Size-dependent impacts of invasive alien crayfish on a littoral marsh community

The invasive signal crayfish (Pacifastacus leniusculus) may undergo ontogenetic diet shifts with increasing size, but the consequences of crayfish size-structure changes for aquatic food webs are little known. We evaluated size-dependent impacts of signal crayfish on a littoral marsh food web using in-situ enclosures in a northern Japanese marsh. During the 60-day experiment, large crayfish (<30 mm orbital carapace length) rapidly eliminated submerged macrophytes through mechanical destruction while the comparable impacts of small crayfish (>30 mm) appeared after more time had passed. Benthic algal biomass was reduced in the presence of large crayfish but was affected little by small crayfish, suggesting that large crayfish were significant bioturbators. On the other hand, total invertebrate biomass was reduced while total invertebrate density was enhanced in the presence of both crayfish size classes. Potential crayfish impacts on invertebrates are: (1) predation on large vulnerable taxa such as Trichoptera and predatory invertebrates, (2) mechanical destruction of macrophytes, thereby reducing microhabitats for invertebrates, (3) heightened emigration of invertebrates in response to bioturbation and/or (4) predation or competition release on small invertebrates as a result of crayfish reducing their predators/competitors. Invertebrate taxa richness was nearly halved in the presence of large crayfish, probably reflecting reductions of rare taxa. Overall, functional roles of signal crayfish as omnivores and ecosystem engineers remained similar during the ontogenetic stage but the magnitude and rate of crayfish impacts intensified with increasing crayfish size. Thus, removal of large invasive crayfish alone may reduce detrimental impacts on aquatic biodiversity.     

Capturing genetic diversity of wild populations for <Emphasis Type="Italic">ex situ</Emphasis> conservation: Texas wild rice (<Emphasis Type="Italic">Zizania texana</Emphasis>) as a model

Genebanks complement other conservation programs because they preserve genetic diversity needed for future breeding and restoration. We evaluated efficiency of capturing genetic diversity, using endangered Zizania texana (Texas wild rice) as a model for plants with recalcitrant seeds. This perennial aquatic grass is restricted to 4 km of the San Marcos River in Texas. An early conservation collection included plants from stands throughout the river, based on the assumption stands would be unique genotypes. Using microsatellite markers, we found that genetic diversity was concentrated in five of 15 large, demographically stable stands; 96 stands smaller than 2 m² contributed no unique alleles. High heterozygosity and few duplicate genotypes suggested that sexual reproduction occurs more often than presumed. Simulations of stratified sampling of large stands captured all alleles in only 45 individuals, while random sampling along the river captured much less diversity. The early conservation collection captured as much diversity as expected from random sampling. Texas wild rice stands resemble a mainland-island metapopulation; our analyses suggest that stratified sampling maximizes genetic diversity for this population dynamic. Demographic and genetic information is important for validating the design of efficient ex situ collections and guiding in situ conservation.     

Barriers and flow as limiting factors in the spread of an invasive crayfish (Procambarus clarkii) in southern California streams

Invasive crayfish are a major threat to stream ecosystems, yet research has seldom identified successful ways of preventing their spread. Thirty-two stream sections were surveyed during 2000 and 2001 in the Santa Monica Mountains of southern California to determine the distribution of the invasive crayfish Procambarus clarkii. Streams with large barriers (waterfalls, culverts) often did not have crayfish present upstream of barriers. A mark-recapture study indicated that P. clarkii moved both up and downstream between pools, but that barriers significantly reduced movement between pools. Seasonal high flow velocities likely increase passive movement downstream and reduce movement upstream. Results indicate that crayfish mainly spread downstream from a point of colonization and are restricted in their movement to adjacent upstream sections by both natural and artificial barriers. We suggest management strategies for removing invasive crayfish and reducing their spread by focusing on smaller stream segments that are bounded by a downstream barrier and by timing removal efforts to follow large flow events.     

