Restricted gene flow and genetic drift in recently fragmented populations of an endangered steppe bird

Identifying the genetic processes derived from habitat fragmentation is critical for the conservation of endangered species. We conducted an integrated analysis of genetic patterns in the endangered Dupont’s lark (Chersophilus duponti), a circum-Mediterranean songbird threatened by the loss and fragmentation of natural steppes in recent decades. After sampling all the remaining Spanish populations and the two closest North African ones, we found that the Mediterranean Sea acts as a major barrier against gene flow and that recent habitat fragmentation is isolating Spanish populations at different spatial scales. While we found a historical signal of gene flow among Spanish regions, a coalescent model supported that the ancestral panmictic population is evolving into several different units in the absence of current gene flow, genetic drift being more intense in the smaller and more isolated populations. Moreover, small-scale spatial autocorrelation analyses showed that genetic differentiation is also acting within populations. The spatial genetic structure, significant levels of inbreeding and high relatedness within patches raise concerns on the viability of most of the extant populations. We highlight the urgency for steppe patches to be protected, expanded and reconnected, considering the genetic clusters identified here rather than the previously considered eco-geographic regions occupied by the species. Meanwhile, translocations could be considered as a complementary, faster management action to attenuate the crowding and genetic effects of population fragmentation and the extinction risk of small populations without compromising the current local adaptations, culture diversity and genetic clusters already known for the species.     

Selecting in situ conservation sites for grape genetic resources in the USA

Previously, there has not been any in situ conservation sites for crop germplasm within the United States Department of Agriculture (USDA), Agricultural Research Service (ARS), National Plant Germplasm System (NPGS). Using morphologic and molecular (SSR markers) techniques, we assessed the genetic variation present in populations of rock grape (Vitis rupestris Scheele), a native American grape species, throughout its range. We identified seven in situ conservation sites for rock grape using a strategy based on morphologic and molecular data, taxonomic information, population size and integrity, and landholder commitment. In collaboration with federal and state landholding agencies, we have established the first NPGS in situ conservation sites for American wild relatives of a crop.     

Genetic erosion and in situ conservation of Lima bean (Phaseolus lunatus L.) landraces in its Mesoamerican diversity center

Lima bean (Phaseolus lunatus L.) is an important crop in traditional Mayan agriculture of the Yucatan Peninsula, Mexico, its Mesoamerican center of diversity. Genetic erosion in this species is currently a threat in this region out of 3 of 21 landraces dominate 71.24% of the cultivated area, and 12 are rare landraces grown only in 6.29%. Using 90 ISSR loci, we estimated the diversity and genetic relationships for 21 landraces to analyzing their risk of genetic erosion, and generate data for their in situ conservation. Total genetic diversity was high (h = 0.29), however it was lower than wild gene pool reported (h = 0.69). The abundant landraces had genetic diversity values lower (h = 0.13, I = 0.17) than the common (h = 0.26, I = 0.33) and rare landraces (h = 0.24, I = 0.27). However, the rare landraces are in a higher risk of genetic erosion due to local extinction. The cluster analysis showed no groups corresponding to morpho-phenological characteristics, geographic origin or traditional classification, which resulted from high inter-landraces gene flow levels. The molecular data confirmed that the domesticated Lima bean pool of the Yucatan Peninsula has a high risk of genetic erosion. If current tendencies in landrace cultivation continue, many will no longer be planted within two to three generations, with a consequent loss of their alleles. Programs urgently need to be established for in situ conservation of Lima bean landraces in this region.     

Towards collection of wild relatives of crop plants in India

A total of 373 species of wild relatives of crop plants representing 120 genera and 48 families were collected from different phytogeographical regions of India during a mission mode sub-project on Sustainable Management of Plant Biodiversity under National Agricultural Technology Project during 1999–2005. Significant diversity representing endemic/rare/endangered species has been discussed in this paper. The information on phytogeographical distribution, life form, economic types and assessment of threat has also been included. Thrust areas for future target collections and conservation have been discussed to serve as reference for management of genetic resources.     

Genetic resources of <Emphasis Type="Italic">Prunus</Emphasis> (Rosaceae) in India

The genetic diversity in genus Prunus is mainly confined to temperate regions of Himalaya and to a lesser extent in the sub-montane and hilly regions of peninsular India. The cultivated and wild species of Prunus have tremendous potential for improvement and utilization. This paper includes the genetic resources of cultivated and wild useful species of Prunus in India with emphasis on their distribution, potential traits/ useful characteristics and utilization. The information on potential genetic resources of Prunus would be helpful in collection, evaluation, conservation and utilization of species.     

