data revolution and adopts a set of internationally recognised principles as our response to these.
Natural history collections provide an enormous evidence base for scientific research on the natural world. We are working to digitise our collection and provide global, open access to this data via our Data Portal.
To digitise the collection we are developing digital capture flows that cater for a wide range of collection types. One of the applications we have developed is Inselect – a cross-platform, open source desktop PC application that automates the cropping of individual images of specimens from whole-drawer scans.
The micropalaeontology team attended the annual conference of The Micropalaeontological Society in Lille last week. My wife thinks that conferences are just an excuse for drinking, but I keep telling her that this is only partly true.
Read on to find out what we were doing in Lille, besides drinking Belgian beer of course! Continue reading “What do scientists do at conferences? | Curator of Micropalaeontology”
Are the bacteria found on our UK buildings dangerous and what impact do they have? In this the third and final podcast in our series interviewing Dr Anne Jungblut, the lead researcher of our citizen science project The Microverse, we find out about the initial results of the project.
In the podcast questions posed by participating students from The Long Eaton School, Nottingham, and Prospect School, Reading, are presented to Anne.
Produced by Olivia Philipps and Caroline Steel. With thanks to Long Eaton School and Prospect School for contributing questions. And thanks to Helen Steel for reading the questions on their behalf.