Mark-recapture with occasion and individual effects: Abundance estimation through Bayesian model selection in a fixed dimensional parameter space

We present a Bayesian mark-recapture method for explicitly communicating uncertainty about the size of a closed population where capture probabilities vary across both individuals and sampling occasions. Heterogeneity is modeled hierarchically using a continuous logistic-Normal model to specify the capture probabilities for both individuals that are captured on at least one occasion and individuals that are never captured and so remain undetected. Inference about how many undetected individuals to include in the model is accomplished through a Bayesian model selection procedure using MCMC, applied to a product space of possible models for different numbers of undetected individuals. Setting the estimation problem in a fixed dimensional parameter space enables the model selection procedure to be performed using the freely available WinBUGS software. The outcome of inference is a full “posterior” probability distribution for the population size parameter. We demonstrate this method through an example involving real mark-recapture data.     

Mechanisms underlying the failure of an attempt to eradicate the invasive Asian musk shrew Suncus murinus from an island nature reserve

The Asian musk shrew Suncus murinus is an invasive predator that has had a considerable impact on biodiversity. An eradication was attempted from Ile aux Aigrettes, a 25-ha island reserve off the coast of Mauritius as part of a wider restoration program. A total of 759 shrews were removed using up to 1112 live-traps, in six trapping sweeps of the island. After the first four sweeps, in which 705 shrews were caught, complete eradication appeared to have been achieved, with only four shrews caught in the next three months. However, thereafter shrew captures increased and after six months shrews were again being captured in large numbers. We examine three hypotheses for the failure of the eradication program: (i) low efficiency of all traps (‘low efficiency’ hypothesis); (ii) low trap efficiency in certain locations (‘refuge’ hypothesis); and (iii) presence of trap-shy individuals (‘trap-shy’ hypothesis). We constructed an individual-based simulation of the first four trapping sweeps to predict expected patterns of shrew capture for different shrew densities and capture probabilities and in the presence of trapping ‘refugia’. The observed patterns of capture were not consistent with the expected patterns of capture under the ‘low efficiency’ and ‘refuge’ hypotheses, but were intuitively consistent with the ‘trap-shy’ hypothesis. We use the results from this study to help plan future eradication programs for S. murinus.     

Does natural acidity mediate interactions between introduced brown trout, native fish, crayfish and other invertebrates in West Coast New Zealand streams?

The presence of introduced brown trout (Salmo trutta) on the distribution of native crayfish (Paranephrops planifrons), native galaxiid fishes (Galaxias spp.) and invertebrate fauna was investigated in 18 West Coast New Zealand streams (8 with trout and 10 without trout) differing in chemical characteristics. Gut contents of trout, crayfish and eels were also examined to evaluate whether competition or predation could be linked to the patterns found. Abundances of crayfish and galaxiids were significantly lower in streams with trout, but in streams without trout, substrate size was one of the most important factors determining crayfish abundance. In contrast to crayfish, other macroinvertebrates were more abundant in trout streams than streams without trout and significantly more taxa were found in streams with trout. Macroinvertebrate abundance was related to environmental factors, such as pH, substrate, depth and total nitrogen. Gut content analysis showed an overlap in diet (mostly invertebrates) between trout and eels. Crayfish, however, had a more omnivorous diet where detritus was the most frequently occurring food material. Differences in chemical characteristics marked the streams with and without trout. Thus, trout were not present in streams with pH < 6.0. Crayfish and galaxiids were present in streams with pH ranging from 4.1 to 7.9, and those with pH < 6.0 may function as trout-free refuges where larger populations of these species may persist. However, other macroinvertebrate taxa may be more negatively affected by acidification than by trout. By protecting naturally acidic, brown water streams, New Zealand crayfish and galaxiid fish populations can be conserved within geographic areas where trout are present.     

