Habitat evaluation for crested ibis: A GIS-based approach

We evaluated habitat quality for crested ibis (Nipponia nippon) using a geographic information system (GIS). First, we digitized the topography map, vegetation map, river map, road map and villages/towns map by ArcInfo, and gave each map layer a suitability index based on our perceptions of the needs of crested ibis. Second, we overlayed these maps to obtain an integrated map of habitat quality. Finally, we compared the calculated habitat quality with the actual distribution of crested ibis. We found that the birds were almost always located at the site of high quality (habitat suitability index [HSI]>0.6), which indicated that the factors we selected were important for crested ibis. We also found that crested ibis were never located at some sites of high quality, thus, we assume that other factors not considered in this study limit the distribution of crested ibis. Regression analysis indicated that crested ibis preferred lower elevation habitats and tolerated higher levels of human disturbance in recent years than previously reported. These results reflected a 20-year protection program for this species.     

用组合模型综合比较的方法分析气候变化对朱鹮潜在生境的影响

气候变化的不确定性和物种与环境关系的不确定性使气候变化生物学的研究充满变数。为了降低不确定性,人们开始用组合模型综合比较的方法研究物种对气候变化的响应。以朱鹮(Nipponia nippon)为研究对象,介绍组合模型综合比较方法的特点。朱鹮曾经高度濒危,目前种群大小在迅速恢复中;然而其分布区依旧狭小,气候变化可能是朱鹮面临的新威胁。应用BIOMOD模型中的9种模型,选择了每年的最低温和最高温、温度的季节性变异、每年的总降水量和降水的季节性变异共5个气候因子,依据WorldClim气候数据的CGCM2气候模型的A2a排放情形,计算了朱鹮当前(1950—2000年)的适宜生境和2020年、2050年、2080年3个阶段的潜在生境范围。结果表明朱鹮潜在生境将逐渐北移,生境中心脱离现在的保护区。因此,制定朱鹮的长期保护策略是必要的。9个模型在预测结果上、变量权重上和拟合优度的指标上都有差异,反映了模型本身的不确定性。气候变化的生物学效应比较复杂,应用多个模型进行综合比较,可以尽可能地减少模型所导致的误差。     

基于MaxEnt模型的道路对朱鹮繁殖地的影响

道路对野生动物适宜繁殖地影响的定量研究是目前道路生态学领域有待深入的内容之一.本文以国家一级保护动物朱鹮为研究对象,利用物种分布模型(SDM)中MaxEnt模型,通过对影响朱鹮繁殖地的环境变量进行自相关分析,剔除自相关系数大于0.8的环境变量,最终选择了10个环境变量为朱鹮繁殖地的影响因子,分别为最冷季度平均气温、景观类型、归一化植被指数、坡度、坡向、距水体距离、距水田距离、距高等级公路(县级及以上道路)距离、距低等级公路(乡镇和林间道路)距离、距居住地距离.通过对环境变量的贡献率进行分析表明: 最冷季度平均气温、景观类型以及距水田距离、距高等级公路距离是影响朱鹮筑巢的主要因子.分别研究了含道路变量(情景Ⅰ)、不含高等级公路(情景Ⅱ)以及不含低等级公路(情景Ⅲ)3种情景下朱鹮繁殖地适宜区分布.结果表明:道路对朱鹮繁殖地干扰影响显著,高等级公路的影响比低等级公路大,高等级公路和低等级公路的存在分别使朱鹮繁殖地适宜区的面积减小了66.23和35.69 km².朱鹮筑巢对高等级公路有明显的回避效应,平均回避距离为1500 m.本研究对未来制定朱鹮的保护管理措施具有重要意义,同时可为工程建设项目对野生动物的环境影响定量评价提供应用示范.     

Current state and the future of the crested ibis (Nipponia nippon): A case study by population viability analysis

There is only one population of the crested ibis (Nipponia nippon) surviving in the wild, which has not exceeded 40 individuals since it was rediscovered in 1981. We used detailed data of the annual population size and natality collected by the Crested Ibis Conservation and Observation Station (CICOS) over the past 17years. We were able to obtain a more accurate census of age structure and mortality as all of the fledglings have been identified by leg bands in 1987. Consequently, we analyzed the current state of the crested ibis and predicted its future using Population Viability Analysis (PVA) with the help of the computer simulation model VORTEX (Version 7.2). The results indicated that the extinction probability of the crested ibis was 19.7% in 100years. Sensitivity analysis showed that the extinction probabilities were sensitive to catastrophes and environmental variation, and the long-term existence of the population was dependent on the carrying capacity of the habitat and inbreeding depression. Conservation efforts are critical for the survival of the crested ibis. The prior conservation project involves controlling hunting and predation, as well as improving the life level of these few remnant creatures.     

