Habitats Regulations reports: worrying trends for the UK’s protected freshwater species and habitats

30th January 2026

Last week, the four nations of the UK published their statutory 2019-2024 reports on the Conservation Status of species and habitats protected under the Habitats Regulations – the strongest nature law the UK has.  The reports point to a systemic failure to protect our most threatened species and habitats.

Habitat and species assessments are made based on range, area/population, structure and function/habitat availability, and future prospects. A species or habitat is considered to be in Favourable Conservation Status when all of these elements are in good condition.

In all four nations, the results of these assessments speak for themselves. Most species and habitats which should be protected by the Habitats Regulations are in fact in peril. Many are reliant on clean freshwater – which across the UK is an increasingly scarce resource.

Protected freshwater habitats and species are disappearing and declining across the UK. Without urgent reform of water environment policy, and greater investment, further losses are inevitable.

What this means for freshwater policy

Protected species and habitats are vital to the health of the UK’s ecosystems. Without urgent action to restore these special species and habitats, it will be impossible to achieve nature recovery goals. The habitats protected by Annex I of the Regulations make a disproportionate contribution to supporting threatened wildlife, while the species protected in Annexes II, IV and V are themselves widely threatened, and in some cases face extinction.

As the Office for Environmental Protection (OEP) recommended in their recent Review of implementation of laws for terrestrial and freshwater protected sites in England,  we urgently need to upscale the designation of protected sites, and increase resourcing for monitoring and conservation action focused on protected habitats and species. Although the OEP’s review was limited to England, these recommendations are eminently relevant to conservation work in all four UK nations.

- White-clawed Crayfish. (c) Linda Pitkin/2020VISION

By neglecting protected sites and species, the Governments of the UK are presiding over the decline of our most precious habitats and threatened species, and hobbling efforts to restore nature.

In England, the upcoming Water Reform Bill is a huge opportunity to join up water management with the restoration of protected freshwater habitats and species. To make the best of this opportunity, the Bill must focus on outcomes for nature, not just technocratic changes to water industry governance and regulation. If we don’t do this, protected wildlife – and freshwater ecosystems as a whole – will continue to decline. In particular, setting more ambitious environmental targets to protect our highest quality waterbodies, and providing greater policy support for small waters, are both critical to help build a regulatory framework capable of reversing the long decline of freshwater wildlife.

England’s habitats: widespread failure to reach Favourable Conservation Status

Of the six freshwater habitat types listed in England, only one – Mediterranean Temporary Ponds – was found to be at Favourable Conservation Status.

Whilst Mediterranean Temporary Ponds are vital for some of our rarest species, only a handful are monitored to determine this classification across England.

The other five lake and pond habitat types are in the worst possible category: Unfavourable-Bad Conservation Status: indicating that they are at serious risk of loss.

- A pond at Cock Marsh in Buckinghamshire, being surveyed by Freshwater Habitats Trust Technical Director Penny Williams.

Meanwhile, rivers and streams with Ranunculion fluitantis and Callitricho-Batrachion vegetation – a type which includes England’s highest quality chalk streams – are at Unfavourable-Bad Status, and continuing to deteriorate.

Across England, every listed freshwater habitat type except one is failing.

 

Conservation Status of Annex I freshwater and wetland habitat types in England, 2019-2024.
Code Habitat type Category Overall trend Conservation status
H3110 Oligotrophic Waters Containing Very Few Minerals of Sandy Plains Lakes and ponds Stable Unfavourable-Bad
H3130 Oligotrophic to Mesotrophic Standing Waters with Vegetation of the Littorelletea uniflorae and/or of the Isoëto-Nanojuncetea Lakes and ponds Stable Unfavourable-Bad
H3140 Hard Oligo-Mesotrophic Waters with Benthic Vegetation of Chara spp. Lakes and ponds Stable Unfavourable-Bad
H3150 Natural Eutrophic Lakes with Magnopotamion or Hydrocharition-type Vegetation Lakes and ponds Stable Unfavourable-Bad
H3160 Natural Dystrophic Lakes and Ponds Lakes and ponds Stable Unfavourable-Bad
H3170 Mediterranean Temporary Ponds Lakes and ponds Increasing Favourable
H3260 Water courses of Plain to Montane Levels with the Ranunculion fluitantis and Callitricho-Batrachion Vegetation Rivers and streams Deteriorating Unfavourable-Bad
H7110 and H7120 Active Raised Bogs and Degraded Raised Bogs Wetlands Improving Unfavourable-Bad
H7130 Blanket Bogs Wetlands Deteriorating Unfavourable inadequate
H7140 Transition Mires and Quaking Bogs Wetlands Stable Unfavourable-Bad
H7150 Depressions on Peat Substrates of the Rhynchosporion Wetlands Deteriorating Unfavourable-Bad
H7210 Calcareous Fens with Cladium mariscus and Species of the Caricion davallianae Wetlands Deteriorating Unfavourable-Bad
H7220 Petrifying Springs with Tufa Formation Wetlands Deteriorating Unfavourable-Bad
H7230 Alkaline Fens Wetlands Deteriorating Unfavourable-Bad
H7240 Alpine Pioneer Formations of the Caricion BicolorisAtrofuscae Wetlands Deteriorating Unknown

