Fish species thought extinct discovered in small Singapore swamp, many miles from where it was last seen

A photograph of the Central Catchment Nature Reserve, home to the Keli bladefin catfish, the only Critically Endangered freshwater fish species in Singapore.
  • The last time the Keli bladefin catfish (Encheloclarias kelioides) was seen was 1993, approximately 300 km from the site of this discovery.
  • The finding extends the range of the species considerably, and highlights the importance of small remnant forest fragments as harbours for biodiversity.
  • The discovery confirms the species as currently the only freshwater fish species in Singapore listed globally as Critically Endangered on the IUCN Red List.

Until recently…

…the air-breathing catfish (Encheloclarias kelioides) had only ever been seen and recorded twice: once way back in 1934, and again in 1993. With much of the species’ eastern Peninsular Malaysia peat swamp habitats having been drained to make way for palm oil plantations, the catfish was listed as Critically Endangered (Possibly Extinct) in 1996. But in August 2022, researchers were baffled when a specimen turned up in a trap set by students researching crabs in Singapore’s Nee Soon Swamp Forest. Incredibly, it was the elusive Encheloclarias kelioides, discovered for the first time many miles from where it had previously been recorded.

Dr Tan Heok Hui, a Singaporean ichthyologist based at the Lee Kong Chian Natural History Museum, Faculty of Science, National University of Singapore, was one of the researchers who confirmed the identity of this surprising discovery. He said, “Encheloclarias has never been recorded in Singapore, and Encheloclarias kelioides is a really rare species that has previously only been recorded from peat swamp habitat. Singapore doesn’t have real peat swamp – the specimen was found in more like a mature acid swamp forest – so the discovery is pretty remarkable. It has rewritten our knowledge of Encheloclarias. When it first made its way to me, I thought, you’ve got to be kidding, this has to be a practical joke!”.

The Encheloclarias kelioides individuals caught were accidental bycatch from traps that had been set by Tan Zhi Wan, Research Assistant at the Lee Kong Chian Natural History Museum and Elysia Toh, Research Associate at Yale-NUS College as part of their research into semi- terrestrial crabs. Nobody was actively looking for Encheloclarias, and it was just pure luck that they recognised them as being different from any catfish known from that region. They had no permit to take the fish from the Nee Soon reserve, but before they returned the individuals to the water, they took photos to send to the experts.

A photograph of the keli bladefin catfish specimen, in a lab environment.
© Tan Heok Hui

Dr Tan was one of the ichthyologists who received the photos…

…and he immediately recognised the images as being Encheloclarias. A month later, Dr Tan, Tan Zhi Wan and Elysia Toh visited the same area of the Nee Soon Swamp Forest where the individuals were previously found, set similar traps and left them overnight. When they checked the traps the next day, the fish was there. Dr Tan said, “It gave me the impression that we were really lucky”.

The discovery represents a range extension for the species, which was previously understood to be restricted to peat swamps in eastern Peninsular Malaysia and possibly central Sumatra (the specimen found there has not been confirmed as Encheloclarias kelioides) (Tan, Zhi Wan et al, 2023).

The Bebar drainage where the species was spotted…

…in 1993 is around 300 km from Nee Soon. So how did the species end up 300 km from where it was last seen three decades ago? Over many millennia, Tan said, “Southeast Asia experienced floodings and drying outs from rising and lowering of the sea level. The Gulf of Thailand actually once drained to one major river, and Singapore and part of Malaysia would have been part of that. They were once connected”.

Finding Encheloclarias kelioides in the Nee Soon Swamp Forest is significant for a number of reasons. Firstly, it proves that the species is not extinct. Secondly, this represents a range extension for the species of hundreds of kilometres. And thirdly, it helps confirm the Nee Soon Swamp Forest as an area of global conservation importance. While small, at approximately 5km 2 , it is the last remaining fragment of primary freshwater swamp forest in Singapore and is lush with biodiversity, harbouring more than half of the native freshwater fish species in Singapore, with some species being restricted only to this forest (Ho et al., 2016; Li et al., 2016; Tan et al., 2020). Furthermore, it is protected under Singapore law: with the public needing a permit to enter and no threat of development, it has become a secure refuge for wildlife.

