National Moth Week

Did you know that July 20-28, 2013 is National Moth Week?  You can take your love of the Notes from Nature CalBug moths beyond transcriptions by participating in moth observations in the natural world.  Check out details for participation here:  http://nationalmothweek.org/

A look at some Notes from Nature stats

The Notes from Nature project has been running for almost two months already and we are still just excited as the day we launched. The community has been great and we have received some amazing support and feedback from many of you. We are actively working to expand our collection coverage and hope to keep you all entertained through all the beautiful summer evenings ahead of us. With that said, we thought it would be a nice moment to take a look at some of the trends of our community. This serves a both a peek behind the curtains as well as a sort of snapshot that we can return to in the future to see what has changed and how we improve over time.

We had the idea for this post since the day we flipped the switch and made the site live. We all knew that the first hours of the project being live were going to get some of the heaviest traffic we would experience. We wanted to do a little analysis of how that traffic came and left the site, we collected a small set of data over the first five days of the project in order to look at this. First things first, take a look at global the Notes from Nature contributors were over just the first five days (click to see in interactive map)!

Next, we thought it would be fun to take a look at how the site accumulated new users over the time after launch,

We see the expected, early gains in user numbers followed by a slower accumulation later in the week. After the really early spike in transcriptions that came with all the users, we saw a nice continuous growth of total transcription activity through the week.

We thought it would be pretty neat to look at the transcriptions coming in at different times of day from our two primary regions, North America and Europe.

The above graph’s X axes is in EST, so you can see a nice rhythm to the Notes from Nature transcription. We really like this graph and will love to see it play out over the course of a year or more! We built the above graphs with D3 and CartoDB, if you click on them you can see each one and take a look at the code used to create them.

So how is Notes from Nature doing more recently? Well, in the first five days we had around 5000 unique participants. In the past two weeks we have had just over 3200. Not bad! Projects like Notes from Nature usually get a lot of members early that don’t end up sticking around, but we have done well to keep them or create new ones over the small time period. Our biggest audiences are still overwhelmingly in the USA and UK.

Right now, we are averaging 1400 classifications per day! As we improve the interface and add new and interesting components to the mission, we think we can see a growth in this number, but we are really happy with it so far. We have completely finished, including replicate transcriptions, 12% of our records in only two months! We will have more records in the future, but hopefully we will have a bigger community working with us too. We are closing in on 200,000 transcription, which is going to be an amazing achievement. Thanks to all of you who are helping us do something amazing for biodiversity research, museum informatics, and science!

Calbug’s Dragonfly Research

If you are working on Calbug transcriptions, you’ve probably seen some dragonflies and damselflies pop up.  So, I wanted to take the opportunity to let you know how I’m using data from these specimens in my Ph.D. research.

But first, why study dragonflies?  First of all, these charismatic aquatic insects have been well-collected over time, making them good subjects for studies of change in community composition and distribution. Dragonflies also have a range of known pollution tolerance-levels and are useful indicators of general habitat degradation for freshwater habitats. They may be particularly good indicators of biological effects of climate warming. Studies in Great Britain have shown that the ranges of many species have expanded, range boundaries have shifted northward, and first-flight days are occurring earlier as a result of climate warming since 1960. Many of these changes are occurring faster or are more pronounced than in other groups. For example, one study found that dragonflies in Britain have experienced range shifts averaging 88 kilometers (km) northward, compared to 53 km for butterflies. Overall, dragonflies tend to like warmer habitats, and their high dispersal ability may allow them to respond more quickly to climate warming. At the same time, some species, usually those specialized for stream habitat or certain types of wetlands, are experiencing significant range reductions.

Eight-spotted Skimmer, perching. Photo © Ray Bruun

Eight-spotted Skimmer, perching. Photo © Ray Bruun

California is an interesting place to study changes in aquatic insect communities, because this relatively dry region has experienced drastic changes in aquatic habitat over the past 100 years. For example, irrigation for agriculture across the previously dry Central Valley has created more permanent freshwater habitats throughout the summer. The state has also experienced a dam-building frenzy over the past 100 years… 1400 dams now block the flow of every major river and most minor ones across the state. This eliminates significant portions of flowing water habitats and increases the amount of lake-type habitat. The human population of California has also dramatically increased from around 2.7 million to 37 million people over the past century. So, water demand is high and landscapes are becoming more and more dominated by urban areas and agriculture. So, how are these changes influencing plants and animals?

