At Global Plant Council we want to help researchers with their writing skills while gaining some well-deserved visibility among plant science peers. We will provide with a platform (this website!) to publish online your own communications and dissemination texts.
This week we spoke with Professor Edith Taleisnik about her new book, ‘…¡y nos fuimos por las ramas!’ (‘we went along the branches’), an in-depth look at the history of plant physiology research in Argentina. (Edith previously described the activities and vision of the Argentinean Society of Plant Physiology (SAFV) on the blog – read it here).
Edith, you have put a huge amount of work into uncovering the history of plant physiology research in Argentina. Why did you decide to do it and how did you undertake this challenge?
The current president of the SAFV, Pedro Sansberro, asked Alberto Golberg and myself if we would be willing to document the history of the society. Unaware of the tremendous task ahead, we agreed.
The information was scattered, so the first thing we did was try to collect as many SAFV conference books as possible. Sending requests through the SAFV mailing did not work, so it was essentially through personal contacts that we were able to put together the whole collection of conference books. It is now deposited in the library of CIAP (Centro de Investigaciones Agropecuarias – contact: firstname.lastname@example.org). People also sent the minutes of past meetings and pictures.
Initially we were only going to analyze the conference books and interview some plant scientists that were among the first disciples of the “founding fathers” of Argentinian experimental plant biology, but as we worked, our book grew and diversified.
What was the most interesting thing you discovered while writing the book?
It’s hard to narrow down which discovery was most exciting!
Victorio Trippi, one of the disciples of the “founding fathers”, told us that many researchers initially published in the journal Phyton, which was founded in Argentina in 1951. Our inspection of the archives of this publication yielded a lot of valuable information, and was an enlightening experience. We traced great names in Argentine plant science to the very beginning of their careers, looking at their topics of interest, how they moved from one job to another, and who their co-authors were. Even earlier than this though, we managed to trace the first mention of plant hormones in Argentina to a paper written by Guillermo Covas in 1939.
Writing the book was rewarding too, because we realized that plant physiology research has steadily grown in Argentina, judging by the participation in the conferences and the amount of research groups all over the country. It was very good to reveal the significant contributions that Argentine experimental plant science has made to many topics, such as photobiology, crop ecophysiology, germination physiology, senescence, mineral nutrition and carbohydrate metabolism, among others.
Why did you decide to include essays from the many groups researching plant physiology in Argentina?
We included them to reflect how much plant physiology has grown and diversified in Argentina. In the book we also invite those that did not have a chance to join this edition to contribute to a future one.
What words of wisdom did the researchers who were interviewed want to share with early career researchers for the future?
Most of them emphasized the need for team work, with people from different background joining forces to tackle a specific problem. The SAFV, they point out, has provided a friendly environment that has promoted collaboration and exchange of ideas among its members, and they hope this spirit will persist. They are moderately optimistic about the future, underscoring the need for new research paradigms both in the public and private sectors.
Carlos Ballaré underscored the human aspect of the history of the SAFV in his description of your book, printed on the cover. Could you elaborate on this?
Carlos meant that the book includes personal accounts from the people that have devoted their professional lives to plant physiology and ecophysiology, anecdotes of how the research groups developed and grew, and tales of how researchers replaced the lack of equipment with clever ideas. He highlights that the book has an emphasis on human endeavor, rather than being just a review of numbers, places, and dates.
Beyond the analysis of numbers and growth, the book reveals how early researchers worked on problems that largely sprang from their environment, attempting to understand the causes of issues that had an impact on crop productivity. Thus, those in Tucumán initially worked on sugar cane, those in Mendoza researched grapevines, and the focus in Buenos Aires was potatoes. As groups grew and diversified, this initial link was often blurred; young researchers joining ongoing work never realized what the initial question had been.
In a country where agricultural products or their derivatives still make a significant contribution to GDP, it is sensible to resume the link to local agricultural problems. For this task, it will be essential to adopt a systemic collaborative approach.
To find out more about the book, read our recent news article here.
The book was edited by the SAFV . Printed copies can be purchased by request – please write to Lilian Ayala.
By Scott Edmunds, Executive Editor, GigaScience Journal
‘Big Data’ is becoming increasingly ubiquitous in our lives, and we at GigaScience are big fans of approaches democratizing its utility through crowdfunding and crowdsourcing. With much mistrust and fear of genetic technologies there is also a huge need to educate and throw light on “what goes on under the hood” during the process of genomic sequencing and research.