Given that species of the genus Encheloclarias are acid-water specialists, this discovery highlights the significance of the Nee Soon Swamp Forest and the importance of conserving this habitat as a stronghold of uncommon and stenotopic freshwater fauna in Singapore (Ng & Lim, 1992; Cai et al., 2018; Clews et al., 2018;).

A photograph of the Central Catchment Nature Reserve, home to the Keli bladefin catfish, the only Critically Endangered freshwater fish species in Singapore.
© Tan Zhi Wan

According to Dr. Tan…

…to ensure Encheloclarias kelioides is protected from extinction, Singapore needs to keep doing what it has been doing, i.e. keep Nee Soon swamp protected. And there should be, “Proper baseline surveys and monitoring programmes by local experts, proper and fair legislation, and enforcements if people break the laws”.

He conceded that conserving the Encheloclarias genus could be a bit more tricky: “When wetlands are protected, they are never protected for the freshwater inhabitants but for birds mostly, and enigmatic animals like orangutans. Seldom fishes, which is sad. To get funding to do these surveys is not easy, and most of the local conservationists are not really trained to recognise the fish. Also, I’ve been to protected areas where you can catch fish and eat them. You can’t catch a bird or a mammal but there are different standards with fish, which is often viewed as a cheap source of protein”.

In light of the new discovery, Dr Tan together with the rest of the team, including Associate Professor Darren Yeo of the Lee Kong Chian Natural History Museum and Department of Biological Sciences, National University of Singapore, Dr Cai Yixiong, Senior Manager at the National Biodiversity Centre, National Parks Board (NParks), Tan Zhi Wan and Elysia Toh recommend the species’ IUCN Red List assessment status to be revised to Critically Endangered and consider its national conservation status in Singapore to be Critically Endangered.

The discovery occurred a few months before…

…the planned release of an ‘The Strategic Framework to Accelerate Urgent Conservation Action for ASAP Freshwater Fishes in Southeast Asia’, a collaboration between the IUCN Species Survival Commission Asian Species Action PartnershipSHOAL, and Mandai Nature, that provides a strategic framework to accelerate urgent conservation action for the most threatened freshwater fish species in Asia. The Strategic Framework is due for release this spring.

The study on the discovery of several specimens of Encheloclarias kelioides in Nee Soon Swamp Forest was co-authored by the National University of Singapore (NUS) and NParks, which is the lead agency for greenery, biodiversity conservation, and wildlife and animal health, welfare and management in Singapore, and responsible for enhancing and managing the urban ecosystems there.

A photograph of the keli bladefin catfish specimen from three different sides, in a lab environment.
© Tan Heok Hui

In a statement…

Mr Ryan Lee, Group Director, National Biodiversity Centre, NParks, said, “The presence of these specimens in Nee Soon Swamp Forest within the Central Catchment Nature Reserve suggests the importance of small forest fragments as habitats for biodiversity including cryptic species. The Central Catchment Nature Reserve is one of four gazetted nature reserves in Singapore, which are legally protected areas of rich biodiversity that are representative sites of key indigenous ecosystems. Hence, there are restrictions on the activities that can be carried out in these areas, as well as access to certain sites, to safeguard the native flora and fauna.

“As such, minimal change to the existing freshwater swamp conditions are possible factors that could have allowed Encheloclarias kelioides to survive. It is reasonable to expect that more freshwater fish species may be discovered here in the future.

“NParks will continue to work with researchers to better understand the abundance and distribution range of Encheloclarias kelioides in Singapore, as well as the role these native catfish play in the freshwater ecosystem. This discovery highlights the significance of Nee Soon Swamp Forest as a stronghold of uncommon and specialised freshwater fauna in Singapore. As part of our efforts under the Nature Conservation Masterplan, NParks will continue to conserve Singapore’s key habitats, through the safeguarding and strengthening of Singapore’s core biodiversity areas, including our nature reserves. In addition, we will continue to conserve more native plant and animal species. These efforts will continue to allow our native biodiversity to thrive, allowing us to achieve our vision of becoming a City in Nature”.

