scholarly journals Systematic Conservation Planning for Intraspecific Genetic Diversity

2017 ◽  
Author(s):  
Ivan Paz-Vinas ◽  
Géraldine Loot ◽  
Virgilio Hermoso ◽  
Charlotte Veyssiere ◽  
Nicolas Poulet ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Conservation Planning ◽  
Allelic Richness ◽  
Single Species ◽  
Diversity Indices ◽  
Intraspecific Diversity ◽  
Systematic Conservation Planning ◽  
Conservation Areas ◽  
Conservation Units ◽  
Priority Areas

AbstractIntraspecific diversity informs the demographic and evolutionary histories of populations, and should be a main conservation target. Although approaches exist for identifying relevant biological conservation units, attempts to identify priority conservation areas for intraspecific diversity are scarce, especially within a multi-specific framework. We used neutral molecular data on six European freshwater fish species (Squalius cephalus, Phoxinus phoxinus, Barbatula barbatula, Gobio occitaniae, Leuciscus burdigalensis and Parachondrostoma toxostoma) sampled at the riverscape scale (i.e. the Garonne-Dordogne River basin, France) to determine hot- and cold-spots of genetic diversity, and to identify priority conservation areas using a systematic conservation planning approach. We demonstrate that systematic conservation planning is efficient for identifying priority areas representing a predefined part of the total genetic diversity of a whole landscape. With the exception of private allelic richness, classical genetic diversity indices (allelic richness, genetic uniqueness) were poor predictors for identifying priority areas. Moreover, we identified weak surrogacies among conservation solutions found for each species, implying that conservation solutions are highly species-specific. Nonetheless, we showed that priority areas identified using intraspecific genetic data from multiple species provide more effective conservation solutions than areas identified for single species or on the basis of traditional taxonomic criteria.

scholarly journals Systematic conservation planning for intraspecific genetic diversity

2018 ◽  
Vol 285 (1877) ◽  
pp. 20172746 ◽  
Author(s):  
Ivan Paz-Vinas ◽  
Géraldine Loot ◽  
Virgilio Hermoso ◽  
Charlotte Veyssière ◽  
Nicolas Poulet ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Conservation Planning ◽  
Allelic Richness ◽  
Single Species ◽  
Diversity Indices ◽  
Intraspecific Diversity ◽  
Systematic Conservation Planning ◽  
Conservation Areas ◽  
Conservation Units ◽  
Priority Areas

Intraspecific diversity informs the demographic and evolutionary histories of populations, and should be a main conservation target. Although approaches exist for identifying relevant biological conservation units, attempts to identify priority conservation areas for intraspecific diversity are scarce, especially within a multi-specific framework. We used neutral molecular data on six European freshwater fish species (Squalius cephalus,Phoxinus phoxinus, Barbatula barbatula,Gobio occitaniae,Leuciscus burdigalensisandParachondrostoma toxostoma) sampled at the riverscape scale (i.e. the Garonne-Dordogne river basin, France) to determine hot- and coldspots of genetic diversity, and to identify priority conservation areas using a systematic conservation planning approach. We demonstrate that systematic conservation planning is efficient for identifying priority areas representing a predefined part of the total genetic diversity of a whole landscape. With the exception of private allelic richness (PA), classical genetic diversity indices (allelic richness, genetic uniqueness) were poor predictors for identifying priority areas. Moreover, we identified weak surrogacies among conservation solutions found for each species, implying that conservation solutions are highly species-specific. Nonetheless, we showed that priority areas identified using intraspecific genetic data from multiple species provide more effective conservation solutions than areas identified for single species or on the basis of traditional taxonomic criteria.

scholarly journals Determining priority areas for an Endangered cold-adapted snake on warming mountaintops

Oryx ◽  
2020 ◽  
pp. 1-10
Author(s):  
Edvárd Mizsei ◽  
Márton Szabolcs ◽  
Loránd Szabó ◽  
Zoltán Boros ◽  
Kujtim Mersini ◽  
...  
Keyword(s):  
Conservation Planning ◽  
Keystone Species ◽  
Single Species ◽  
Range Shift ◽  
Conservation Value ◽  
Systematic Conservation Planning ◽  
Remotely Sensed Data ◽  
Cold Adapted ◽  
Priority Areas ◽  
Spatial Prioritization

