Candidatus Nitrosopolaris, a genus of putative ammonia-oxidizing archaea with a polar/alpine distribution

Ammonia-oxidizing archaea (AOA) are key players in the nitrogen cycle. Here, we report four novel metagenome-assembled genomes (MAGs) assigned to the genus “UBA10452”, an uncultured lineage of putative AOA in the family Nitrososphaeraceae. Analysis of other eight previously reported MAGs and publicly available amplicon sequencing data revealed that the UBA10452 lineage is predominantly found in acidic polar and alpine soils. We propose a novel Candidatus genus, Ca. Nitrosopolaris, with four species representing clear biogeographical/habitat clusters. In addition to the presence of genes involved in cold adaptation, we hypothesize that the distribution of Ca. Nitrosopolaris across the cold biosphere might also be due to the combination of a polar origin and limited dispersal capabilities throughout geological time.

Comparing management strategies for conserving communities of climate-threatened species with a stochastic metacommunity model

Many species are shifting their ranges to keep pace with climate change, but habitat fragmentation and limited dispersal could impede these range shifts. In the case of climate-vulnerable foundation species such as tropical reef corals and temperate forest trees, such limitations might put entire communities at risk of extinction. Restoring connectivity through corridors, stepping-stones, or enhanced quality of existing patches could prevent the extinction of several species, but dispersal-limited species might not benefit if other species block their dispersal. Alternatively, managers might relocate vulnerable species between habitats through assisted migration, but this is generally a species-by-species approach. To evaluate the relative efficacy of these strategies, we simulated the climate-tracking of species in randomized competitive metacommunities with alternative management interventions. We found that corridors and assisted migration were the most effective strategies at reducing extinction. Assisted migration was especially effective at reducing the extinction likelihood for short-dispersing species, but it often required moving several species repeatedly. Assisted migration was more effective at reducing extinction in environments with higher stochasticity, and corridors were more effective at reducing extinction in environments with lower stochasticity. We discuss the application of these approaches to an array of systems ranging from tropical corals to temperate forests.

Effect of landscape structure on genetic structure of the Lesser horseshoe bat (Rhinolophus hipposideros) in Britanny colonies

Some species are difficult to observe and others, need to be not disturbed because of their vulnerability. In response to the difficulty of studying the dispersal behaviors of these species, some areas of biology have been combined in order to access the information despite practical limitations. Here we present the combination of several methodologies from landscape ecology to non-invasive population genetics that allow us to obtain important information on Rinolophus hipposideros, a vulnerable European bat. We genotyped 18 georeferrenced colonies in Brittany (France) from droppings collected in their refuges. We used 6 microsatellite markers in order to obtain the genetic distances between them. On the other hand we calculated Euclidian distances between the refuges occupied by these colonies and some ecological distances with the Pathmatrix module of ArcGis 3.2. We tested hypothesis about the difficulty of dispersal of the species in areas without forest cover or with a low density of hedges. Thanks to the Monmonier algorithm we could infer possible genetic barriers between the colonies and we could compare their location to the presence of landscape barriers (areas with little tree cover). We detected a pattern of isolation by distance that reveals limited dispersal capacities in the species but no pattern linked to ecological distances. We found that some of the neighboring colonies with greater genetic distances between them were located in areas with low density of hedges which could suggest an impact of this landscape element in their movements. Finer studies should allow us to conclude on the need or not of forest cover in the dispersal of this species.

Potential range shifts and climatic refugia of rupicolous reptiles in a biodiversity hotspot of South Africa

SummaryClimate change is causing the geographical ranges of some species to track suitable conditions. Habitat specialists, range-restricted species and species with limited dispersal abilities may be unable to track changing conditions, increasing their extinction risk. In response to changing conditions and species movement patterns, there is a need to account for the effects of climate change when designing protected areas and identifying potential climate refugia. We used ecological niche models projected into future climates to identify potential impacts of climate change on the distribution of 11 rupicolous reptile species in the Soutpansberg Mountains, South Africa. Lygodactylus incognitus, Lygodactylus soutpansbergensis, Platysaurus relictus and Vhembelacerta rupicola were identified as being vulnerable to climate change due to substantial reductions in suitable habitat and low spatial overlap between current and future niche envelopes. We identified areas of high conservation importance for the persistence of these species under present-day and projected future conditions. The western Soutpansberg was identified as an area of high conservation priority as it is a potential refuge under future projections. Projecting distributions of vulnerable species into future climate predictions can guide future research and identify potential refugia that will best conserve species with restricted ranges in a world with climate change.