The Lee Kong Chian Natural History Museum is currently celebrating its eighth birthday, and Encheloclarias had been displayed in the museum as part of the anniversary celebrations.

The species does not currently have a common name. Dr Tan suggested it could be called the Keli bladefin catfish: bladefin catfish is the common name for all Encheloclarias, and in Malay, Clarias catfish are known as Ikan Keli.

Mid-year report 2021 published

mid-year report 2021

Our mid-year report has been published, showcasing some of the work we have achieved throughout the first six months of the year. It also looks ahead to some of the projects we have been and will continue to be working on during the second half of 2021.

Click on the image below to read the report.

SHOAL mid-year report 2021

Shoal and Re:wild launch ‘Search for the Lost Fishes

Lake Tota

Colombia’s Lake Tota: home of the elusive fat catfish

By Michael Edmondstone

What do an Iraqi shrine, the Batman River, and a lake where Pablo Escobar once had a cocaine factory have in common? Shoal and Re:wild are today launching our flagship campaign Search for the Lost Fishes, and both of these locations were previously home to species from the Top 10 Most Wanted list.

Now, we plan to work with local teams to visit these places in the hope of rediscovering the fish.

These Lost Fishes haven’t been observed in more than a decade, but are yet to be listed as Extinct. There is reason to believe they are still out there, waiting to be found, and Shoal aims to help find them so that we may install a conservation programme to give them a second chance at survival.

In collaboration with Re:wild and the IUCN-SSC Freshwater Fish Specialist Group, we have identified more than 300 freshwater fish species that fit within the parameters of a lost species. From this master list, we have chosen an initial Top 10 Most Wanted species that will kickstart a multi-year campaign.

These ten species range from locations right around the world, from Colombia to Madagascar, from Vietnam to Papua New Guinea. Shoal will support and encourage expedition teams to work with local communities and experts to search in the habitats where the fish have previously been recorded, including some of the planet’s most far-flung freshwaters, from former war zones to the world’s highest lake, from a lake where Pablo Escobar once had a cocaine manufacturing plant, to an underground cavern underneath an Iraqi shrine.

But this is about much more than the expeditions Shoal is directly involved in: we’re calling on others to join the search and conduct their own expeditions to try and find these Lost Fishes. With expert input from Re:wild, we will publicise people’s stories of rediscovery and adventure as part of this shared campaign of hope and adventure.

map of Lost Fishes
The countries (in green) where the Lost Fishes have previously been recorded.

“The Search for Lost Fishes campaign is incredibly exciting,” said Mike Baltzer, executive director of Shoal. “While the project is driven by science and is aimed to give these species the best possible chance of survival, it also has a strong element of mystery and adventure about it. These species have amazing back stories, were all known from incredible locations and are still much loved by the local people. They are just as keen to find them as we are. Working with the local partners is a true highlight of the project”.

The first Lost Fishes expedition will be for the fat catfish. Shoal has secured preliminary funding for the search and it is planned to start in in Colombia over the coming weeks. It will involve using environmental DNA (eDNA) methods to detect whether the fish may still be in Lake Tota. The expedition team will sample the water, searching for traces of DNA left by the fat catfish. If the eDNA sampling comes back positive, conservationists will have proof that the fish still survives somewhere in the lake or nearby. The next step , if any DNA is found, will be to refine the search based on the location of the detected eDNA.

“If the fat catfish still survives, it will be one of the rarest fish in the world,” said Dr. Barney Long, senior director of conservation strategies, Re:wild. “There have only ever been 10 specimens found, so if the expedition does find the fat catfish, it would be hugely exciting. Also one question may finally get answered; why is it so fat? There is no other fish in the world like it and it has been one of the mysteries of ichthyology for years”.

Search for the Lost Fishes

Read about a previous expedition to find the fat catfish here.