My research addresses this question by focusing on dragonflies and damselflies, collectively known as Odonata or “odonates.”  In one study, I’m using the locality and date information for each specimen in our collections to compile species lists for different California counties and time periods. The goal is to identify changes in odonate communities—such as species richness and the percentage of habitat specialists versus generalists—from the species lists, and identify species that are expanding or contracting in distribution. Museum collections, however, have some problems with their data, as you probably are beginning to realize after participating in the data entry! One is that collecting effort varies for different regions and time periods based on the interest of collectors. We can try to correct for this using a combination of statistics and smart data selection. For example, some researchers have used a relatively new statistical method that incorporates the length of species lists for sites or regions as a measure of effort for that area. This assumes that regions with longer lists had higher effort (an assumption that often, but not always, holds true). In regions with short lists, you would expect to find more species than were actually present in the records. In particular, some species that are harder to find or are less common may occur in more regions than what is represented in the collection. After accounting for effort, the ultimate goal is to determine whether changes in landscape variables, such as temperature, precipitation and human population influence communities across regions.

I have also resurveyed sites originally sampled by C.H. Kennedy (a collector you may come across!) in 1914. While he left comprehensive lists of species collected at specific sites throughout California and Nevada, he did not indicate the dates that he visited each site in his notes!  So, I used information from the specimens to reconstruct specific dates that Kennedy sampled each site, and then visited the sites within a week or so of the original sample date. In preliminary work comparing his surveys to my own, I have found that communities are becoming more similar across sites—we are seeing a homogenization of dragonfly communities, which may reflect the spread of urban and agricultural landscapes.

Hopefully, this gives you a taste for how we might use some of this data. We will keep you posted on the results!  And, feel free to email me, at jball@berkeley.edu , for more information on this research.

– Joan Ball

Calbug fields and photos

Recent comments and questions in the discussion boards have drawn our attention to aspects of transcribing that were not clear. So, we changed a couple of things.

First, we removed the Host, Latitude and Longitude fields, because many of our labels do not contain this information.  Instead, we added an “Other Information” field where you can enter any information that is not included in the other fields. As explained in the help text, this includes things like the collecting method (e.g. malaise trap), collecting times, name of host plant, etc.  Previously, it was unclear whether you should enter locality information exactly as on the label or if you should interpret information, like abbreviations. Because many people are transcribing this highly-variable information, we would like you to enter the locality exactly as it says on the label. Otherwise, we will end up with multiple interpretations of the same locality. One exception is if there is an obvious misspelling that is not an abbreviation—it would be helpful if you use the correct spelling. Please keep looking up the country, state and county information if they are missing from the label. But, keep a lookout for locations with multiple potential counties, and do not enter a county if this is the case.

In the future we may call on you again to help us geographically reference (“georeference”) these localities. That is, determine the latitude and longitude of the localities and estimate the uncertainty around those points. It makes more sense to us to wait until we have completed the data entry so that we can group the records by locality and georeference each locality just once.

You may also have noticed that the photo quality for some of Calbug’s recent photographs is not very good. That’s because when Calbug started, we used different methods for photographing and a different type of camera. Don’t worry, the bad photos will be increasingly rare in the future.  To get an inside look at how we are taking photos now, check out this instructional video that we made last year for students and staff imaging our insect specimens.

-Joan Ball

What happened to the transcription progress?

One of the questions we have been grappling with at Notes from Nature is how to add more specimen images to the application while still showing a clear path of overall transcription progress.  On the one hand, we have many more specimen images lined up from both CalBug and SERNEC, and need to keep expanding the pool of interesting and scientifically important collections being transcribed.  On the other hand, we don’t want Notes from Nature citizen science transcribers to become frustrated by a seemingly bottomless pool and confused by constantly increasing and decreasing progress bars.  In attempting to address this challenge, we’re going to do some small tests.  We’ve added some new specimen in recent days, and would like to hear what you think about these additions.  Among the new additions, we have about 74,000 new bugs, including many bombardier beetles, dragonflies, and damselflies, as well as about 13,500 new plant specimen.  Do you like that we’ve added these new specimen images?  Were you worried by the drop in transcription percentages?  Should we work to complete “missions” with smaller subsets before adding more content?  Whatever the case, check out the new specimen on Notes from Nature!”

What collections would you like to see?

