Technology and the Tiger: DNA Study of Wildlife in Nepal
National exclusive on the emerging DNA study of wildlife in
Nepal. A part of this report has been published in Republica national
daily’s weekend edition, The Week, today as Part-One of a two-part
series.
A
Tiger mural on the streets of Kathmandu, where the Nepal Tiger Genome
Project is headquartered.
In 1962, When the Noble Prize in Physiology or Medicine was given for
discovering the structure of DNA, the BBC started its report with the
following words: “In Stockholm today, five men are receiving
Noble prizes.
The highest honors that international science has to offer; for work
that will eventually lead to the healing of sickness, and the
preservation of human life.” James Watson, with Francis Crick,
discovered the “structure of life” in 1953. 60years later, DNA has gone
well beyond that realm and become an important tool in understanding and
conserving the world’s wildlife and ecologies. Here, 2013 will mark
Nepal’s completion of its first genome project, the Nepal Tiger Genome
Project (NTGP) conducted in a state-of-the-art laboratory in Kathmandu.
“We collected a lot more shit than planned,” Dibesh Karmacharya, who developed NTGP and is the International Director of
Center for Molecular Dynamics-Nepal
(CMDN), said light-heartedly of the project that identifies tigers and
its habitat based on the DNA information retrieved from tiger feces.
After 216 days of collecting 1200 samples of scat (the term used for
feces of carnivores) from four national parks by multiple teams, the
two-year project funded by USAID-Nepal comes to a close in June. But the
crucial chapter of genetic study of wildlife in Nepal is only
beginning.
“USAID set up the NTGP as a two year project to build capacity in
Nepal to do cutting edge genetic research to inform wildlife
conservation,” Bronwyn Llewellyn, Environment Officer, USAID Nepal,
explained. “We considered this important because Nepal has a long
history of traditional conservation and is ready to bring their efforts
to the next level through advanced technology such as genetics.”
Tiger Scat Samples collected for the USAID funded Nepal Tiger Genome Project.
Nepal Tiger Genome Project
Nepal is by no means the first country to use DNA to study
wildlife. India began its first DNA based enumerations of Tigers in
2007, and the San Diago Zoo Global’s Genome 10K Project is aiming to
“assemble a genetic zoo” with a “collection of DNA sequences of 100,000
species” by 2015.
Nepal, however, does not allow any biological samples to be taken out
of the country. And this is what makes the current genetics studies in
Nepal groundbreaking: simply the fact that these studies can finally be
done here in Nepal itself, at the CMDN, established in 2007 as a
non-profit making Non-Government Organization. In their 2011
preliminary study of Snow Leopards for WWF,
CMDN worked to identify species and gender based on samples originally
collected in late 2000s by WWF’s field biologists for a dietary survey.
With the Tiger Genome Project, initiated in collaboration with the
Ministry of Forest and Soil Conservation and the Department of National
Parks and Wildlife Conservation, and funded by USAID Nepal, CMDN is able
to add the final crucial element: fingerprinting of the species
identified. In this case, creating a unique ID for individual species
that have been identified as a male or female tiger.
“We are only creating a database of 700 samples, which is
what the resources of the project allows us to do,” Dibesh explains. The
DNA extraction takes three days, species identification then takes
about a week, gender identification takes about three to four days, and
finally another three days for “fingerprinting” the sample, i.e.
creating a unique ID of that particular Tiger. The team is currently
establishing 10 DNA markers on each sample.
Through NTGP, CMDN has also developed a customized software in which
each sample’s details are carefully cataloged, accessible instantly by
scanning a barcode.
A
member of the CMDN scans a barcode at their lab. This reveals that
particular tiger’s data on a customized software developed for the Nepal
Tiger Genome Project.
Indeed, the NTGP offers a long-term capacity for Nepal even after the
project ends. The DNA Sequencer, which the USAID funded project of
little over $268,000 helped pay for, enables this local service provider
to do what could not be done in Nepal before. That is to say, a
technology brought in for tigers will serve many in days to come, and
already is. CMDN is now also now working with several international
researchers, mostly University researchers, who are not able to take
their samples out of Nepal.
“We are extremely proud of what CMDN has accomplished in this time
frame. By setting up a lab with this capability, USAID has opened the
door for more research as well,” Bronwyn added. “Other donors and
projects are now coming to CMDN to work on everything from Rhinos to
Snow Leopards. Nepal is becoming known as a leader in the region on
genetics research, and we are confident that this ability is going to
continue to grow.
Stanford University’s Study
Last week, at an
environment-reporting workshop
organized by the USAID-funded Hariyo Ban program, Secretary for the
Ministry of Forest and Soil Conservation spoke about Nepal’s potential
as an international research site.
[Disclosure: I was moderating the workshop]
The current emphasis on studying climate change and considering
Nepal’s unique topography and ecology, the country is a hub for global
research, the Secretary explained.
One such researcher is Professor
Elizabeth Hadly of Stanford University, and her team. Prof. Hadly is currently researching the impact of climate change on the Himalayan Pikas.
“We could not have done the work without the collaboration of Dibesh and his team,” Prof. Hadly said over email.
Describing her
team’s research,
Prof. Hadly said, “ Pikas are unusual mammals closely related to
rabbits and hares, but very special because of their occurrence only at
high latitudes and high elevations. They cannot tolerate heat. And the
climate in high elevation tropical areas such as Nepal and northern
India is changing at a faster rate than other areas of the world. Our
research team, –[includes Katie Solari (my grad student), Uma
Ramakrishnan (my collaborator in India) Nishma Dal (Uma's grad student)]
is working on pikas in the Himalayas of Nepal and India for the main
reason that they are very speciose there and because the species span a
variety of elevations.”