Recent rediscoveries have fuelled hope that the species on the Top 10 Most Wanted Lost Fishes list will be found. The Dumbéa River pipefish was originally planned to be included on the list, but a sighting of the fish in New Caledonia, based on a single record on iNaturalist, a citizen science app, was recently confirmed by scientists. Damien Brouste, a naturalist and angler, became the first person with a confirmed sighting of the species in over a decade.

Read more about Damien’s sighting here.

All things being well, some of these other elusive fish will be rediscovered. And, when they are, the real work of helping bring them back from the brink of extinction will begin.

The Top 10 Most Wanted Lost Fishes:

• Duckbilled buntingi in Indonesia

• Fat catfish in Colombia

• Spinach pipefish in Papua New Guinea

• Syr Darya shovelnose sturgeon in Kazakhstan, Tajikistan and Uzbekistan

• Annamite barb in Vietnam

• Haditha cavefish in Iraq

• Batman River loach in Turkey

• Titicaca orestias in Bolivia and Peru

• Itasy cichlid in Madagascar

• Leopard barbel in the Tigris-Euphrates river system in Eastern Turkey, Eastern Syria, Iran and Iraq

Shoal and Re:wild are asking anyone to contact them if they can sponsor or partner with us to undertake the expeditions and establish the urgent, vital conservation action these lost fishes need if they have survived.

The effects of COVID-19 on freshwaters

Lake Tanganyika at sunset

By Michael Edmondstone

A team of global experts in freshwater fish biodiversity and conservation have published a paper discussing the possible effects of the COVID-19 pandemic on freshwater ecosystems. As expected, both positives and negatives are likely to arise from this period of reduced human activity.

Let’s take a look at some of the findings.

Invasive species

Invasive species are considered to be one of the most significant drivers of freshwater biodiversity decline (Reid et al., 2019). COVID-19 has both changed the way that invasive species spread between regions and the way humans are able to control this spread.

On the one hand, a reduction in global trade and travel means there will be subsequent reductions in invasive species transport associated with pathways such as air transportation, the movement of fresh foods, and recreational activities (Hulme, 2009; Early et al., 2016).

On the flipside of this, however, the authors say ‘it seems likely that human-related pathways of species introductions may actually accelerate the pace of invasions’.

There has also been ‘significant budget reductions for controlling the spread of invasive fishes from intentional introductions, aquaculture releases, and unintentional transport. For example, a US$8 million project aimed at stopping the spread of invasive Asian carp in Michigan, USA, was vetoed in order to support the state’s response to COVID-19 instead (Boomgaard, 2020)’.

Furthermore, community science programs have largely ceased in response to COVID-19 because of lockdown restrictions, reducing the ability to notice new or track existing invasive species.

Redfin © Jeremy Shelton
Redfin © Jeremy Shelton
Pupfish © Freshwaters Illustrated
Pupfish © Freshwaters Illustrated

Pollution

Dramatic reductions in industrial pollution has led to cleaner rivers around the world. For instance, ‘temporary closures of many industries have potentially reduced discharge of nutrients, heavy metals, and other chemicals to water bodies and reduced emissions to the atmosphere (Chow, 2020). Reduced nitrogen dioxide concentrations observed over Eastern China, Europe, the Northeastern United States, and India have been used as indicators of temporary recovery of urban surface water quality that runs off into waterways (Hallema et al., 2020)’.

However, ‘the pandemic has also increased pollution impacts on freshwater fishes. In the UK, disruption to food supply chains has led to dumping wasted food and drink, such as milk, which has entered waterbodies, potentially depleting oxygen levels through eutrophication (Ends report, 2020; Salmon and Trout Conservation, 2020). Elsewhere, altered sewage pollution patterns or collapse of the sewage systems could be a major detriment to aquatic biodiversity (Herbig, 2019; Tortajada and Biswas, 2020). Increased use of disinfectants (e.g., hand sanitizers, cleaning products) has likely increased their presence in freshwater systems through runoff and wastewater discharge (Zhang et al., 2020). In addition, heightened concern for hygiene and disease spread has increased pollution associated with packaging and personal protection equipment (Roberts et al., 2020, Van Reenen, 2020; Aragaw, 2020). Moreover, as single-use plastics are a key source of microplastics in fresh waters (Li et al., 2020), such actions will likely contribute to more plastic pollution entering waterways’.