Molecular Studies of New Zealand Fucales: Phylogeography, Phylogeny and Taxonomy in Carpophyllum and Cystophora (Phaeophyceae)

<p>Genetic variation in Carpophyllum Greville and Cystophora J. Agardh (Fucales, Phaeophyceae) was investigated at a variety of scales. An extensive survey of mitochondrial spacer variation in Carpophyllum maschalocarpum from 32 populations around New Zealand shows strong population differentiation at relatively small scales (50–100 kilometres), but also pathways of long distance dispersal that connect populations over much greater distances. In addition, historical climate change appears to have restricted C. maschalocarpum to the northern North Island during the last glacial maximum, with subsequent southward range expansion revealed by low genetic diversity in southern populations. These results are consistent with limited dispersal at the gamete and zygote stage, expected in fucalean algae, but with occasional long distance dispersal by detached floating thalli. The genetic signature suggests these two modes of dispersal are decoupled. Internal Transcribed Spacers sequences show little differentiation between C. maschalocarpum and C. angustifolium, and hybridisation was found in several populations where these species are broadly sympatric. In the Bay of Plenty the two species had different ITS ribotypes, but most C. angustifolium specimens had a mitochondrial spacer haplotype that clustered with C. maschalocarpum haplotypes. This indicates mitochondrial introgression from C. maschalocarpum into C. angustifolium. In Northland species were difficult to separate by morphology or molecular markers, and some populations appear to be comprised entirely of hybrids. Genetic distances between different species of Cystophora are very variable, and in some cases intra-species distances are similar to interspecies distances. This is problematic for DNA barcoding methods that rely on thresholds between inter-species and intra-species genetic distances. In some (but not all) cases, the absence of molecular differentiation can be attributed to oversplitting of Cystophora species by morphological methods, and I synonymise C. congesta with C. retroflexa, and C. distenta with C. scalaris. These studies exemplify the difficulties of delimiting species in brown algae: Morphology is often misleading or uninformative; genetic differentiation of species is very variable and often low; and species’ histories show complex patterns of isolation and secondary contact. I argue for an explicitly historical concept of species, with species’ history included in species descriptions.</p>

Molecular Studies of New Zealand Fucales: Phylogeography, Phylogeny and Taxonomy in Carpophyllum and Cystophora (Phaeophyceae)

<p>Genetic variation in Carpophyllum Greville and Cystophora J. Agardh (Fucales, Phaeophyceae) was investigated at a variety of scales. An extensive survey of mitochondrial spacer variation in Carpophyllum maschalocarpum from 32 populations around New Zealand shows strong population differentiation at relatively small scales (50–100 kilometres), but also pathways of long distance dispersal that connect populations over much greater distances. In addition, historical climate change appears to have restricted C. maschalocarpum to the northern North Island during the last glacial maximum, with subsequent southward range expansion revealed by low genetic diversity in southern populations. These results are consistent with limited dispersal at the gamete and zygote stage, expected in fucalean algae, but with occasional long distance dispersal by detached floating thalli. The genetic signature suggests these two modes of dispersal are decoupled. Internal Transcribed Spacers sequences show little differentiation between C. maschalocarpum and C. angustifolium, and hybridisation was found in several populations where these species are broadly sympatric. In the Bay of Plenty the two species had different ITS ribotypes, but most C. angustifolium specimens had a mitochondrial spacer haplotype that clustered with C. maschalocarpum haplotypes. This indicates mitochondrial introgression from C. maschalocarpum into C. angustifolium. In Northland species were difficult to separate by morphology or molecular markers, and some populations appear to be comprised entirely of hybrids. Genetic distances between different species of Cystophora are very variable, and in some cases intra-species distances are similar to interspecies distances. This is problematic for DNA barcoding methods that rely on thresholds between inter-species and intra-species genetic distances. In some (but not all) cases, the absence of molecular differentiation can be attributed to oversplitting of Cystophora species by morphological methods, and I synonymise C. congesta with C. retroflexa, and C. distenta with C. scalaris. These studies exemplify the difficulties of delimiting species in brown algae: Morphology is often misleading or uninformative; genetic differentiation of species is very variable and often low; and species’ histories show complex patterns of isolation and secondary contact. I argue for an explicitly historical concept of species, with species’ history included in species descriptions.</p>