The genetics connection? “Not only have pikas never been studied
genetically in Nepal, we aren’t really sure exactly how many species are
present in your country!” she added.
The team has also found “pikas do appear to be changing their ranges.
Some of the locals we talked to remarked on the absence of pikas where
they used to be common.”
And an exciting development: the study by Uma Ramakrishnan and Nishma
Dal have revealed “that there is at least one species in the Himalayas
that has never been identified before.”
Illegal Wildlife Trade
Nepal has emerged as a
major transit hub for smuggling
of all kinds of goods, of which illegal wildlife trade is becoming
significant. During last week alone a group of men were caught with a
rhino horn in Bardibas Mahottari, an
Indian citizen from Utter Pradesh
was caught in Kathmandu with leopard hide, two men were also caught
with leopard skin in Kathmandu, while police arrested a group smuggling
red sandal wood beads in “false compartments” inside fuel tanks of two
cars. The product was being moved from India to China, and passing
through Kathmandu when found.
Tiger skin confiscated by the Nepal Police. Photo: WWF Nepal/Diwakar Chapagain
“Smugglers don’t care what they are smuggling, they just want to
smuggle,” the Director General of the Department of National Parks and
Wildlife Conservation had explained at the Earth Matters media workshop
last week. “They will trade in wildlife parts, and human smuggling at
the same time. And they use technology far advanced than the ones we
use, they are better equipped.”
As poachers and smugglers become increasingly sophisticated in their
trade, genetics works such as the Tiger Genome Project becomes ever more
important.
“One of the exciting potentials of genetics work is in the field of
law enforcement. With the dreadful rise in poaching world wide, law
enforcement officers need every tool possible to capture and convict
wildlife trade criminals. Already we have seen cases of ivory seizures
made in Thailand tracked back to the elephant’s home in Africa due to an
elephant genetics project,” Bronwyn said. “The NTGP has the potential
to do the same for Nepal’s tigers as well. The government of Nepal is
testing out this theory now, working with CMDN to use genetics in the
case of recent seizures. We’re a ways from being able to use this data
in court, but this is an important first step.”
Indeed, this year the Police and CIB have reached out to CMDN to check the DNA of several confiscated illegal wildlife parts.
Dr. Ghana Shyam Gurung, Conservation Director, WWF Nepal, understands
its importance too. “The first thing we will be able to do is check,
for example, the tiger parts came from a tiger in Nepal’s parks or not,”
he said. “After we run that check, we can tell our partners in India
that perhaps it is one of theirs. Or if turns out to be Nepal’s, then we
will know exactly where the tiger was based and that will help us
figure out what went wrong there in terms of conservation.”
Samples collected for analysis through Hariyo Ban project, also funded by the USAID.
Shaping Policy
“Conservation relies on genetic work for all sorts of reasons,
perhaps the most important, that it allows us to understand just how
connected, or disconnected, surviving (or extinct, using ancient DNA)
populations are,” Prof. Hadly explained.
Genetics study has many immediate and long-term impacts on
conservation policies. For one thing, understanding the genetic
diversity of a certain species population in an area is crucial to
understanding that group’s survival viability. The larger the genetic
pool, the better the chance of their survival. For example, if a group
of tigers in western Nepal appear to have limited genetic diversity,
conservationists can develop ways in which to introduce tigers from
other regions to diversify the population’s gene pool and give them a
better chance at survival.
“For
Snow Leopards,
we are also now working on a more in-depth genetic study to understand
how far these animals are traveling,” Dr. Gurung said. “In our eastern
Himalayas there isn’t a very large area for them to move around in. But
if we find they are traveling across to India in the Kanchenjunga range,
for example, then we are able to develop trans-boundary conservation
strategies.”
Snow Leopard in Upper Mustang, Nepal.
Limited Resources, Shared Resources
WWF’s study on Snow Leopards and the Standford University’s on Pikas
has occurred independently. Yet, the two creatures are intricately
linked in the wild naturally, and now for the first time Nepals has an
opportunity to understand just how closely they are linked with an
unprecedented degree of details.
“Pikas form a significant part of the snow leopard diet! That means
that the changing climate and its impacts on the little pika may exert
an influence on the snow leopard survival.” Prof. Hadly noted. “Species
in ecosystems interact, after all.”
Combining the results of these two independent studies would
naturally result in a broader understanding of the Himalayan wildlife
ecology, at least as shared by the Snow Leopard and Pikas. But could a
conversation amongst those conducting genetic research in Nepal help, by
design, to produce studies on corresponding species? Now that the
significant Tiger Genome Project has been undertaken, what might be some
of the best species to study that could enhance the research on tiger,
and who might be able to conduct those studies? Considering the fact
that resources are limited, could shared investment in research produce
directly related studies to help create genomic databases of certain
ecosystems? Perhaps bodies such as the National Trust for Nature
Conservation could even produce such proposals and find researchers to
work on them, as opposed to waiting for researchers to come in and seek
permit.
A similar project for the endangered Rhinos, which shares the tiger’s habitat in the
Terai Arc Landscape conservation area,
is underway too. These four projects alone give the kind of detailed
data of Nepal’s Himalayan and Terai ecology that would have been
impossible before a lab like CMDN got the DNA Sequencer for the NTGP.