After helping promote community genome and microbiome projects such as the Puerto Rican “peoples parrot”, Azolla Genome, Kittybiome, and the community cactus (previously highlighted in the Global Plant Council Blog), the team at GigaScience has finally decided to launch our own.
Inspired by our Hong Kong home, this month we’ve launched an exciting new crowdfunding project to help learn about the enigmatic biological and genetic history of the beautiful symbol of Hong Kong: the Bauhinia flower.
Hong Kong’s emblem is the beautiful flower of the Hong Kong Orchid Tree Bauhinia x blakeana: it is mysterious in origin, and lovely along the roadside and in any garden. Being used as a food crop in India and Nepal, Bauhinias are actually a legume rather than an orchid, and while a transcriptome has been sequenced as part of the 1KP project (Bauhinia tomentosa) no species of the genus has yet had its genome sequenced.
A Brief History of Bauhinia blakeana
It was first discovered in the 1880’s by the famous horticulturist Father Jean-Marie Delavey
growing on a remote mountainside in Hong Kong, but how it got there is a mystery – especially since it is sterile. The missionary collector subsequently propagated it in the grounds of the nearby Pokfulam Sanatorium, and from there it was introduced to the Hong Kong Botanic Gardens and across the world. Originally described as a new species in 1908, it was subsequently named after the Hong Kong governor Sir Henry Blake, who had a strong interest in botany. We have an opportunity to get a glimpse into this fascinating history by carrying out a crowdfunding project to determine its entire genetic make up.
In addition, it’s a project we are trying to get everyone involved in: from gardeners to botanists, historians to photographers, university researchers to school children – really, anyone interested in being a part of Hong Kong’s First Emblematic Genome Project and understanding the biological secrets of this unique flower.
Plant Genomics for the Masses
Teaming up with BGI Hong Kong and scientists at the Chinese University of Hong Kong, this new crowdfunding project will use one of the best techniques to help uncover the secrets of any living being: genomic sequencing. While the cost of sequencing has crashed a million fold since the human genome project, plant genomes are still challenging. While Bauhinia have a relatively small genome (0.6C), being a hybrid means it will be very challenging to assemble using current short-read technologies. To get around this we are having to sequence the two likely parents first, pushing the reagent costs that we need to cover through crowdfunding up to about $10,000. Studies using individual genetic markers have shown that the species is likely a hybrid of two local species, Bauhinia variegata and Bauhinia purpurea, but this has yet to be confirmed at a genomic scale.
Genome sequencing is also one of the key technologies defining the 21st century, and a field in which Hong Kong has made major advances (for example in BGI Hong Kong’s giant sequencing capacity, as well circulating DNA diagnostics), though more effort is needed to engage and inform the general public.
Through sequencing the genome of our emblem to better understand where it came from; this will help to train local students to assemble and analyze the data – crucial skills needed for this field to advance; and engage and educate the public through local pride. Outreach and awareness-building is key, and we have already managed to get plant genomics and Bauhinia onto the front cover of the SCMP Sunday Magazine and on Hong Kong radio.
You can also access the YouKu version of the above video here.
The project seeks a variety of things from the community: at its most basic level, help in the form of donations can be provided at the project’s website. As a community project no contribution is too small, so please contribute via the crowdfunding page.
Furthermore, we’ll be carrying out community engagement and citizen science in the form of Bauhinia Watch, where people in the community can inform researchers about sightings of the flower and its relatives, and look for the hypothesized very rare individual plants that may produce seeds. Photographs along with location information are especially desired, and can be shared with the global community on social media (use the #BauhiniaWatch hashtag).
Also, getting involved in educating the community is key. The project’s website, in addition to explaining the science behind the project, provides information for identifying the different Bauhinia species, which can be fun for curiosity driven individuals of any age. Now is the time! Bauhinia blakeana is in peak flowering season in Hong Kong from November to March.
Moreover, this is a great opportunity for creating school projects, to learn about botany, evolution, the latest scientific technologies, and to participate in the research or carry out fundraising to join the Bauhinia community.
This will be the first Hong Kong genome project: funded by the public; sequenced in Hong Kong; assembled and analyzed by local students; and directly shared with the community.
Being Open Data advocates, all data produced will immediately be shared with our GigaDB platform, and all methods, analyses and teaching materials will be captured and made open to empower others to carry out similar efforts around the world.