Conserving Endemic Plant Species in Oceanic Island’s Protected Areas

Oceanic islands are known for their high levels of plant diversity, due to disjunct geographical distribution that leads to speciation. The main factors contributing to genetic speciation includes the creation of a barrier within a previously widely distributed taxon and the limited dispersal of seeds, which favours genetic differentiation and, thus, fosters rapid speciation. Plant survival and population fitness vary according to environmental factors and to human interference. This chapter depicts the importance of oceanic islands as biodiversity hotspots, discusses the threats to which endemic plants on islands are exposed, namely climate change, invasive alien species, urbanisation, touristic activities, fire, changes in agriculture practices and collecting pressure. The best practices worldwide to protect endemic plant species in protected areas are also addressed, namely the implementation of prevention and mitigation actions, the programs executed to protect endemic species, and management plans to avoid future threats.

Overlooked Species Diversity and Distribution in the Antarctic Mite Genus Stereotydeus

In the harsh Antarctic terrestrial ecosystems, invertebrates are currently confined to sparse and restricted ice free areas, where they have survived on multi-million-year timescales in refugia. The limited dispersal abilities of these invertebrate species, their specific habitat requirements, and the presence of geographical barriers can drastically reduce gene flow between populations, resulting in high genetic differentiation. On continental Antarctica, mites are one of the most diverse invertebrate groups. Recently, two new species of the free living prostigmatid mite genus Stereotydeus Berlese, 1901 were discovered, bringing the number of Antarctic and sub-Antarctic species of this genus up to 15, of which 7 occur along the coast of Victoria Land and in the Transantarctic Mountains. To examine the biodiversity of Stereotydeus spp., the present study combines phylogenetic, morphological and population genetic data of specimens collected from nine localities in Victoria Land. Genetically distinct intraspecific groups are spatially isolated in northern Victoria Land, while, for other species, the genetic haplogroups more often occur sympatrically in southern Victoria Land. We provide a new distribution map for the Stereotydeus species of Victoria Land, which will assist future decisions in matters of the protection and conservation of the unique Antarctic terrestrial fauna.

Mycorrhizal types influence island biogeography of plants

Plant colonization of islands may be limited by the availability of symbionts, particularly arbuscular mycorrhizal (AM) fungi, which have limited dispersal ability compared to ectomycorrhizal and ericoid (EEM) as well as orchid mycorrhizal (ORC) fungi. We tested for such differential island colonization within contemporary angiosperm floras worldwide. We found evidence that AM plants experience a stronger mycorrhizal filter than other mycorrhizal or non-mycorrhizal (NM) plant species, with decreased proportions of native AM plant species on islands relative to mainlands. This effect intensified with island isolation, particularly for non-endemic plant species. The proportion of endemic AM plant species increased with island isolation, consistent with diversification filling niches left open by the mycorrhizal filter. We further found evidence of humans overcoming the initial mycorrhizal filter. Naturalized floras showed higher proportions of AM plant species than native floras, a pattern that increased with increasing isolation and land-use intensity. This work provides evidence that mycorrhizal fungal symbionts shape plant colonization of islands and subsequent diversification.