Climate Change

In the short-term, ‘global travel restrictions and reduced industrial activity have dramatically decreased fossil fuel consumption worldwide (Gössling et al., 2020), resulting in a temporary reduction in CO2 emissions during lockdown (average reduction of 26%, Le Quéré et al., 2020)’.

According to the authors, ‘The timescale of these reductions is likely too short to affect long-term climate change trends or freshwater habitat conditions, yet these temporary shifts could translate to longer term change depending on societal responses, i.e., whether economic recovery efforts follow a return to ‘business as usual,’ or embrace the implementation of new climate policies that drive further reductions in energy use and shifts to clean energy. A shift towards working from home could be a significant longer-term change that reduces emissions (Hern, 2020)’.

A photograph taken half above water and half below, with a shoal of brown fish under the water.
© Jeremy Shelton

Fragmentation

The paper states that, ‘Fragmentation of freshwater systems is a major threat to freshwater biodiversity, particularly migratory fishes (Dudgeon et al., 2006; Nilsson et al., 2005). The construction of dams is currently the greatest source of increased fragmentation in freshwater ecosystems as free-flowing rivers are obstructed (Zarfl et al., 2015). The slowdown of industrial development and construction activities during the pandemic has also slowed hydropower projects, particularly in Asia (Bangladesh, China, Nepal, Indonesia, India and Myanmar; Cox, 2020), and temporarily suspended further fragmentation of freshwater ecosystems. How long this will persist is unknown, given global changes in energy demand due to COVID-19.’

‘However, as regions prioritise economic recovery post-pandemic, there is evidence that environmental legislation and assessment processes are being side-stepped (Diele-Viegas and Pereira, 2020; Canadian Environmental Law Association, 2020). It is possible proponents of development projects will attempt to take advantage of a swamped news-cycle, decreased environmental assessment capacity, and a need for economic growth following the lockdown to push forward controversial projects. For example, the Government of India is considering a controversial 3097 MW dam (Dibang Valley Hydropower project) in the Himalayan Biodiversity Hotspot (Chandrashekhar, 2020). While many regions of the world are building dams, other regions are removing them (Ding et al., 2019) or constructing fishways to provide passage over such barriers. Funding for such restoration projects may be restricted or diverted during the economic recession to benefit human health and employment security (discussed in Corlett et al., 2020), but to the detriment of river fishes.’

Habitat Loss

There are many examples where habitats and ecosystems have suffered greater damage than usual during COVID-19. For example, ‘in India, sand mining, an emerging threat to freshwater ecosystems (Koehnken et al., 2020), increased due to reduced enforcement mechanisms (Kannan, 2020)’. And in the Amazon, ‘deforestation rates increased by 55% from January to April 2020, compared with the same period in 2019 (Brown, 2020) due to reduced enforcement (Schwartz et al., 2020). This is intensifying pressures on the already vulnerable freshwater ecosystems of the region (Castello et al., 2013).’

Exploitation

Overexploitation of freshwater fishes is another major driver of freshwater biodiversity loss (Reid et al., 2019 and references therein).

Over the short-term, impacts of COVID-19 are likely to affect different areas in different ways, with some fish species benefitting, and others being compromised. But over the long-term, ‘the impacts of COVID-19 can be expected to amplify exploitation and unsustainable fishing practices.’

‘Job losses in urban areas and the return of migrant workers to their rural homes (Mukhra et al., 2020) will increase fishing effort and may lead to fishing practices that will impact negatively on imperilled fishes, such as the Critically Endangered hump-backed mahseer (Tor remadevii; Pinder et al., 2020). This is coupled with evidence of increased illegal fishing activities because of reduced surveillance and enforcement activities.’