Abstract Spatial prioritization in systematic conservation planning has traditionally been developed for several to many species and/or habitats, and single-species applications are rare. We developed a novel spatial prioritization model based on accurate estimates of remotely-sensed data and maps of threats potentially affecting long-term species persistence. We used this approach to identify priority areas for the conservation of the Endangered Greek meadow viper Vipera graeca, a cold-adapted species inhabiting mountaintops in the Pindos Mountains of Greece and Albania. We transformed the mapped threats into nine variables to estimate conservation value: habitat suitability (climate suitability, habitat size, occupancy, vegetation suitability), climate change (future persistence, potential for altitudinal range shift) and land-use impact (habitat alteration, degradation, disturbance). We applied the Zonation systematic conservation planning tool with these conservation value variables as biodiversity features to rank the areas currently occupied by the species and to identify priority areas where the chances for population persistence are highest. We found that 90% of current habitats will become unsuitable by the 2080s and that conservation actions need to be implemented to avoid extinction as this is already a threatened species with a narrow ecological niche. If threats are appropriately quantified and translated into variables of conservation value, spatial conservation planning tools can successfully identify priority areas for the conservation of single species. Our study demonstrates that spatial prioritization for single umbrella, flagship or keystone species is a promising approach for the conservation of species for which few data are available.

scholarly journals Characterization of the Genetic Resources of Farmed Tambaqui in Northern Brazil

2017 ◽  
Vol 9 (10) ◽  
pp. 76 ◽  
Author(s):  
Paola F. Fazzi-Gomes ◽  
Nuno F. Melo ◽  
Glauber Palheta ◽  
Jonas Aguiar ◽  
Iracilda Sampaio ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Genetic Resources ◽  
Allelic Richness ◽  
Diversity Indices ◽  
Significant Loss ◽  
Effective Strategies ◽  
Northern Brazil

The present study analyzed the genetic variability and structure of farmed tambaqui in the Brazilian state of Pará, and provided basic information that can be used for the development of programs of monitoring and management of genetic resources in the aquaculture operations of northern Brazil. A total of 216 individuals were sampled from tambaqui farms in Pará. Genotyping was based on a multiplex set of 10 tri- and tetra-nucleotide microsatellite markers. The data were used to calculate genetic diversity indices, expected and observed heterozygosity, the number of alleles per locus, allelic richness, and inbreeding coefficient. Genetic structure was verified using DEST and RST, the genetic signature, and Bayesian analysis. The results showed that the tambaqui farms surveyed have suffered a significant loss of genetic variability, and that they are genetically structured, forming two clusters, one encompassing the farms in western Pará, and the other including the farms from the northeast and southeast regions of the state. These finding provide fundamental insights for the development of effective strategies that will help guarantee productivity and the quality of the tambaqui farms of northern Brazil, and provide a database for the upgrading of the genetic variability of these populations. This study indicated the need for hatcheries in southeastern and northeastern Pará to amplify or renew their breeding stocks, in order to avoid the significant loss of genetic diversity in the tambaqui farms of these regions.

scholarly journals Systematic conservation planning in the eastern English Channel: comparing the Marxan and Zonation decision-support tools

2011 ◽  
Vol 69 (1) ◽  
pp. 75-83 ◽  
Author(s):  
Juliette Delavenne ◽  
Kristian Metcalfe ◽  
Robert J. Smith ◽  
Sandrine Vaz ◽  
Corinne S. Martin ◽  
...  
Keyword(s):  
Decision Support ◽  
Conservation Planning ◽  
Planning Process ◽  
Marine Protected Area ◽  
Wide Distribution ◽  
Systematic Conservation Planning ◽  
Decision Support Tools ◽  
English Channel ◽  
Priority Areas ◽  
Support Tools