Genetic insights into population recovery following experimental perturbation in a fragmented landscape

We investigated the mechanism of population recovery in the Australian bush rat, Rattus fuscipes, following experimental perturbation in a fragmented landscape. Our study involved genetic monitoring over 24 months following the removal of animals from seven sites by intense trapping. A total of 171 bush rats was removed and statistical analysis confirmed a significant knockdown. At one site, local extinction followed the perturbation, while population sizes at 24 months varied from 37% to 90% of the original population size at the remaining sites. The outcomes of genetic analysis at 11 microsatellite loci and mtDNA indicated that population recovery was achieved predominantly by residual animals: recovery populations were genetically more similar to their respective pre-treatment population than near neighbours; assignment tests detected few immigrants; there was no influx of new immigrant alleles and haplotypes. This finding is consistent with emerging evidence for restricted gene flow in bush rats. The local extinction observed at one site indicate that, under severe perturbation restricted dispersal limits opportunities for, and the rate of, population recovery. Thus, while the bush rat appears resilient to substantial population size perturbation, once a critical minimum population size threshold has been reached, this species may be susceptible to local extinction. We concluded that some widespread species currently predicted to be extinction-resilient may, in fact, be at risk if localized extinctions occur and dispersal limitations prevent recolonisation.     

How well does a botanical garden collection of a rare palm capture the genetic variation in a wild population?

Conservation is increasingly central to the botanic garden mission. Living plant collections are important components of conservation. Critical evaluation of living conservation collections with population genetic analysis can directly inform ex situ conservation strategy. Here, we quantify the degree of genetic variation captured through a population-based collection protocol, and explore optimal sampling for ex situ conservation. An extensive living collection derived from one population of Leucothrinax morrisii (Arecaceae) provided a model system. We compared 58 specimens from the ex situ collection with 100 individuals from throughout the parent population via 6 ISSR loci. Random bootstrapped resamples of the data were made to model differently structured ex situ collections. Mean diversity (He) differed little between the collection (0.204) and the population (0.216), and genetic distance (D) was very close (0.036). Very few private alleles were found between the collection and the population. Allelic capture, as measured by percent of private alleles, was greater than 94%. Resampled collections of different sizes captured from 48% to 94% of alleles. Pairwise comparison of bootstrapped resamples suggests that increasing the representation of half-sibling groups does not significantly increase allele capture. Increase in allele capture with increasing sample size is greatest at low resample sizes, and showed diminishing returns as resample size increased. No appreciable increase in allele capture was gained through maintaining different half-sibling groups. These data inform sampling for ex situ conservation purposes, and recommend sample sizes of at least 15 individuals, with the upper limit based on resources.     

Ecology of the native and introduced crayfishes Austropotamobius pallipes and Procambarus clarkii in southern Spain and implications for conservation of the native species

The former and present distribution of white clawed crayfish (Austropotamobius pallipes) in the province of Granada (southern Spain) is studied. Before 1980 it was widely distributed but at present only 16 populations exist. The decline is related to the presence of the freshwater red-swamp crayfish (Procambarus clarkii), an American species, vector of the aphanomycosis disease, introduced to the Iberian Peninsula in 1974 and now widely distributed in the watercourses and marshes of southern Spain. To establish an appropriate conservation policy for A. pallipes at its southernmost distribution limit, we studied watercourses from two river basins, Genil and Guadiana Menor, (tributaries of the Guadalquivir River). P. clarkii inhabits the medium to lower reaches of these two river basins (with its upper limit at 820 m a.s.l.). The distribution of this species was best explained by the effect of three of the 12 analyzed variables: altitude, water-current and minimum winter temperatures. From our results, the repopulation of the native crayfish is almost impossible in those reaches inhabited by P. clarkii. However, based on the habitat selection study, it is clear that upper reaches are unsuitable for the red-swamp crayfish, where the native white-clawed crayfish may have greater survival possibilities, and these sites can be used for future restocking projects.     

Inference on Partially Observed Quasi-stationary Markov Chains With Applications to Multistate Population Models

If the full capture histories of captured individuals are available, inferences on multistate open population models may be conducted using the well known Arnason–Schwarz model. However, data of this detail is not always available. It is well known that inference on the transition probabilities of a Markov chain may be conducted using aggregate data and we extend this approach to aggregate data on multistate open population models. We show that for parameters to be identifiable we need to augment the aggregate data and we achieve this by batch marking a cohort of individuals according to their initial state, so that the batch marking augments the aggregate data. Model performance is examined by conducting several simulation studies and the model is applied to a real data set where full capture histories are available so it may be compared with the Arnason–Schwarz estimates. This article has supplementary material online.     