 

England’s protected freshwater species: fewer than one-third in Favourable Conservation Status

The outlook is also bleak for the 38 freshwater and wetland plants, invertebrates, land mammals, amphibians and fishes protected under the Habitats Regulations. Fewer than one third are assessed to be at Favourable Conservation Status.

Conservation Status of Annex II, IV and V freshwater and wetland species in England, 2019-2024.
Code Species Group Trend Conservation Status
S1034 Medicinal leech Invertebrates Unknown Unknown
S1013 Geyer’s Whorl Snail Invertebrates Unknown Unknown
S1014 Narrow-mouthed Whorl Snail Invertebrates Stable Favourable
S1015 Round-mouthed Whorl Snail Invertebrates Stable Favourable
S1016 Desmoulin’s Whorl Snail Invertebrates Unknown Unfavourable – Bad
S1029 Freshwater Pearl Mussel Invertebrates Deteriorating Unfavourable – Bad
S4056 Little Whirlpool Ramshorn Snail Invertebrates Unknown Unfavourable – Bad
S1044 Southern Damselfly Invertebrates Stable Favourable
S1092 White-clawed Crayfish Invertebrates Deteriorating Unfavourable – Bad
S1095 Sea Lamprey Fishes Stable Favourable
S1096 Brook Lamprey Fishes Stable Favourable
S1099 River Lamprey Fishes Stable Favourable
S1102 Allis Shad Fishes Stable Unfavourable – Inadequate
S1103 Twaite Shad Fishes Stable Unfavourable – Inadequate
S1106 Atlantic Salmon Fishes Deteriorating Unfavourable – Bad
S1109 Grayling Fishes Stable Favourable
S6963 Spined Loach Fishes Stable Favourable
S6965 Bullhead Fishes Stable Favourable
S2492 Vendace Fishes Stable Unfavourable – Inadequate
S6353 Schelly Fishes Stable Unfavourable – Inadequate
S5085 Barbel Fishes Stable Favourable
S1166 Great Crested Newt Amphibians Stable Unfavourable – Inadequate
S6284 Natterjack Toad Amphibians Stable Unfavourable – Inadequate
S6981 Pool Frog Amphibians Improving Unfavourable – Bad
S1213 Common Frog Amphibians Stable Unfavourable – Inadequate
S1337 Beaver Mammal Unknown Unfavourable – Bad
S1355 Otter Mammal Improving Favourable
S6216 Slender Green Feather-Moss Plant Deteriorating Unfavourable-Bad
S1409 Sphagnum spp.(bog mosses) Plant Stable Unfavourable-Inadequate
S1413 Lycopodium spp. (clubmosses) Plant Deteriorating Unfavourable-Inadequate
S1441 Shore Dock Plant Unknown Unfavourable-Inadequate
S1528 Marsh Saxifrage Plant Stable Unfavourable-Inadequate
S1614 Creeping Marshwort Plant Improving Unknown
S1831 Floating Water-plantain Plant Deteriorating Unfavourable-Inadequate
S1833 Slender Naiad Plant Unknown Unfavourable-Bad
S1903 Fen Orchid Plant Improving Unfavourable-Inadequate

 

The England assessments, prepared by Natural England, are available in full here.

Wales: protected freshwater habitats and species in dire condition

Five of the six freshwater habitat types listed in Wales are  in Unfavourable-Bad Conservation Status. Turloughs, a type of seasonal lake, are at Favourable Conservation Status – but there is only one known turlough in Wales (Pant y Lyn).

The picture for protected species is similarly troubling.

Of the water-associated land mammals and amphibians protected in Wales, Otter and Common Frog are at Favourable Conservation Status, whilst Great Crested Newt and Natterjack Toad are at Unfavourable-Inadequate and Unfavourable-Bad respectively.

Shockingly, all fish, freshwater invertebrates and water plants assessed are at Unfavourable-Inadequate or Unfavourable-Bad Conservation Status.

- Great Crested Newt (Alamy - Jack Perks)

Wales is home to some of Britain’s most remarkable freshwaters, so the parlous state of Wales’ protected freshwater species and habitats should be cause for alarm.

The Wales assessments, prepared by Natural Resources Wales, are available in full here. We don’t include summary tables for Wales in this article, as these are helpfully provided within this document.

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