Bauhinia Genome welcomes contributions and interest from across the globe, hoping this serves as a model to inspire and inform other national genome projects, and aid the development of crucial genomic literacy and skills across the globe; inspiring and training a new generation of scientists to use these tools to tackle the biggest threats to mankind: climate change, disease and food security. We have already collected enough money to fund the transcriptome, and the next goal is to get enough funds to start sequencing the genomes of the family members. To enable us to do this support us through our crowdfunding site, like us on Facebook or twitter, and help spread the word.
For more information and to support the project visit the website and crowdfunding page. follow us on Twitter @BauhiniaGenome, or on Facebook, and include the hashtag #BauhiniaWatch for any news or pictures you’d like to share on social media.
Ruth and I recently flew out to Minneapolis, Minnesota, USA, to attend the American Society of Plant Biologists’ (ASPB) annual conference, Plant Biology 2015.
Ruth did a sterling job of live-tweeting the scientific sessions she attended. She also spent some time stationed at the ASPB booth to talk to people about the Global Plant Council (GPC), as well as a big project we’re helping to bring to life: Plantae.org. I’ll talk more about what I did at the conference later… But first, what is Plantae.org?
The Evolution of Plantae.org
Some time ago, here at the GPC, we thought it would be a great idea if there was one, online location where plant scientists and teachers could go to look for and share new ideas, tools and resources for research and education. We tentatively called it the ‘Plant Knowledge Hub’, and set about looking for people or organizations that might be able to help us make it a reality.
In doing so, we discovered that the ASPB was interested in creating a kind of community networking and collaboration platform, for which they had the working title ‘Plant Science Exchange’. Joining forces, we decided to combine the two ideas into one big portal, now called ‘Plantae’. Extending beyond the ASPB membership, Plantae will be for plant scientists and educators all over the world. We hope it will become the leading plant science resource hub and community gathering place.
At this point, I should also mention the Society for Experimental Biology (SEB), without whose help the GPC would not have been able to move forward with this project. The SEB generously provided enough funding for my post! I joined the GPC in February as the Outreach & Communications Manager, so as well as looking after the GPC’s internal and external communications and helping to spread the word about the work of the GPC, one of my main duties is to identify and curate tools, resources and plant science information to upload to Plantae.
I’ve made a few simple websites in the past, but nothing as complicated as an entire ‘digital ecosystem’ so taking the ‘Plant Science Knowledge Exchange Hub’ from an idea to the reality of Plantae.org was going to be a mammoth task. Fortunately we have had a lot of help!
Susan Cato, the ASPB’s Director of Member Services and Digital Marketing, and her team, have been doing a stellar job of pulling different stakeholder groups together to build and develop the Plantae platform. As well as a group of web architects to build the portal’s infrastructure, an agency called LookThink has been involved, with the unenviable task of optimizing the user experience. It’s no mean feat to take our ideas about what the platform should do, and the practicalities of how it can be built, to ensure that the final online product actually does what users want and need it to do in an intuitive, user-friendly way!
Ultimately, Plantae.org will have features such as Facebook or LinkedIn-style user profiles and groups, with the ability to ‘connect’, interact and send private messages. It will have public and private discussion boards where scientists can collaborate, talk about issues in science, or ask questions to the community and have them answered. It will eventually contain hundreds and thousands of pages of content including research papers, teaching resources, videos, posters and much more, some of which will be curated by groups like the GPC, and others uploaded directly by members. Underlying all of this, the portal needs a robust, intuitive search engine to allow users to find exactly the contact they are looking for.
User Testing the Beta Version
So during the ASPB conference, I was to be found in a meeting room with Clare Torrans from LookThink, helping her to conduct some user experience analysis on an early beta version of the Plantae site. We recruited a range of potential Plantae users – from students through to senior professors – and asked them to tell us what they thought of the idea of Plantae, whether they would use it and find it useful, whether the icons, buttons and links on the screen did what they expected, and what else they would like Plantae to do.
I’d never consciously considered the ‘user experience’ of a website before, but having spent time with Clare, I now realize it’s a vital part of the build process – and now I’m analyzing every website I visit!
The feedback we received was varied: there were some clear patterns related to age, academic level, or previous experience with social media, some people pointed out elements of the site I hadn’t even noticed, or misinterpreted buttons I’d thought were obvious, but – positive or negative – all of the feedback we received was useful and will be fed back into the site development process.
When can I start using Plantae?
The site isn’t quite ready yet, but taking into account all of the data we obtained from the user testing sessions at Plant Biology 15, we will hopefully be ready for launch in the Autumn. Watch this space for more news!