直线形围栏陷阱系统对玉米地鼠情的监测效果

围栏陷阱(trap-barrier system,TBS)技术自2008年起在我国许多省市进行应用性试验和推广,已有的研究多是注重防治效果,虽有多位作者设想该技术还可用于鼠情监测,但尚少见针对性试验和全面的数据支持。为研究直线形围栏陷阱系统(linear trap-barrier system,L-TBS)用于农田鼠情监测的科学依据,探索L-TBS所获鼠情资料与常规性夹夜法的对应关系,2015年5—10月在新疆博乐市玉米地进行了两种方法监测效果的对比试验。通过同一区域、不同地点、操作方式一致的3组重复试验,L-TBS监测的农田害鼠种类、种群数量动态与繁殖特征,皆与夹夜法结果吻合:鼠种组成百分比卡方检验,小家鼠x~2=1.50,灰仓鼠x~2=0.54,均小于X20.01;两种方法的繁殖特征相关性检测,性比r=0.710 0,怀孕率r=0.926 8,睾丸下降率r=0.869 2,繁殖指数r=0.940 0,均显著正相关。而L-TBS因能捕获幼体而更全面反映种群年龄结构;L-TBS还能捕获夹夜法难以捕获的鼩鼱,可用于防疫监测。由L-TBS法(X)与夹夜法(Y)获得的优势种小家鼠捕获率极显著正相关,回归方程y=0.143 1+0.146 5x(d.f.=42,r=0.707 7,P=0.000 0),展示了其与夹夜法的关联性。研究证明:在6.67 hm2农田边设置60 m长的L-TBS可以达到鼠害防治与监测的目的,比常规夹夜法具更省工、省力、安全,具有可操作性强的优点;而L-TBS比矩形TBS更便于机械化农事操作,适于农田推广应用。     

Effectiveness of a small marine reserve in southern China in protecting the harvested sea urchin Anthocidaris crassispina: A mark-and-recapture study

Assessment of the effectiveness of protected areas requires information on population characteristics of the target species. This study used a mark-and-recapture approach to examine the population structure, individual growth, and mortality of the commercially harvested short-spined sea urchin Anthocidaris crassispina in a small (18 ha) no-take marine reserve and two nearby non-protected sites. Sea urchins were tagged with fluorochrome and recaptured 1 year later. The size-at-age relationship was modelled using the Tanaka function, and mortality estimated using an exponential decay function coupled with the Tanaka growth parameters. The urchin population in the reserve consisted of a higher proportion of older individuals than populations in the two non-protected areas, however, large sea urchins (>50 mm) were absent in the reserve. Sea urchins occurring at high densities (>15 ind. m⁻²) in the reserve grew much slower than those outside the reserve, suggesting a density-dependant effect on growth. Growth ring analysis from the rotulae supported the mark-and-recapture results with the maximum number of rings being higher in the reserve than in non-protected sites. Urchins with the same number of growth rings inside the reserve were smaller than those outside the reserve. Within the reserve, urchins with the same number of growth rings were smaller at locations with higher urchin density. Annual mortality rate was lower in the reserve population than in the non-protected populations. These results illustrate the effectiveness of this small reserve in protecting A. crassispina from fishing. However, further study is required to examine whether a high density of small/old individuals is better than a medium density of large individuals in order to maximize the potential spillover of larvae by such small urchin refugia to the surrounding overfished areas.     

Development of population control strategies for mink Mustela vison, using floating rafts as monitors and trap sites

We describe a raft designed to act both as a monitoring device and as a trap site for American mink, Mustela vison. The raft uses a wet tracking medium to record footprints. It was evaluated during summer in a chalk-stream river catchment in central southern England. The raft detected mink at significantly more sites (55%) than did either owners and managers relying on field observation and trapping (19%), or established biological survey techniques (33%).