中国珍稀濒危物种——朱鹮

朱曾广泛分布于中国、日本、朝鲜半岛和俄罗斯的远东地区。其它国家的朱先后灭绝,目前只栖息于我国,为我国所特有,是我国四大国宝之一,当今世界极濒危级鸟类。1981年朱在陕西洋县重新被发现时其种群数量只有7只,经20余年的保护,目前我国朱的总数已达到700余只,人工繁殖也取得巨大成功。笔者想通过本文唤起人们对生活在西部边远地区的我国珍稀鸟类———朱的关注与保护。     

Molecular Cloning and Biochemical Analysis of Tyrosinase from the Crested Ibis in China

The crested ibis, one of the most endangered birds in the world, could benefit from research into its genetic diversity as a tool for conservation in the future. Tyrosinase is thought to play a major role in the production of common yellow to black melanins in birds. We have cloned and sequenced four exons of the crested ibis tyrosinase gene and discovered that the amino acid sequence has high similarity to zebra finch tyrosinase (93?%), followed by chicken (91?%) and quail (91?%). Some functional and structural domains in the crested ibis tyrosinase coding area were found to be conserved during evolution. Nine sequence variants were found in the partial coding sequence, one in exon 1 and eight in exon 4. Sequence variant 1 (SV1) shows intermediate polymorphism (0.25?<?PIC?<?0.5), and further study is needed to determine whether it can be used as a potential molecular marker in crested ibis artificial breeding programs.     

Potential distribution of the critically endangered dragonfly Libellula angelina (Odonata: Libellulidae) under shared socio-economic pathways

Libellula angelina is an endangered dragonfly species that is native to East Asia. Recently, their population has become severely reduced through habitat loss. To protect L. angelina populations, we need to understand which factors determine their distribution and how their potential habitats will change in the future. In this study, the habitat preference of L. angelina was identified through field surveys, and the potential distribution of L. angelina and the impact of integrated climate–land cover changes were simulated using the MaxEnt model. Furthermore, the wetland loss scenario was applied to areas where the current trend in wetland loss will continue in the future. The field survey identified that L. angelina prefers small inland wetlands: permanent freshwater, ponds; permanent rivers, ponds; irrigated land; and estuarine waters. From the MaxEnt results, altitude was the variable with the greatest contribution and distance from wetlands was the most unique variable. MaxEnt described the geographic pattern of occurrences under the current climate well, with few areas requiring any further survey. In the future projection, the potential habitat area was increased by up to 48.8% and 30.6% in the 2050s and 2080s, respectively. However, potential habitat loss was expected if wetlands continue to decline as they have done in the last 20 years. The wetland loss scenario resulted in potential habitat losses of 1.9%–2.3% and 4.5%–6.1% in the 2050s and 2080s, respectively. Therefore, to protect L. angelina populations we must minimize the loss of current populations, secure wetlands and strengthen the connectivity between wetlands.     

Capturing American White Ibises in urban South Florida using two novel techniques

As many wildlife species, including wading birds, adapt to anthropogenic landscapes and, in some cases, exhibit altered behaviors, studies that involve capturing birds may require new methods better suited for use in urban areas and to accommodate altered animal behavior. We developed two novel techniques, a leg lasso and flip net, for capturing American White Ibises (Eudocimus albus) in urban environments in southern Florida, and also used a traditional technique (mist‐nets) in non‐urban wetland habitats. The flip net and leg lasso were developed to capture White Ibises habituated to the presence of humans. Ibises were captured in urban and wetland environments from October 2015 to August 2017 in Palm Beach, Broward, and Lee counties, Florida. We captured 6.0 ± 13.5 ibis/h with the flip net, 1.6 ± 0.8 ibis/h with the leg lasso, and 0.5 ± 2.6 ibis/h with mist‐nets. We captured larger (higher mass to tarsus length ratio) birds using the flip net and leg lasso than using mist‐nets, and captured more males with leg lassos than with other two techniques. The novel techniques we used are efficient, cost effective, easy to use, and also potentially useful for capturing other species of birds. Leg lassos and flip nets are also safe to use in populated areas for both birds and humans.     