The extinction of genetic resources of Asian wild rice, Oryza rufipogon Griff.: A case study in Thailand

Natural populations of wild rice, Oryza rufipogon Griff., are now threatened with the disturbance of their natural habitats by various human activities. To obtain basic information on genetic erosion or loss of genetic diversity in wild rice, we investigated how environmental changes of habitat affected the genetic structure of its natural population at a study site in the central plain of Thailand. During 10 years from 1985 to 1994, the wild-rice population at this site was seriously destroyed and fragmented. Using two sets of seed sample collected in 1985 and 1994 from the same population, allozyme variability at 17 loci of 11 enzymes were examined. Isozyme genotypes of mother plants of seed samples were estimated by the segregation in each progeny, and we calculated genetic parameters for the population. Gene diversity severely decreased in the 1994 sample compared with the 1985 sample. It is supposed that declining and fragmentation of the wild rice population, which happened during the 10 years, caused loss of genetic variability and forced the habitually outbreeding plants to inbreed, accelerating a reduction in gene variability. Pgi1-1 allele which was common in Indica rice cultivars of this region was found in the wild rice plants growing at the side of rice fields. Probably, introgression has occurred between wild and cultivated rice plants, and consequently the intrinsic nature of wild rice was gradually blurred by cultivar genes. We must realize that the genetic erosion of wild rice is rapidly proceeding and that an action for their conservation in natural environment, so called in situ conservation, is urgently needed.     

National inventories of crop wild relatives and wild harvested plants: case-study for Portugal

Crop wild relatives (CWR) and wild harvested plant species (WHP) constitute an important element of a nation’s plant genetic resources (PGR) available for utilisation. Although their natural populations are threatened like other wild species by habitat lost and fragmentation, little attention has generally been paid to their systematic conservation. The development of checklists and inventories is considered by the convention on biological diversity (CBD) and the global strategy for plant conservation (GSPC) as the first step in any national strategy for conservation and sustainable use of plant diversity. Methodological approaches to the development of a national inventory of wild PGR are discussed in the light of a case-study for the CWR and WHP growing in mainland Portugal. The resultant inventory comprises 2319 taxa, of which 97.5% are CWR, 21.4% are WHP and 19.0% are both CWR and WHP. Approximately 6.1% are endemic to mainland Portugal; 24.1% occur in 1 to 4 Portuguese administrative regions; 15.6% are threatened, but only 5.9% are covered by legislative protection. Taxonomic misalignments and the dispersed nature of biological literature were the major impediments to the production of the national inventory, but once the inventory was established it has proven to be a powerful tool in conservation management.     

Investigation of recent population bottlenecks in Kenyan wild sorghum populations (<Emphasis Type="Italic">Sorghum bicolor</Emphasis> (L.) Moench ssp. <Emphasis Type="Italic">verticilliflorum</Emphasis> (Steud.) De Wet) based on microsatellite diversity and genetic disequilibria

Identifying populations that have recently suffered a severe reduction in size is particularly important for their conservation as they are likely to suffer an increased risk of genetic erosion. We investigated the presence of recent bottlenecks in two wild sorghum populations from different eco-geographical conditions in Kenya employing 18 microsatellite markers. Microsatellite analysis showed high allelic diversity in the two populations, with a mean of 4.11 and 6.94 alleles per locus in the North-West wild sorghum population (NWWSP) and the South-East wild sorghum population (SEWSP), respectively. The mean observed heterozygosity was 0.34 and 0.56 in NWWSP and SEWSP, respectively. A large long-term effective populations size for both populations was observed assuming either an infinite allele model or a stepwise mutation model. There was no apparent loss of genetic variability for either of the populations. Test of heterozygosity excess indicated that a recent bottleneck in the two populations is highly unlikely. Furthermore, analysis of the allele frequency distribution revealed an L-shaped distribution which would not have been observed in case a recent bottleneck had reduced genetic variability in the two populations. The fact that most loci displayed a significant heterozygosity deficiency could be explained by population subdivision and the mixed mating system exhibited by wild sorghum populations. Furthermore, the possibility of a historical expansion of wild sorghum populations and presence of null alleles could not be ruled out.     