The primary value of the raft is seen to be in experimental field research to determine appropriate policies for mink management. In the pilot application described, rafts were used to derive a minimum mink population estimate for the catchment, and to determine the benefit of a commercially available scent attractant for mink. The raft also has immediate value in management to improve several aspects of trapping for mink population control: efficiency, non-target involvement, and post-removal monitoring.     

Evaluating simultaneous impacts of three anthropogenic effects on a floodplain-dwelling marsupial Antechinus flavipes

Regulation of river flows has altered floodplain ecosystems around the world. Floods are less frequent, which leads to reduction of favourable environmental conditions for many terrestrial and aquatic organisms adapted to natural flooding regimes. In Australia, the Murray River floodplains have been subjected to decline in inundations, to extensive logging and to removal of fallen timber. The yellow-footed antechinus (Antechinus flavipes) is the only small, native, ground-dwelling/semi-arboreal mammal on most floodplains of south-eastern Australia, yet the effects of floods on its population dynamics largely are unknown. Here, we found positive effects of proximity to flooding, higher woodloads and of abundance of large, hollow-bearing trees on antechinus numbers. Mean trapping rates of antechinuses were lowest in 2003 following a 3-year period with no inundation, higher in 2004 following the first breeding season during a small, controlled flood in 2003, and higher again in 2005, following a small, controlled flood in 2004. In 2004 and 2005, trapping rates declined with distance from floodwaters. This study provides evidence for the benefits of using management flows to inundate floodplains, conserving large trees and ensuring high woodloads in floodplains for sustaining populations of the yellow-footed antechinus.     

Late-arriving barn swallows linked to population declines

Barn swallows (Hirundo rustica) are arriving later in the spring than they did 30–40 years ago at numerous sites in Korea. In some cases their arrival times are later by more than 1 month. This result is perplexing as spring activities of plants and animals are generally getting earlier due to warming temperatures. The first arrival dates of swallows are not related to temperature, suggesting that another factor is involved. On the basis of a questionnaire, a large majority of long-term observers are confident that there has been a moderate to severe decline in swallow populations at their field site over the study period. The greatest delays in arrival times are associated with sites with more severe reported declines in population size. Simulations using trapping data of large migratory bird populations from the United States, consisting of hundreds of individuals, suggest that severe population declines of 99% can result in delays of 10–12 days in arrival times. In summary, our results suggest that the large delays in arrival time of Korean swallows are due, at least in part, to severe reductions of more than 99% in what were formerly very large populations. Significant delays in spring phenology over time during a period of climatic warming may indicate population decline, though alternative explanations, such as changes in range or migration path or changing number of broods per season, should also be investigated. Delays in first arrival data can provide a valuable new tool to conservation biologists by indicating declines in a population that would otherwise go unnoticed. This can, in turn, lead to efforts by researchers to verify the dynamics of a population and draw attention to the conservation needs of the species.     

Local population structure of a naturally occurring metapopulation of the quokka (Setonix brachyurus Macropodidae: Marsupialia)

We investigated the population structure of the quokka (Setonix brachyurus) on the mainland of Western Australia using mark–recapture techniques. Seven previously known local populations and one unconfirmed site supporting the preferred, patchy and discrete, swampy habitat of the quokka were trapped. The quokka is now considered as locally extinct at three sites. The five remaining sites had extremely low numbers, ranging from 1 to 36 individuals. Population density at these sites ranged from 0.07 to 4.3 individuals per hectare. There has been no response to the on-going, 6 year fox control programme occurring in the region despite the quokkas’ high fecundity and this is due to low recruitment levels. The remaining quokka populations in the northern jarrah forest appear to be the terminal remnants of a collapsing metapopulation.     