Impacts of human‐induced environmental change in wetlands on aquatic animals

Many wetlands harbour highly diverse biological communities and provide extensive ecosystem services; however, these important ecological features are being altered, degraded and destroyed around the world. Despite a wealth of research on how animals respond to anthropogenic changes to natural wetlands and how they use created wetlands, we lack a broad synthesis of these data. While some altered wetlands may provide vital habitat, others could pose a considerable risk to wildlife. This risk will be heightened if such wetlands are ecological traps – preferred habitats that confer lower fitness than another available habitat. Wetlands functioning as ecological traps could decrease both local and regional population persistence, and ultimately lead to extinctions. Most studies have examined how animals respond to changes in environmental conditions by measuring responses at the community and population levels, but studying ecological traps requires information on fitness and habitat preferences. Our current lack of knowledge of individual‐level responses may therefore limit our capacity to manage wetland ecosystems effectively since ecological traps require different management practices to mitigate potential consequences. We conducted a global meta‐analysis to characterise how animals respond to four key drivers of wetland alteration: agriculture, mining, restoration and urbanisation. Our overarching goal was to evaluate the ecological impacts of human alterations to wetland ecosystems, as well as identify current knowledge gaps that limit both the current understanding of these responses and effective wetland management. We extracted 1799 taxon‐specific response ratios from 271 studies across 29 countries. Community‐ (e.g. richness) and population‐level (e.g. density) measures within altered wetlands were largely comparable to those within reference wetlands. By contrast, individual fitness measures (e.g. survival) were often lower, highlighting the potential limitations of using only community‐ and population‐level measures to assess habitat quality. Only four studies provided habitat‐preference data, preventing investigation of the potential for altered wetlands to function as ecological traps. This is concerning because attempts to identify ecological traps may detect previously unidentified conservation risks. Although there was considerable variability amongst taxa, amphibians were typically the most sensitive taxon, and thus, may be a valuable bio‐indicator of wetland quality. Despite suffering reduced survival and reproduction, measures such as time to and mass at metamorphosis were similar between altered and reference wetlands, suggesting that quantifying metamorphosis‐related measures in isolation may not provide accurate information on habitat quality. Our review provides the most detailed evaluation to date of the ecological impacts of human alterations to wetland ecosystems. We emphasise that the role of wetlands in human‐altered ecosystems can be complex, as they may represent important habitat but also pose potential risks to animals. Reduced availability of natural wetlands is increasing the importance of altered wetlands for aquatic animals. Consequently, we need to define what represents habitat quality from the perspective of animals, and gain a greater understanding of the underlying mechanisms of habitat selection and how these factors could be manipulated. Furthermore, strategies to enhance the quality of these wetlands should be implemented to maximise their conservation potential.     

朱鹮的潜在繁殖地

利用ErdasImagine8.4和ArcViewGIS对陕西省部分地区的卫片进行解译,分析其中的栖息地组成。结果表明,现有野生朱种群的最大繁殖地—花园繁殖区的栖息地组成为:马尾松林占73.1%,次生疏林占16.9%,农田占4.8%,稀疏灌木林占4.2%,油松栎类混交林占1.0%。使用彩色数字环标记重见法研究了朱繁殖期活动区的栖息地组成。根据花园繁殖地和朱鹮活动区内的栖息地组成,给各种栖息地赋予相应的适宜度值,以此作为朱鹮潜在繁殖地的评估标准。对卫片区域的评估结果表明,研究区内潜在的很适宜的繁殖地主要分布于洋县华阳镇周边、洋县花园乡周围地区、酉水河两岸山区、南郑县东南部和汉中西北部等地区,占总面积的5.2%;适宜的繁殖地占19.4%,不适宜繁殖的区域占75.4%。根据这个评估结果,野生朱鹮1995-2004年的97个巢中(花园繁殖地以外),87个(占89.7%)落入适宜的繁殖地中;野外核查的结果也表明,该评估方法的准确度达到88.4%。评估的误差主要源于遥感很难准确判别林木的生长状况(树高、胸径、密度等)和混交林中某些适于营巢的树种的存在,并忽略了小面积地块。因此,适当的野外核查可以提高该评估方法的准确度     

