Category: mtDNA

  • A bounty hunter in the Subantarctic

    A bounty hunter in the Subantarctic

    I’ve been a fan of Star Wars since I was a nine year old being driven to Dunedin to see this new SF film that was supposed to be quite good. There in the Octagon Theatre my young mind was blown by what I saw. We’d never seen anything quite like it. I still can vividly recall the final attack run down the canyon on the Death Star. It was like you were in the cockpit of Luke’s X-Wing.

    Over the last 47 years I have seen most of the Star Wars movies and series. I even didn’t mind the prequel movies. One of my favourite characters was Boba Fett, the bounty hunter. He seemed cool and I liked that he didn’t take off his helmet (I was also about to become a 2000AD Judge Dredd fan, probably for similar reasons). The Mandalorian, featuring more on the galaxy bounty hunters, is one of my favourite Star Wars series.

    Who doesn’t love Grogu? Image by Adrian Paterson

    I’m not sure why I enjoy the SW IP, the stories are reasonably predictable, the names are awkward and clunky, but I guess it is fun, looks good and has some interesting diversity (it’s definitely not all filmed in an abandoned British quarry like most other SF at the time). I particularly liked the islands on Ahch-To where the elderly Luke Skywalker was living as a recluse. Their ruggedness, isolation and ‘bird’ fauna seemed like our NZ Subantarctic islands.

    In the Subantarctic we have our own bounty hunter with the strangely Star Wars-like name of Pacificana cockayni. This spider species, like a Jedi hermit, is only found on the Bounty Islands (a wind-swept collection of small islets) that are very seldom visited by humans. It spends its time hunting among a sparse five other species of spiders and 22 insect species. There are a bunch of seabird species that use the islands for breeding. It’s a harsh place to live and has a precarious food web.

    Pacificana cockayni was first collected by the great botanist, Leonard Cockayne, in 1903. There were a handful of future visits where female adults and juveniles were collected and finally a male was found. When describing a species it is useful to have adults of both sexes (and in spiders differences are exaggerated and easier to find in males). In more recent times molecular approaches, sequencing DNA, allows for a more precise understanding of who your species might be related to.

    Pacificana cockayni. Image by Thomas Mattern.

    Cockayne sent the original samples to a leading British arachnologist of the time with a decidedly non-Star Wars name, but suitably impressive nonetheless, Henry Roughton Hogg (OK maybe a little Star Warsy… I can see an Imperial Star destroyer being commanded by Admiral Roughton Hogg). Hogg decided that Pacificana cockayni was different enough from other spiders to be in its own genus. He then guessed at the family. (“These aren’t the spiders you are looking for.”)

    Over the years other travellers collected a handful of specimens when their journeys brought them to the Bountys. These include the great spider specialist Ray Forster. (“May the Forster be with you‘), one of my first PhD students, Frances Schmechel, and recent masters student, Robin Long.

    Time moves on and we are not in that galaxy far far away now. Many of the spider species lumped together as a big group by Hogg have been moved to more accurate placements by spider specialists over the last century. Cor Vink (Lincoln University), Phil Sirvid (Museum of NZ) and Nadine Duperre (Liebniz Institute) decided to sort out the status of Pacificana cockayni. They could see that things were a mess (“Hogg, you have failed me for the last time“).

    They looked carefully at the various structures of Pacificana cockayni and compared these to the various options for relatives (“Hmmm aren’t you kinda short to be a Miturgidae?”). For example, they found that the stridulatory field on prolateral face of male coxa of leg 1 was different to other closely related species (which to most sounds about as meaningful to the uninitiated as midiclorians).

    Bounty Islands – birds, rocks and a few spiders…. Image by Tui de Roy.

    Vink and colleagues were also able to get DNA from these species as well (or use DNA data that had already been collected). In a recent NZ Journal of Zoology paper they were not able to definitively sort out who the closest relatives of Pacificana cockayni were, but they could show that they had been evolutionary distinct for a long time. Given this distinctiveness and the limited range of this species to the small Bounty Islands archipelago, Pacificana cockayni faces some big problems. “I have a bad feeling about this.

    The maximum height of the Bountys is 73 m, creating a problem with sea level rise taking away land. Climate change is altering prey patterns for the seabird species that bring guano and carrion back to the islands, and which drives the simple invertebrate food webs. Bird populations are also declining through climate influences and from fisheries. Fewer birds means less food for everyone else that’s stuck on these islands (“It’s a trap!“). And, despite the isolation, there is always the risk of a rodent invasion from a visiting boat. Rodents love munching on large invertebrates.

    Like a rare Jedi knight on the fringes of the galaxy, Pacificana cockayni have faced and triumphed over tough times. Vink and colleagues have allowed us to know just how special this species is and why we should work hard to protect it to give it a fair chance to survive into the future.

    This is the way.