Abstract Delavenne, J., Metcalfe, K., Smith, R. J., Vaz, S., Martin, C. S., Dupuis, L., Coppin, F., and Carpentier, A. 2012. Systematic conservation planning in the eastern English Channel: comparing the Marxan and Zonation decision-support tools. – ICES Journal of Marine Science, 69: 75–83. The systematic conservation approach is now commonly used for the design of efficient marine protected area (MPA) networks, and identifying these priority areas often involves using specific conservation-planning software. Several such software programmes have been developed in recent years, each differing in the underlying algorithms used. Here, an investigation is made into whether the choice of software influences the location of priority areas by comparing outputs from Marxan and Zonation, two widely used conservation-planning, decision-support tools. Using biological and socio-economic data from the eastern English Channel, outputs are compared and it is shown that the two software packages identified similar sets of priority areas, although the relatively wide distribution of habitat types and species considered offered much flexibility. Moreover, the similarity increased with increasing spatial constraint, especially when using real-world cost data, suggesting that the choice of cost metric has a greater influence on conservation-planning analyses than the choice of software. However, Marxan generally produced more efficient results and Zonation produced results with greater connectivity, so the most appropriate software package will depend on the overall goals of the MPA planning process.

scholarly journals Systematic Conservation Planning as a Tool for the Assessment of Protected Areas Network in Jordan

Land ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 56
Author(s):  
Natalia Boulad ◽  
Sattam Al Shogoor ◽  
Wahib Sahwan ◽  
Nedal Al-Ouran ◽  
Brigitta Schütt
Keyword(s):  
Protected Areas ◽  
Conservation Planning ◽  
Vegetation Type ◽  
Efficient Solutions ◽  
Systematic Conservation Planning ◽  
Vegetation Types ◽  
Conservation Areas ◽  
Threatened Plants ◽  
The Third ◽  
Extent Of Occurrence

The present study aims to use systematic conservation planning to analyse and review the national protected areas (PAs) network in Jordan. The analysis included the application of three modules: the environmental risk surface (ERS), the relative biodiversity index (RBI), and the application of Marxan. The methodology was based on using Marxan to achieve solutions for three scenarios for the PAs network. Marxan was applied to the input data, which included vegetation types, distribution of threatened mammals and plants, locations of currently established PAs and other types of designations. The first two scenarios aimed to conserve 4% and 17%, respectively, of each vegetation type, and 10% and 20%, respectively, of the extent of occurrence of threatened mammals and plants. The third scenario aimed to conserve 17% of each vegetation type and 10% of the extent of occurrence of threatened plants and mammals, except for forest and the Hammada vegetation which had the target of 30% and 4%, respectively. The results of the three scenarios indicated that the boundaries of existing reserves should be extended to achieve the conservation targets. Some currently proposed (PAs), such as the Aqaba Mountains, did not appear in any of the solutions for the three scenarios indicating that the inclusion of these sites in the proposed (PAs) network should be reconsidered. All three scenarios highlighted the importance of having conservation areas between the western and eastern parts of the country. Systematic conservation planning is a structured, replicable, transparent, and defensible method for designing PA networks. It allows for finding efficient solutions building on what is currently conserved and minimizing the fragmentation and cost of the proposed solution for conservation areas.

scholarly journals Incorporating evolutionary and threat processes into crop wild relatives conservation

2021 ◽  
Author(s):  
Wolke Tobon-Niedfeldt ◽  
Alicia Mastretta-Yanes ◽  
Tania Urquiza-Haas ◽  
Barbara Goettsch ◽  
Angela Cuervo-Robayo ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Conservation Planning ◽  
Extinction Risk ◽  
Crop Wild Relatives ◽  
Wild Relatives ◽  
Environmental Drivers ◽  
Conservation Areas ◽  
Monitoring Strategies ◽  
Novel Approach ◽  
Mosaic Landscapes

Biodiversity conservation calls for spatial explicit approaches to maximize the representation and persistence of genetic diversity given species idiosyncratic threats in mosaic landscapes, but conservation planning methodologies seldom account for this. Here, we introduce a novel approach that uses proxies of genetic diversity to identify conservation areas, applying systematic conservation planning tools to produce hierarchical prioritizations of the landscape. It accounts for: (i) evolutionary processes, including historical and environmental drivers of genetic diversity, and (ii) threat processes, considering taxa specific tolerance to human-modified habitats and their extinction risk status. We illustrate our approach with crop wild relatives (CWR) because their intra- and interspecific diversity is important for crop breeding and food security. Although we focus on Mesoamerican CWR within Mexico, our methodology offers new opportunities to effectively guide conservation and monitoring strategies to safeguard the evolutionary resilience of any taxa, including in regions of complex evolutionary histories and mosaic landscapes.