Exploring the connection of physical habitat health of the wetland with its gas regulating services

Many scholars assessed habitat health and measured gas regulation service of wetlands separately. However, no such targeted work was done to answer how habitat health can control gas regulation? Therefore, the present study investigated the role of habitat health on the gas regulation service of wetlands. Multi-parametric Machine Learning (ML) based modelling approach was applied to assess habitat health considering physical wetland hydrological factors and habitat degrading factors. Three primary atmospheric gas regulation functions of wetland, namely Methane (CH₄) emission, Carbon (C) sequestration, and Oxygen (O₂) release, were observed associating with habitat health. Very poor habitat health prevailed over 227 km² of wetland, whereas very good habitat health covered 299 km² of wetland. But out of the very good habitat health zone, 69% belonged to the perennial river of this region. On the other hand, it was estimated that the amount of annual CH₄ emission, C sequestration, and O₂ release from the wetlands of this region were respectively 8.01 × 1000 tons, 908.98 × 1000 tons and 664.51 × 1000 tons. The association of habitat health was positive with CH₄ emission and negative with C sequestration and O₂ release. Following the association, habitat health zone-wise variation of emission, sequestration, and release was also very prominent. The very good zone of habitat health was observed to have 60% higher CH₄ average emission and 56% lesser C sequestration than very poor habitat health.     

朱鹮随机微卫星扩增多态DNA（RMAPD）研究

首次利用RMAPD标记对43只洋县人工饲养朱鹮群体的遗传多态性进行了分析。结果表明,RMAPD技术的稳定性与多态性比RAPD高。12对引物共扩增出2147条带纹,93条具有多态性。朱鹮的条带共享率为0.718,遗传多样性指数为3.664,反映群体内个体间相似程度较高,遗传多态性较低,需要加强对朱鹮的遗传多样性保护。     

Habitat assessment of Marco Polo sheep (Ovis ammon polii) in Eastern Tajikistan: Modeling the effects of climate change

Identifying the factors predicting the high‐elevation suitable habitats of Central Asian argali wild sheep and how these suitable habitats are affected by the changing climate regimes could help address conservation and management efforts and identify future critical habitat for the species in eastern Tajikistan. This study used environmental niche models (ENMs) to map and compare potential present and future distributions of suitable environmental conditions for Marco Polo argali. Argali occurrence points were collected during field surveys conducted from 2009 to 2016. Our models showed that terrain ruggedness and annual mean temperature had strong correlations on argali distribution. We then used two greenhouse gas concentration trajectories (RCP 4.5 and RCP 8.5) for two future time periods (2050 and 2070) to model the impacts of climate change on Marco Polo argali habitat. Results indicated a decline of suitable habitat with majority of losses observed at lower elevations (3,300–4,300 m). Models that considered all variables (climatic and nonclimatic) predicted losses of present suitable areas of 60.6% (6,928 km²) and 63.2% (7,219 km²) by 2050 and 2070, respectively. Results also showed averaged habitat gains of 46.2% (6,106 km²) at much higher elevations (4,500–6,900 m) and that elevational shifts of habitat use could occur in the future. Our results could provide information for conservation planning for this near threatened species in the region.     

Macroinvertebrates as unreliable indicators of human disturbance in temporary depression wetlands of the south-western Cape, South Africa

Macroinvertebrates have a successful history of use as indicators of human impact in lotic environments. More recently, macroinvertebrate indices have been recommended for use in certain wetland types. Yet some authors do not recommend macroinvertebrates indices of wetland condition in areas with pronounced natural environmental heterogeneity. Our study provides a preliminary assessment of the feasibility of using macroinvertebrates for bioassessment of temporary isolated depression wetlands in the south-western Cape region of South Africa. We expected natural environmental heterogeneity among wetlands to exert a stronger influence on macroinvertebrates than human disturbance factors. Partitioning of the variation in macroinvertebrate assemblage composition that could be attributed to human disturbance factors (within and adjacent to wetlands), environmental variables and spatio-temporal factors indicated that environmental and spatio-temporal factors independent of human disturbances largely determined assemblage composition, whilst human disturbance played a relatively minor role. Linear regressions of taxon richness/diversity measures, individual families and a collation of metrics against measures of habitat transformation around wetlands and scores from a rapid assessment index of human disturbance revealed poor relationships. The univariate and multivariate patterns observed in this study do not lend themselves to the creation of a macroinvertebrate index of human disturbance for temporary wetlands in the region.     