The conservation of Chinese rice biodiversity: genetic erosion, ethnobotany and prospects

As one of important original centers of Asian cultivated rice Oryza sativa L., China is abundant in genetic resources of rice and its wild relatives. They are not only useful for mountainous farmers to cope with heterogeneous microclimates, but also of extremely significance for rice genetic improvement programs in the future. Unfortunately, the combination of new conditions, including rapid population growth, new agricultural technology and swift economic & cultural changes produces a new environment. As a result, most of wild populations have disappeared, and others are at the edge of the extinction. Moreover, widespread adoption of high-yielding rice varieties (HYVs) have led to biological impoverty of rice germplasms, as local rice varieties are abandoned for modern varieties. These processes, known as genetic erosion, are generally summarized as two types in Chinese rice genetic resources. Based on our recent studies on the conservation of Chinese rice biodiversity, this paper reviews the biodiversity, ethnobotany and genetic erosion of rice and its wild relatives in China. Finally, some suggestions for the ways to enhance efforts to conserve rice genetic resources, including investigation of genetic erosion, studies on population genetics and conservation genetics using molecular approaches, settings of in situ & ex situ conservation priorities, significance of ethnobotanical knowledge for taking in situ conservation, and necessities of extensive participation in the conservation activities, are given.     

湖北省水土保持监测站点的空间优化布局

[目的]对湖北省水土保持监测站点空间优化布局进行探究,为该区水土保持监测系统的完善、水土保持科学管理与决策提供支撑。[方法]收集湖北省土壤侵蚀相关资料,利用GIS空间分析功能开展湖北省土壤侵蚀强度分级评价,在此基础上应用尺度理论对监测站点进行空间优化布局,并对优化结果进行分析验证。[结果]经过优化研究,湖北省共需布设86个监测点,其中一级尺度12个监测点,二级尺度26个监测点,三级尺度布设48个监测点。经泰森多边形验证,优化后的站点布设合理,控制突出,层次分明。[结论]湖北省丹江口水库周边山地丘陵水质维护保土区、南阳盆地及大洪山丘陵保土农田防护区和鄂渝山地水源涵养保土区水土流失严重,需要在现有基础上进一步增加水土保持监测站点密度;江汉平原及周边丘陵农田防护人居环境维护区等地区水土流失轻微,可适当减少水土流失监测站点数量。     

Simulating site-specific impacts of climate change on soil erosion and surface hydrology in southern Loess Plateau of China

Proper spatial and temporal treatments of climate change scenarios projected by General Circulation Models (GCMs) are critical to accurate assessment of climatic impacts on natural resources and ecosystems. The objective of this study was to evaluate the site-specific impacts of climate change on soil erosion and surface hydrology at the Changwu station of Shaanxi, China using a new spatiotemporal downscaling method. The Water Erosion Prediction Project (WEPP) model and climate change scenarios projected by the U.K. Hadley Centre's GCM (HadCM3) under the A2, B2, and GGa emissions scenarios were used in this study. The monthly precipitation and temperature projections were downloaded for the periods of 1900–1999 and 2010–2039 for the grid box containing the Changwu station. Univariate transfer functions were derived by matching probability distributions between station-measured and GCM-projected monthly precipitation and temperature for the 1950–1999 period. The derived functions were used to spatially downscale the GCM monthly projections of 2010–2039 in the grid box to the Changwu station. The downscaled monthly data were further disaggregated to daily weather series using a stochastic weather generator (CLIGEN). The HadCM3 projected that average annual precipitation during 2010–2039 would increase by 4 to 18% at Changwu and that frequency and intensity of large storms would also increase. Under the conventional tillage, simulated percent increases during 2010–2039, compared with the present climate, would be 49–112% for runoff and 31–167% for soil loss. However, simulated soil losses under the conservation tillage during 2010–2039 would be reduced by 39–51% compared with those under the conventional tillage in the present climate. The considerable reduction in soil loss in the conservation tillage indicates the importance of adopting conservation tillage in the region to control soil erosion under climate change.     