scholarly journals Intraspecific Diversity of Monilinia fructicola and M. laxa Populations from Blossoms and Fruit of Different Hosts in Greece

Plant Disease ◽  
2015 ◽  
Vol 99 (10) ◽  
pp. 1353-1359 ◽  
Author(s):  
A. Papavasileiou ◽  
G. S. Karaoglanidis ◽  
T. J. Michailides
Keyword(s):  
Genetic Diversity ◽  
Sweet Cherry ◽  
Gene Diversity ◽  
Diversity Indices ◽  
Intraspecific Diversity ◽  
Monilinia Fructicola ◽  
Sequence Repeat ◽  
Sexual Recombination ◽  
Derived Data ◽  
Of Greece

The genetic variation among 145 isolates of Monilinia fructicola and 156 isolates of M. laxa collected from two distinct regions of Greece (Imathia and Larissa) was analyzed using intersimple-sequence repeat markers. The Monilinia spp. isolates had been collected from infected fruit or blossoms of peach, apricot, sweet cherry, and plum. Calculation of Nei’s gene diversity and Shannon’s diversity indices showed that M. fructicola populations had higher genetic diversity compared with M. laxa populations in both regions sampled. The levels of genetic diversity were similar between populations obtained from diseased blossoms and fruit for each species and the main variances were all from within rather than between populations for the respective regions, hosts, and organ of origin. Genetic distance (Nei’s analysis) was lower between peach and apricot populations than between cherry and plum populations of M. fructicola. M. fructicola isolates from peach and apricot and from sweet cherry and plum were clustered together, while M. laxa isolates clustering based on the host of origin was not possible. The analysis of index of association showed the absence of sexual recombination for both species. The derived data support the hypothesis of a long presence of M. fructicola in Greece, and provide evidence of specialization of M. fructicola populations based on their host of origin.

scholarly journals Comparison of Microbiological Characteristics and Genetic Diversity between Burkholderia cepacia Complex Isolates from Vascular Access and Other Clinical Infections

2020 ◽  
Vol 9 (1) ◽  
pp. 51
Author(s):  
Min Yi Wong ◽  
Yuan-Hsi Tseng ◽  
Tsung-Yu Huang ◽  
Bor-Shyh Lin ◽  
Chun-Wu Tung ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Vascular Access ◽  
Burkholderia Cepacia ◽  
Bacterial Species ◽  
Diversity Indices ◽  
Burkholderia Cepacia Complex ◽  
Reca Gene ◽  
Clinical Effects ◽  
Environmental Distribution ◽  
Microbiological Characteristics

Burkholderia cepacia complex (BCC) is a group of closely related bacteria with widespread environmental distribution. BCC bacteria are opportunistic pathogens that cause nosocomial infections in patients, especially cystic fibrosis (CF). Multilocus sequence typing (MLST) is used nowadays to differentiate species within the BCC complex. This study collected 41 BCC isolates from vascular access infections (VAIs) and other clinical infections between 2014 and 2020. We preliminarily identified bacterial isolates using standard biochemical procedures and further conducted recA gene sequencing and MLST for species identification. We determined genetic diversity indices using bioinformatics software. We studied 14 isolates retrieved from patients with VAIs and observed that Burkholderia cepacia was the predominant bacterial species, and B. contaminans followed by B. cenocepacia were mainly retrieved from patients with other infections. According to MLST data, we identified that all B. contaminans isolates belonged to ST102, while a wide variety of sequence types (STs) were found in B. cenocepacia isolates. In summary, the high diversity and easy transmission of BCC increase BCC infections, which provides insights into their potential clinical effects in non-CF infections.

scholarly journals On the origin and diversification of Podolian cattle breeds: testing scenarios of European colonization using genome-wide SNP data