Improving density estimates for elusive carnivores: Accounting for sex-specific detection and movements using spatial capture–recapture models for jaguars in central Brazil

Owing to habitat conversion and conflict with humans, many carnivores are of conservation concern. Because of their elusive nature, camera trapping is a standard tool for studying carnivores. In many vertebrates, sex-specific differences in movements – and therefore detection by cameras – are likely. We used camera trapping data and spatially explicit sex-specific capture–recapture models to estimate jaguar density in Emas National Park in the central Brazilian Cerrado grassland, an ecological hotspot of international importance. Our spatially explicit model considered differences in movements and trap encounter rate between genders and the location of camera traps (on/off road). We compared results with estimates from a sex-specific non-spatial capture–recapture model. The spatial model estimated a density of 0.29 jaguars 100 km⁻² and showed that males moved larger distances and had higher trap encounter rates than females. Encounter rates with off-road traps were one tenth of those for on-road traps. In the non-spatial model, males had a higher capture probability than females; density was estimated at 0.62 individuals 100 km⁻². The non-spatial model likely overestimated density because it did not adequately account for animal movements. The spatial model probably underestimated density because it assumed a uniform distribution of jaguars within and outside the reserve. Overall, the spatial model is preferable because it explicitly considers animal movements and allows incorporating site-specific and individual covariates. With both methods, jaguar density was lower than reported from most other study sites. For rare species such as grassland jaguars, spatially explicit capture–recapture models present an important advance for informed conservation planning.     

Restoration versus recolonisation: The origin of Atlantic salmon (Salmo salar L.) currently in the River Thames

Since the 1970s, when major improvements to the water quality were made, the River Thames has been subject to a high-profile project aimed at restoring Atlantic salmon to the catchment. Whilst initially successful, with hundreds of salmon returning each year in the late 1980s, the number of adults returning to the river has declined steeply again in recent years, reaching a low in 2005 when no salmon were recorded. Using a baseline of genetic information gathered from 3830 salmon from throughout their southern European range, and incorporating samples from the hatchery fish used to stock the Thames, all 10 tagged hatchery fish captured in 2003 and all 16 returning untagged adult salmon captured between 2005 and 2008 were assigned to their most likely river of origin. The results suggest that untagged salmon currently ascending the river originate not from exogenous fish stocked into the Thames, but predominantly from other rivers in southern England. This highlights the potential for natural processes of recolonisation to operate in rivers where salmon have become locally extirpated. These findings also underscore several important considerations when undertaking species restoration projects: (i) previous causes of declines must be sufficiently ameliorated to allow new/translocated individuals to thrive, (ii) introduced individuals should originate from a stock that is closely related to the extirpated population, according to the principles of contemporary conservation biology, and (iii) dispersal and gene-flow from neighbouring populations may play a significant role in establishing new populations.     

Does reproductive plasticity in Lumbricus rubellus improve the recovery of populations in frequently inundated river floodplains?

Flooding events often eradicate all of the individuals of the earthworm species Lumbricus rubellus living in river floodplains, although earthworm cocoons usually survive immersion, permitting populations to recover after the flood waters recede. Yet, if the area is flooded again before earthworms hatching from cocoons or migrating from adjacent areas reach reproductive maturity, it is unlikely that their populations will recover. The objective of this study is to determine the importance of the length of the dry period for population recovery in L. rubellus. Earthworms were collected at three floodplain sites along the Rhine River that were frequently, moderately or seldom flooded. Reproductively mature L. rubellus from the frequent flooded site were half the weight and probably younger than those from the other sites. A mechanistic population model was used to estimate the time for earthworm development from hatching to reproductive maturity, and to calculate the probability of population recovery after flooding. The model results show that the probability of extinction increases when the dry period is not long enough for individuals to reach reproductive maturity. When this condition is met population extinction is virtually absent resulting from the high lifetime reproductive output of L. rubellus. Parameterization of the model with site-specific data indicate that population survival on the site with the shortest dry period drastically decreases if worms mature at the weight measured at the other sites. The results therefore strongly suggest that the dry period is critical for population recovery in river floodplains and that earthworm populations have adapted to local (site-specific) conditions.