中国朱鹮DNA多态性研究进展

朱鹮是我国四大国宝之一,世界极濒危级鸟类。朱鹮的遗传多样性保护研究将成为生物多样性保护研究中的热点。本文主要介绍了朱在蛋白质多态、随机扩增多态DNA、微卫星多态性、随机扩增微卫星多态性和线粒体DNA序列多态性方面的研究结果,表明中国朱群体遗传多态性的贫乏,并据此阐述了DNA多态性保护的相关对策。     

Immature mosquitoes in agricultural wetlands of the coastal plain of Georgia,U.S.A.: Effects of landscape and environmental habitat characteristics

This study is the first to report on the relationships between immature mosquitoes (larvae and pupae) and landscape and environmental habitat characteristics in wetlands associated with row crop agriculture. Indicator species analysis (ISA) was used to test for associations among mosquito species and groups of wetland sites with similar Landscape Development Intensity (LDI) values. Results indicated that Anopheles quadrimaculatus, Culex erraticus, and Psorophora columbiae were associated with agricultural wetlands (LDI > 2.0), whereas Anopheles crucians and Culex territans were associated with forested reference wetlands (LDI < 2.0) in both wet and dry years. The species fidelity to wetland type, regardless of the hydrologic regime, demonstrates these species are robust indicators of wetland condition. Data on immature mosquito assemblages were compared to selected landscape and environmental habitat variables using Akaike's Information Criterion (AIC_c) model selection. LDI indices, dissolved oxygen concentration, the proportion of emergent vegetation, and the proportion of bare ground in wetlands were important factors associated with the selected mosquito species. These results indicate that LDI indices are useful in predicting the distributions of disease vectors or other nuisance mosquito species across broad geographic areas. Additionally, these results suggest mosquitoes are valuable bioindicators of wetland condition that reflect land use and hydrologic variability.     

Genomic signatures of near-extinction and rebirth of the crested ibis and other endangered bird species

Background

Nearly one-quarter of all avian species is either threatened or nearly threatened. Of these, 73 species are currently being rescued from going extinct in wildlife sanctuaries. One of the previously most critically-endangered is the crested ibis, Nipponia nippon. Once widespread across North-East Asia, by 1981 only seven individuals from two breeding pairs remained in the wild. The recovering crested ibis populations thus provide an excellent example for conservation genomics since every individual bird has been recruited for genomic and demographic studies.

Results

Using high-quality genome sequences of multiple crested ibis individuals, its thriving co-habitant, the little egret, Egretta garzetta, and the recently sequenced genomes of 41 other avian species that are under various degrees of survival threats, including the bald eagle, we carry out comparative analyses for genomic signatures of near extinction events in association with environmental and behavioral attributes of species. We confirm that both loss of genetic diversity and enrichment of deleterious mutations of protein-coding genes contribute to the major genetic defects of the endangered species. We further identify that genetic inbreeding and loss-of-function genes in the crested ibis may all constitute genetic susceptibility to other factors including long-term climate change, over-hunting, and agrochemical overuse. We also establish a genome-wide DNA identification platform for molecular breeding and conservation practices, to facilitate sustainable recovery of endangered species.

Conclusions

These findings demonstrate common genomic signatures of population decline across avian species and pave a way for further effort in saving endangered species and enhancing conservation genomic efforts.

Electronic supplementary material

The online version of this article (doi:10.1186/s13059-014-0557-1) contains supplementary material, which is available to authorized users.     