2021 ◽  
Vol 53 (1) ◽  
Author(s):  
Gabriele Senczuk ◽  
Salvatore Mastrangelo ◽  
Paolo Ajmone-Marsan ◽  
Zsolt Becskei ◽  
Paolo Colangelo ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Diversity Indices ◽  
Melting Pot ◽  
Cattle Breeds ◽  
Snp Data ◽  
Early Migration ◽  
Genome Wide ◽  
European Colonization ◽  
Approximate Bayesian ◽  
European Cattle

Abstract Background During the Neolithic expansion, cattle accompanied humans and spread from their domestication centres to colonize the ancient world. In addition, European cattle occasionally intermingled with both indicine cattle and local aurochs resulting in an exclusive pattern of genetic diversity. Among the most ancient European cattle are breeds that belong to the so-called Podolian trunk, the history of which is still not well established. Here, we used genome-wide single nucleotide polymorphism (SNP) data on 806 individuals belonging to 36 breeds to reconstruct the origin and diversification of Podolian cattle and to provide a reliable scenario of the European colonization, through an approximate Bayesian computation random forest (ABC-RF) approach. Results Our results indicate that European Podolian cattle display higher values of genetic diversity indices than both African taurine and Asian indicine breeds. Clustering analyses show that Podolian breeds share close genomic relationships, which suggests a likely common genetic ancestry. Among the simulated and tested scenarios of the colonization of Europe from taurine cattle, the greatest support was obtained for the model assuming at least two waves of diffusion. Time estimates are in line with an early migration from the domestication centre of non-Podolian taurine breeds followed by a secondary migration of Podolian breeds. The best fitting model also suggests that the Italian Podolian breeds are the result of admixture between different genomic pools. Conclusions This comprehensive dataset that includes most of the autochthonous cattle breeds belonging to the so-called Podolian trunk allowed us not only to shed light onto the origin and diversification of this group of cattle, but also to gain new insights into the diffusion of European cattle. The most well-supported scenario of colonization points to two main waves of migrations: with one that occurred alongside with the Neolithic human expansion and gave rise to the non-Podolian taurine breeds, and a more recent one that favoured the diffusion of European Podolian. In this process, we highlight the importance of both the Mediterranean and Danube routes in promoting European cattle colonization. Moreover, we identified admixture as a driver of diversification in Italy, which could represent a melting pot for Podolian cattle.

scholarly journals Genetic melting pot and importance of long-distance dispersal indicated in the Gladiolus imbricatus L. populations in the Polish Carpathians

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Agnieszka Sutkowska ◽  
Józef Mitka ◽  
Tomasz Warzecha ◽  
Jakub Bunk ◽  
Julia Rutkowska ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Diversity Indices ◽  
Western Carpathians ◽  
Genetic Structuring ◽  
Long Distance ◽  
Plant Populations ◽  
Genetic Stock ◽  
Melting Pot ◽  
Mountain Ranges ◽  
Eastern Carpathians

AbstractThe genetic diversity in 11 populations of Gladiolus imbricatus in five mountain ranges, including the Tatra, Pieniny, Gorce, Beskid Niski (Western Carpathians) and Bieszczady Mts (Eastern Carpathians), was studied with inter-simple sequence repeat (ISSR) markers. The species is a perennial plant occurring in open and semi-open sites of anthropogenic origin (meadows and forest margins). We checked a hypothesis on the microrefugial character of the plant populations in the Pieniny Mts, a small calcareous Carpathian range of complicated relief that has never been glaciated. Plant populations in the Tatra and Pieniny Mts had the highest genetic diversity indices, pointing to their long-term persistence. The refugial vs. the non-refugial mountain ranges accounted for a relatively high value of total genetic variation [analysis of molecular variance (AMOVA), 14.12%, p = 0.003]. One of the Pieniny populations was of hybridogenous origin and shared genetic stock with the Tatra population, indicating there is a local genetic melting pot. A weak genetic structuring of populations among particular regions was found (AMOVA, 4.5%, p > 0.05). This could be an effect of the frequent short-distance and sporadic long-distance gene flow. The dispersal of diaspores between the remote populations in the Western Carpathians and Eastern Carpathians could be affected by the historical transportation of flocks of sheep from the Tatra to Bieszczady Mts.

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