    This article was written by Adrian Paterson (Pest-management and Conservation at Lincoln University). With writing EcoLincNZ articles, do or do not, there is no try.

  • Wild hunters: Unveiling the hidden leopards of northern Pakistan’s borderlands 

    Our adventure begins in the breathtaking north of Pakistan, where the majestic peaks of the Himalayas, and their foothills, stand as one of the last sanctuaries, a place where the sky meets the earth. Here, clouds drift over rough mountains and lush valleys, into dense forests. Glistening lakes and spectacular waterfalls shape this natural paradise.

    In this wilderness, the air echoes to the calls of rhesus monkeys, while wild boars wander through the underbrush. The Himalayan red fox prowls the mountains, on the hunt for colourful pheasants, a tale as old as time. 

    But the fox is not the only hungry predator in these forests. A top predator, larger and stronger, with a powerful bite and covered in unique dots, reigns in the mountainous range. The majestic leopard (Panthera pardus), a mysterious and shy creature, expert at camouflage, is prowling these forests.

    Leopards are amongst the most iconic big cats. Just like other big cats, leopards are endangered. Human activity and landscape alteration pose significant threats to their survival. When leopards and humans cross paths, conflicts arise, turning this top predator from hunter to hunted

    Panthera pardus fusca is described as larger subspecies, with brighter
    coloration and smaller rosettes (Bellani, 2019).

    Photo Credit: CC BY 2.0 DEED, taken by Rupal Vaidya in October 2016

    Leopards are generally cryptic and shy, much remains unknown about these ferocious hunters. 

    Muhammad Asad, a PhD student at Lincoln University, started his dangerous journey to this wild region in the north of Pakistan. The dangers of the landscape were not limited to wildlife; humans also posed a significant risk in this troubled region. Undeterred, Asad was ready for the challenge that lay ahead. 

    Leopards are amongst the world’s most widespread carnivores, ranging from Africa to Asia. Prowling over such a vast distribution has led to the recognition of several subspecies, most of which are endangered. The forests in the north of Pakistan are known to be home to leopards, but their subspecies status has not been assessed.  

    Contrary to the legend of water-shy cats, leopards are excellent swimmers. Still, the mighty Indus River was believed to act as a barrier between populations, maybe even keeping subspecies apart.

    To unravel this mystery, Asad and his team collected and analysed tissue samples from leopards. Modern techniques have created a genetic tool as powerful as its name: mitochondrial DNA (mtDNA). Mitochondria, the powerhouses of our cells, have long been known for their role in providing power for our cells. These powerhouses also carry their own DNA, passed down maternally, making mtDNA incredible useful for studying population dynamics and subspecies differentiation.

    A key protein encoded on the mtDNA, NADH 5, is essential for energy production and is highly variable among big cats, making it an excellent candidate gene for subspecies identification.

    Through their research, Asad and his team found two distinct subspecies of leopard in the north of Pakistan, P. p. saxicolor and P. p. fusca, both belonging to the Asian group of leopards.   

    Panthera pardus saxicolor is commonly a bigger subspecies and is often
    more pale coloration, with bigger rosettes (Kiabi et al., 2002).

    Photo Credit: CC BY 2.0 DEED, taken by Guido Konrad in July 2021

    These findings mark the first subspecies identification in this region and hold significant implications for conservation efforts. The coexistence of both subspecies in the same region suggests an interesting natural corridor that connects leopard habitats, offering hope for their conservation in the face of habitat fragmentation.

    At the same time, discovering two subspecies living in the same area opens up the possibility of them interbreeding. This can create some challenges for conservation. We might wonder: could one or both of these subspecies disappear over time? Or will they blend together and create a new subspecies? Hybridisation is very unpredictable, which is why it’s important to work on conserving both subspecies. They each have unique evolutionary histories, which are the product of thousands of years of adaptation and survival, and could potentially be lost due to this phenomenon called hybridisation.

    These findings not only help leopard conservation in the paradise of the Himalayan belt in the north of Pakistan, but also contribute to global conservation efforts to protect this amazing species. By identifying subspecies and unveiling their genetic patterns, we can better protect them. It is important to protect both subspecies, which helps protect the overall species Panthera pardus.

    This article was prepared by Master of International Nature Conservation student Eric Tscherbatko as part of the ECOL608 Research Methods in Ecology course.

    Thank you to all scientist who contributed to these amazing results, namely Muhammad Asad, Francesco Martoni, James G. Ross, Muhammad Waseem, Fakhar I- Abbas and Adrian M. Paterson for your important work!

    Asad M, Martoni F, Ross JG, Waseem M, Abbas F, Paterson AM. 2019. Assessing subspecies status of leopards (Panthera pardus) of northern Pakistan using mitochondrial DNA. PeerJ 7:e7243 https://doi.org/10.7717/peerj.7243