We hope that you’ve been enjoying the variety of collections in Notes from Nature so far.  If you’ve followed recent conversations, you’ll know that we have plans to add much, much more.  There are billions of possible specimens that could be transcribed through this project.  If you have manage a collection, please get in touch with us to express your interest.  If you are a citizen scientist with a favorite local collection, please share the Notes from Nature project with collection managers and encourage them to reach out to us.

A great way of advancing this discussion would be via the Notes from Nature Talk section here:  http://talk.notesfromnature.org/#/boards/BNN0000005

Are you a teacher?

If you are a teacher, and you love Notes from Nature and other Zooniverse projects, now is a great time for you to get more involved.  Zooniverse is offering a Teacher Ambassadors Workshop on August 8-9, 2013, in Chicago, IL at the Adler Planetarium.  This is a fully-funded opportunity to learn more about how Zooniverse works and how to integrate materials into teaching curriculum.  Apply now!

http://education.zooniverse.org/2013/05/23/zooniverse-teacher-ambassadors-workshop/

“What’s in bloom?”

Have you enjoyed contributing to scientific research by transcribing plant specimen labels in Notes from Nature?  If you like this, you may also be interested in the UVA Mountain Lake Biological Station’s “What’s in bloom” volunteer, citizen science wildflower bloom monitoring project.  You can find out details about it here:  http://mlbs.org/whatsinbloom .  This is another great opportunity to contribute to science, interact with researchers, and enjoy nature.

Tending Our Notes from Nature Garden

Sometimes in the shuffle of getting things done, we forget to explain the simplest things.   For example, where do all these images come from?  Are there more to do when these are done?   What the heck is a CalBug or a SERNEC?

So lets answer some of these questions as best we can.  As we mentioned in the “About” section of Notes from Nature, CalBug and SERNEC are both regional consortia of natural history collections — CalBug focused on western North American (predominately) insects and SERNEC on southeastern United States plant specimens.

Lets turn to the SERNEC records first.  Right now the following herbaria  (or single plant collection) are featured on the site:  The R. K. Godfrey Herbarium at Florida State University, with 8,368 specimen images available and the Mountain Lake Biological Station Herbarium at the University of Virginia with 6,990 specimen images.  Soon we plan to load a third collection of 13,511 images from the herbarium at the University of South Alabama.   This represents a small proportion of the millions of specimens found in southeastern United States herbaria, so there is still a LOT of work to do here.

CalBug has about 230,000 images already taken,of which ~33,000 have been already made available via Notes from Nature, with another 28,000 to be added shortly.  These mostly come from the Essig Entomology Museum at U.C. Berkeley but also from U.C. Riverside and the California Academy of Sciences.  CalBug will also be adding more images in the future.   The ones there now represent a select group of insect taxa including: bombardier beetles  (genus = ‘Brachinus’ or genus = ‘Metrius’), cuckoo wasps (family = ‘Chrysididae’), odonates or dragon flies,  (order = ‘Odonata’), skippers (family = ‘Hesperiidae’), and tiger beetles (genus = ‘Cicindela’ or genus = ‘Omus’ or genus =’Amblycheila’).

Profile of Notes from Nature Citizen Scientist: “jaymoore”

Name: Jonathan Moore (user jaymoore)

Country of residence: UK

What sort of science background or interest do you have? I work in scientific research using Bioinformatics looking at plant, microbe and human gene expression. I’m particularly interested in the herbarium records, as I’ve used the Kew Gardens herbarium in the past and found it a fascinating place.

What do you find most exciting about Notes from Nature? I love reading the careful notes and imagining the collector in the middle of nowhere, in the sun or rain, finding their plant and taking their samples and data.

What’s the most exciting aspect of citizen science work from your point-of-view? I think it’s great that the work of people over the years is being brought into the digital age, so the data can be analysed using modern methods, and I think it’s exciting that people are getting exposed to these different kinds of data sets. It’s exciting to be part of new discovery!

What other citizen science projects (including beyond Zooniverse) have you participated in? I did quite a lot of the exoplanet scoring in Zooniverse, and enjoyed that as a rather addictive game. I was one of the participants among those who spotted 4 exoplanets, and enjoyed that experience. I completed a few of the ship’s weather log records and I’ve also participated in a Kaggle data mining competition so far and came 177th. I’m working on getting a citizen science project off the ground into exploring gene expression.