Birds as indicators of wetland status and change in the North Rupununi,Guyana

In financially and human capacity poor countries, there is an important need to monitor the status of resource rich ecosystems in the face of growing extractive activities in simple and inexpensive ways. In this study we explore the potential of using birds as indicators of ecosystem change in the wetland systems of the North Rupununi, Guyana, where local communities rely heavily on wetland resources for their subsistence activities. This is done by (1) assessing what environmental factors determine bird communities at different spatial and temporal scales; and (2) identifying indicator groups and/or species for ecosystem status. We surveyed 31 wetland sites over 2 years, taking monthly recordings of both the environmental features of waterbodies using a modified version of the River Habitat Survey and bird species counts. Using multivariate analyses, we found that large-scale habitat type, namely forest and savanna, and waterbody type, namely pond or main river channel, were the main factors affecting bird species distribution. At the smaller scale, habitat features around the waterbody and seasonality become important factors. We were able to identify lists of bird species associated with different waterbody types, and we present this as a checklist for future monitoring. We hope these findings can be integrated into the adaptive management and sustainable livelihood goals of the local stakeholders through linking monitoring with tourism and local school curriculum activities.     

Differential physiological responses to prey availability by the great egret and white Ibis

In long-lived species, the balance between the benefits of reproduction and the costs from reduced survival or productivity is particularly challenging in dynamic environments like wetlands, where food levels vary greatly year to year. Some wetland species exhibit changes in reproductive strategies in response to food availability but whether physiological responses function in a similar manner is unclear. We compared the pre-breeding physiological responses (fecal corticosterone [FCORT], heat shock protein 60 [HSP60], and mass) of 2 species of wading birds with contrasting foraging strategies (great egret [Ardea alba], an exploiter, and white ibis [Eudocimus albus], a searcher) during years with contrasting levels of prey availability. Both species were in good physiological condition, with low levels of HSP60 and FCORT, during a year with high prey availability (2006). In a contrasting year with lesser prey availability (2007), HSP60 and FCORT concentrations indicated that ibis physiological condition was reduced, whereas egrets showed little change. Egrets and male ibis increased body mass, whereas female ibis decreased mass, in the year with low prey availability. Although poorly understood, we hypothesize that the differential response between female ibis and the others is associated with differential investment strategies based on long-term costs of reproduction. Model results identified prey availability and the 2-week water recession rate as the primary habitat variables that were associated with the physiological condition of white ibises, whereas great egret physiological condition was influenced mostly by 2-week water recession rate. Our results support the hypothesis that prey availability and hydrological factors play crucial roles in regulating populations of wading birds in the Florida Everglades. The results of this study show a more complete pathway by which hydrologic patterns affect wading birds, and it suggests that ibis are more sensitive to habitat conditions than are egrets. This information can be used to refine species models designed to evaluate water management scenarios and will improve our ability to manage and restore wetland ecosystems © 2012 The Wildlife Society.     

European human‐dominated landscapes provide ample space for the recolonization of large carnivore populations under future land change scenarios

Europe is currently being re‐colonized by large carnivore species such as brown bear Ursus arctos, Eurasian lynx Lynx lynx and grey wolf Canis lupus. Approximately one‐third of Europe currently hosts at least one of these large carnivore species: they show permanent occurrence in some regions and sporadic occurrence without reproduction in others. We investigated potential future range expansions of these three large carnivores using three different analyses. First, we compared niche overlap between the historical, current permanent and current sporadic occurrences using n‐dimensional hypervolumes. Second, we identified the environmental variables that best explain differences between current sporadic and permanent occurrences through multi‐model inference. Third, we projected permanent occurrences into the future across a range of land‐use change scenarios. We also determined future refuges (i.e. sub‐optimal habitat in the environmental model, good habitat in the human disturbance model) and ecological traps (i.e. good habitat in the environmental model, sub‐optimal habitat in the human disturbance model). In the three large carnivore species, ecological niche overlap was higher between historical and current permanent occurrences than between historical and current sporadic occurrences, and we also found low ecological niche overlap between current permanent and sporadic occurrences. Between 20 and 24% (corresponding to 86 800 to 173 200 km²) of the current sporadic occurrences could result in permanent settlement of large carnivores in the year 2040, while 17–24% (corresponding to 122 200 to 104 100 km²) and 2.7–4.6% (corresponding to 11 800 to 28 400 km²) of the current sporadic occurrences are likely to become refuges and ecological traps, respectively. Factors affecting range expansion are human activities, which were negatively related to permanent occurrences of all three species. In light of our results, human‐dominated European landscapes provide ample space for the future recolonization of large carnivores.