Collection, classification, and conservation of cultivatedand wild rices of the Lao PDR

The Lao People's Democratic Republic (Lao PDR) lieswithin the center of domestication of Asian rice(Oryza sativa L.). Many traditionalvarieties are grown in the rainfed lowland and rainfed uplandecosystems, but there is a danger of genetic erosion, particularly inthe lowlands, as farmers adopt improved varieties. The Lao Ministryof Agriculture and Forestry (MAF) and the InternationalRice Research Institute (IRRI) jointly explored most of therice growing areas between October 1995 and April 2000 and collected13192 samples of cultivated rice, and 237 samples of six wild ricespecies. Cultivated samples were classified according to ecosystem,endosperm type and maturity. The numbers of samples collected fromthe northern, central and southern regions were 5915(44.8%), 4625 (35.1%) and 2652(20.1%) respectively. More samples(55.9%) were collected from the uplands than fromlowland sites. Most samples (85.5%) had glutinousendosperm. Almost half the samples were medium maturing(47.1%), with approximately an equal number of earlyand late maturing forms. Apart from some localized areas whereaccessibility was restricted, the collection is representative of therice genetic resources of the whole country. A genebank formedium-term storage was established near Vientiane. Forlong-term conservation, duplicate samples were sent to theInternational Rice Genebank at IRRI in the Philippines.     

Ongoing and Emerging Questions in Water Erosion Studies

Soil erosion is a threat to food security, especially in regions where the area of arable land is shrinking dramatically because of soil degradation. Research on soil erosion expanded progressively throughout the 20th centu\ry, although a number of unresolved problems persist despite this issue being crucial for the environment and the welfare of society. Some basic unresolved issues, including the absence of a universally accepted definition of soil erosion and disagreement about how to measure it have contributed to a degree of scientific stagnation. Accurate prediction of the response of soils to disturbance is hampered by the dependence of the erosion process on the spatial scale involved, the time lag between the disturbance and the erosion response and the short periods for which data are typically available. We argue that devoting increased attention to the following environmental, demographic, political and societal issues will reinvigorate progress in the field. (i) The relationships between on‐site and off‐site consequences of soil erosion need to be elucidated if the economic and environmental costs are to be adequately assessed. (ii) Effective measures for soil conservation need to focus on spatial patterns of plant cover that reduce sediment connectivity, and most importantly on the relationships between hillslopes and sediment transfer in eroded channels. (iii) The scientific community must be able to identify early warning signs of critical transitions, if irreversible soil degradation is to be prevented. (iv) Consensus needs to be reached concerning the contribution of soil erosion to the carbon cycle. (v) The consequences of climate change on erosion and sediment transport should be investigated in depth. (vi) The general society needs to perceive soil erosion as a critical matter requiring an urgent response. Copyright © 2016 John Wiley & Sons, Ltd.     

Dogs on the catwalk: Modelling re-introduction and translocation of endangered wild dogs in South Africa

In South Africa, a plan was launched to manage separate sub-populations of endangered African wild dogs (Lycaon pictus) in several small, geographically isolated conservation areas as a single meta-population. This intensive management approach involves the re-introduction of wild dogs into suitable conservation areas and periodic translocations among them. Despite the initial failures and high costs associated with wild dog re-introductions and translocations, there is no predictive framework available to quantify which management protocol is the most efficient. We therefore developed an individual-based model of wild dog population and pack dynamics, which accounts for the wild dogs’ social complexity. The model appeared to capture the essential characteristics of a real wild dog population from Hluhluwe-iMfolozi Park, South Africa and to be relatively robust to parameter uncertainty, suggesting that the model is valid enough for addressing management problems. The model enabled us to quantify a critical initial number of packs (two) and individuals per pack (six) necessary for a re-introduced wild dog population to establish itself in the release area. We also found a practically feasible intervention regime at which a re-introduced wild dog population had the best chance of persistence: intermittently adding packs (at least every 6 years) and harvesting disperser groups (as often as every 4 years) for translocation to other release sites, without threatening the small source population. This study demonstrates that individual-based models can be a powerful decision-support tool in re-introduction planning and provides insight into how populations made up of social groups have dynamics, and ultimately persistence, determined by individual behaviour.     

