scholarly journals Genomic approach for conservation and the sustainable management of endangered species of the Amazon

PLoS ONE ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. e0240002
Author(s):  
Paola Fazzi-Gomes ◽  
Jonas Aguiar ◽  
Gleyce Fonseca Cabral ◽  
Diego Marques ◽  
Helber Palheta ◽  
...  
Keyword(s):  
Genetic Information ◽  
Sustainable Management ◽  
Taxonomic Status ◽  
Accurate Information ◽  
Wild Populations ◽  
Genetic Management ◽  
Current Management ◽  
Arapaima Gigas ◽  
Genomic Approach ◽  
Multiplex System

A broad panel of potentially amplifiable microsatellite loci and a multiplex system were developed for the Amazonian symbol fish species Arapaima gigas, which is currently in high danger of extinction due to the disorderly fishing exploitation. Several factors have contributed to the increase of this threat, among which we highlight the lack of genetic information about the structure and taxonomic status of the species, as well as the lack of accurate tools for evaluation of the effectivity of current management programs. Based on Arapaima gigas’ whole genome, available at the NCBI database (ID: 12404), a total of 95,098 unique perfect microsatellites were identified, including their proposed primers. From this panel, a multiplex system containing 12 tetranucleotide microsatellite markers was validated. These tools are valuable for research in as many areas as bioinformatics, ecology, genetics, evolution and comparative studies, since they are able to provide more accurate information for fishing management, conservation of wild populations and genetic management of aquaculture.

scholarly journals Genomic approach for conservation and the sustainable management of endangered species of the Amazon

2020 ◽  
Author(s):  
Paola Fazzi-Gomes ◽  
Jonas Aguiar ◽  
Gleyce Fonseca Cabral ◽  
Diego Marques ◽  
Helber Palheta ◽  
...  
Keyword(s):  
Genetic Information ◽  
Sustainable Management ◽  
Taxonomic Status ◽  
Accurate Information ◽  
Wild Populations ◽  
Genetic Management ◽  
Current Management ◽  
Arapaima Gigas ◽  
Genomic Approach ◽  
Multiplex System

AbstractA broad panel of potentially amplifiable microsatellite loci and a multiplex system were developed for the Amazonian symbol fish species Arapaima gigas, which is currently in high danger of extinction due to the disorderly fishing exploitation. Several factors have contributed to the increase of this threat, among which we highlight the lack of genetic information about the structure and taxonomic status of the species, as well as the lack of accurate tools for evaluation of the effectivity of current management programs. Based on Arapaima gigas’ whole genome, available at the NCBI database (ID: 12404), a total of 95,098 unique perfect microsatellites were identified, including their proposed primers. From this panel, a multiplex system containing 12 tetranucleotide microsatellite markers was validated. These tools are valuable for research in as many areas as bioinformatics, ecology, genetics, evolution and comparative studies, since they are able to provide more accurate information for fishing management, conservation of wild populations and genetic management of aquaculture.

A new slipper lobster of the genus Petrarctus Holthuis, 2002 (Crustacea, Decapoda, Scyllaridae) from Southwest coast of India

Zootaxa ◽  
2017 ◽  
Vol 4329 (5) ◽  
pp. 477 ◽  
Author(s):  
CHIEN-HUI YANG ◽  
APPUKUTTANNAIR BIJU KUMAR ◽  
TIN-YAM CHAN
Keyword(s):  
New Species ◽  
Deep Sea ◽  
Genetic Information ◽  
Anterior Part ◽  
Molecular Genetic ◽  
Taxonomic Status ◽  
Molecular Genetic Analysis ◽  
Andaman Sea ◽  
Abdominal Somite ◽  
A New Species

A new species of slipper lobster of the genus Petrarctus Holthuis, 2002 was discovered from southwestern India during a survey of deep sea crustaceans. The new species closely resembles P. veliger Holthuis, 2002 from the Andaman Sea and western Pacific but differs mainly in the color marking on abdominal somite I, having a relatively lower cardiac tooth but with better developed tubercles on the abdomen, as well as a differently shaped anterior part of the thoracic sternum. Molecular genetic analysis also confirms the distinct taxonomic status of the new species. To fix the identity of the type species of the genus, a neotype of P. rugosus (H. Milne Edwards, 1837) was selected from a recently collected Indian specimen with color and genetic information. 