‘Increased effort and exploitation have also been documented in many recreational fisheries around the world as many people have sought outdoor spaces while under lockdown and many countries have incentivized recreational fishing as a socially-distanced activity (e.g., free fishing days). Many areas are seeing an increase in the sales of fishing licenses relative to the same periods in 2019, including Texas, USA (39% increase; CBS Local, 2020), Vermont, USA (resident license have increased 50%, Gribkoff and Trombly, 2020), England (increase of 120% in rod licenses; Cuff, 2020), among many other fisheries worldwide. In some areas, restrictions have affected international travel for recreational fishing and related tourism (Gössling et al., 2020), which is likely to reduce local income and compromise co-management agreements aimed at maintaining high abundances of large-bodied freshwater fishes for recreational anglers. Examples include conservancies for tigerfish (Hydrocynus vittatus) in Namibia (Cooke et al., 2016), Arapaima spp. in Guyana (Lynch et al., 2016b), and mahseer (Tor spp.) in India (Pinder and Raghavan, 2013).’

The paper concludes that in ‘one to two years from now, we anticipate freshwater biodiversity at the global scale will be in a similar or improved condition relative to if the pandemic had not occurred. Improvements to freshwater habitat quality resulting from the global ‘pause’ in economic development and declines in human disturbance, adapted fishing activities, and reduced pollution all have the potential to benefit fish populations (Rutz et al., 2020). However, the relatively short-time scale of the lock-down period means freshwater fishes are unlikely to exhibit substantial long-term changes.’

But over a longer time-scale – five years or more – ‘the future state of freshwater fisheries is very likely to be worse than if the pandemic had not occurred.’ It is likely that an ‘eagerness to return to economic growth may lead to a rebounding period that ultimately accelerates and compounds threats to freshwater fishes existing prior to the pandemic. This dynamic may play out to a greater extent in developing regions because of increased prevalence of food insecurity caused by the pandemic.’

In light of the World’s Forgotten Fishes report released by Shoal, WWF and other leading conservation organisations, it is now crucial to ramp up the messaging to encourage policymakers to show ambitious leadership in saving the threatened freshwaters around the world.

‘Forgotten Fishes’ report released

© Beta Mahatvaraj

Shoal has released a critical report with WWF and 15 other leading conservation organisations , calling on governments to commit to an Emergency Recovery Plan for global freshwater biodiversity.

‘The World’s Forgotten Fishes’ report is a urgent call to arms for authorities to ramp up their action towards conserving freshwater ecosystems. Bold, ambitious prioritisation will be essential if we are going to bend the curve of the biodiversity crisis and safeguard the futures of freshwater species. As the report says, ‘2021 may be the last chance for governments to chart a new course that could reverse the loss of nature and put the world back onto a sustainable path’.

World's Forgotten Fishes (REPORT FINAL)

The report details the importance of freshwater fish, and discusses their central role in the livelihoods of millions of people around the world. It discusses the money generated through recreational activities such as angling, the impressive cultural heritage fish have woven into our lives, and the potentially surprising fact that aquarium fish are more popular than cats or dogs.

It explains the reasons for the catastrophic decline in fish species populations and, crucially, sets out the Emergency Recovery Plan that is needed to guide policymakers:

  1. Allowing rivers to flow more naturally.
  2. Reducing pollution.
  3. Protecting critical wetland habitats.
  4. Ending overfishing and unsustainable sand mining.
  5. Controlling invasive species.
  6. Safeguarding and restoring connectivity.

The report confirms that the ‘freshwater transition is a realistic and pragmatic one, based on measures that have already been tried and tested in at least some rivers, lakes and wetlands’, and goes on to say that ‘it is a comprehensive plan that moves us away from today’s ad hoc conservation successes towards a strategic approach that can deliver solutions at the scale necessary to reverse the collapse in biodiversity and set us on course to a future where our freshwater ecosystems are once again fully healthy and teeming with freshwater fishes and other wildlife’.

Over the coming weeks we will be highlighting Forgotten Fishes in a number of magazines and podcasts, including this interview with Mike Baltzer in angling magazine The Wading List. Keep an eye on our social media channels to stay updated with the latest.