Close Genetic Proximity Between Cultivated and Wild Bactris gasipaes Kunth Revealed by Microsatellite Markers in Western Ecuador

Bactris gasipaes Kunth (peach palm or Pejibaye) is the only domesticated palm of the Neotropics. The genetic relationships between the crop and its wild relatives are still unclear. We undertook field and laboratory work in order to describe differentiation and relationships between the wild and cultivated populations of the species in Western Ecuador, and their possible interactions. A volumetric study was undertaken on the fruits of both populations, as well as a population genetic analysis in order to clarify these relationships. Fruits from cultivated plants collected in the region of sympatry of wild and cultivated plants in North-West Ecuador showed intermediate volumes between those of reference samples for the wild and cultivated plants in allopatry. Using 8 microsatellite loci, we assessed 83 wild and cultivated individuals from Western Ecuador and cultivated plants from Amazonia and Central America as a reference for the cultivated form. We detected high polymorphism in the wild and cultivated samples and low, but significant level of genetic differentiation between wild and cultivated populations. The cultivated population in North-Western Ecuador showed close genetic proximity with the sympatric wild population, consistent with the volumetric study. These results have implications for hypotheses on evolution of this crop and for strategies of genetic conservation of the wild forms.     

Morphologic and Agronomic Diversity of Wild Genetic Resources of Medicago sativa L. Collected in Spain

One hundred and three natural populations of Medicago L. were collected in Spain, mainly from roadsides, non-irrigated or grazed lands. This germplasm was evaluated at Montpellier (France) with control cultivars and Spanish landraces under completely random block design, replicated four times, and observed for 64 qualitative or quantitative characters. Differences between natural populations and cultivated controls are highly significant, but gene flow occurs between wild and cultivated compartment and hybrid populations were identified. On the basis of multivariable analysis, the accessions were grouped into four clusters depending on their proximity with the cultivated pool to facilitate their management and ex situ conservation. The relationship between environment of the site of collection and phenotypic characteristics of the natural populations was also discussed. Different policies of conservation of these genetic resources are suggested to avoid their disappearance even when they disappeared from the other regions of the western Mediterranean. Spanish wild pool of alfalfa, also called ‘Mielga’, appears of great interest for the breeding of alfalfa because it contains a large diversity of characteristics (prostrate habit, rhizomes) linked to tolerance to grazing or drought environment. With the need for more sustainable systems in agriculture, the erosion of natural habitats and the necessity for rehabilitation of degraded ecosystems, the importance of this wild pool is really inestimable.     

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.     

Shortcuts for marine conservation planning: The effectiveness of socioeconomic data surrogates

Marine protected area (MPA) networks designed without consideration of the interests of local communities are likely to fail. However, in many regions where conservation action is needed most urgently, socioeconomic data are not available at spatial scales relevant to conservation planning. In the Philippines, the primary stakeholders relevant to conservation efforts in coastal waters are small-scale fishers. Unlike commercial fisheries, no logbook data are kept to record fishers’ spatial effort and usage patterns. We investigated the effects of including different surrogates for small-scale fishing effort in the systematic design of an MPA network for Siquijor Province. We compared a reserve selection scenario in which socioeconomic data were not considered with four different surrogates for fishing effort and with empirical data on the spatial distribution of fishing effort collected through interviews. We assumed that minimising opportunity costs to fishers would increase the likelihood that they would support and comply with MPA implementation, resulting in more effective conservation. Surrogates modelled on the number of fishers or boats in each community consistently outperformed those based on population census data. However, none of the surrogates we tested were able to accurately predict fine-scale resource use patterns. Whilst socioeconomic surrogates may be able to assist conservation planners to identify regional-scale opportunities where conservation objectives may be met more easily, they cannot act as a shortcut for comprehensive consultation with communities, which will be required to identify actual sites for MPA implementation.     

宁夏水土保持的产业结构影响评价

探讨不同生态环境基础和产业条件下的水土流失原因,可为宁夏水土流失分区治理提供理论支持。运用空间叠置、专家集成和系统聚类等定性和定量方法,从水源涵养、防治土壤水力侵蚀和风力侵蚀3个方面分析宁夏水土保持生态系统服务功能,同时评价产业结构对宁夏水土保持生态系统服务功能的影响,在此基础上将全区分为水土保持重要地区、中等重要地区和不重要地区。结果表明:水土保持重要地区应注意改变不合理的耕作和工矿开发方式;中等重要地区则应协调好绿洲开发与生态环境的关系,积极开展水土保持生态工程建设;不重要地区产业结构对水土保持的综合影响不显著,但是由于生态环境基础较差,应当注意控制人口增长、积极实施产业转型和加强生态环境恢复治理。