scholarly journals Recent Advances in Unmanned Aerial Vehicles Forest Remote Sensing—A Systematic Review. Part II: Research Applications

Forests ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 397
Author(s):  
Riccardo Dainelli ◽  
Piero Toscano ◽  
Salvatore Filippo Di Gennaro ◽  
Alessandro Matese
Keyword(s):  
Remote Sensing ◽  
Unmanned Aerial Vehicle ◽  
Sustainable Management ◽  
Large Scale ◽  
Spectral Signature ◽  
Accurate Information ◽  
Data Interoperability ◽  
Critical Issues ◽  
Management Context ◽  
Aerial Vehicle

Forest sustainable management aims to maintain the income of woody goods for companies, together with preserving non-productive functions as a benefit for the community. Due to the progress in platforms and sensors and the opening of the dedicated market, unmanned aerial vehicle–remote sensing (UAV–RS) is improving its key role in the forestry sector as a tool for sustainable management. The use of UAV (Unmanned Aerial Vehicle) in precision forestry has exponentially increased in recent years, as demonstrated by more than 600 references published from 2018 until mid-2020 that were found in the Web of Science database by searching for “UAV”+“forest”. This result is even more surprising when compared with similar research for “UAV”+“agriculture”, from which emerge about 470 references. This shows how UAV–RS research forestry is gaining increasing popularity. In Part II of this review, analyzing the main findings of the reviewed papers (227), numerous strengths emerge concerning research technical issues. UAV–RS is fully applicated for obtaining accurate information from practical parameters (height, diameter at breast height (DBH), and biomass). Research effectiveness and soundness demonstrate that UAV–RS is now ready to be applied in a real management context. Some critical issues and barriers in transferring research products are also evident, namely,(1) hyperspectral sensors are poorly used, and their novel applications should be based on the capability of acquiring tree spectral signature especially for pest and diseases detection, (2) automatic processes for image analysis are poorly flexible or based on proprietary software at the expense of flexible and open-source tools that can foster researcher activities and support technology transfer among all forestry stakeholders, and (3) a clear lack exist in sensors and platforms interoperability for large-scale applications and for enabling data interoperability.

scholarly journals Novel Microsatellite Markers Used for Determining Genetic Diversity and Tracing of Wild and Farmed Populations of the Amazonian Giant Fish Arapaima gigas

Genes ◽  
2021 ◽  
Vol 12 (9) ◽  
pp. 1324
Author(s):  
Paola Fabiana Fazzi-Gomes ◽  
Jonas da Paz Aguiar ◽  
Diego Marques ◽  
Gleyce Fonseca Cabral ◽  
Fabiano Cordeiro Moreira ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Amazon Basin ◽  
Population Level ◽  
Legal Aspects ◽  
Genetic Management ◽  
Genetic Structuring ◽  
Environmental Pressures ◽  
National Regulation ◽  
Arapaima Gigas

The Amazonian symbol fish Arapaima gigas is the only living representative of the Arapamidae family. Environmental pressures and illegal fishing threaten the species’ survival. To protect wild populations, a national regulation must be developed for the management of A. gigas throughout the Amazon basin. Moreover, the reproductive genetic management and recruitment of additional founders by aquaculture farms are needed to mitigate the damage caused by domestication. To contribute to the sustainable development, we investigated the genetic diversity of wild and cultivated populations of A. gigas and developed a panel composed by 12 microsatellite markers for individual and population genetic tracing. We analyzed 368 samples from three wild and four farmed populations. The results revealed low rates of genetic diversity in all populations, loss of genetic diversity and high inbreeding rates in farmed populations, and genetic structuring among wild and farmed populations. Genetic tracing using the 12 microsatellite markers was effective, and presented a better performance in identifying samples at the population level. The 12-microsatellite panel is appliable to the legal aspects of the trade of the A. gigas, such as origin discrimination, reproductive genetic management by DNA profiling, and evaluation and monitoring of genetic diversity.

scholarly journals Decline of the Manila clams stock in the northern Adriatic lagoons

2017 ◽  
Vol 58 (1) ◽  
pp. 89-104 ◽  
Author(s):  
Massimo Ponti ◽  
Marco Abbiati ◽  
Victor Ugo Ceccherelli ◽  
Elena Gamba ◽  
Alessandro Ragazzoni ◽  
...  
Keyword(s):  
Sustainable Management ◽  
Wild Population ◽  
Coastal Lagoons ◽  
Ruditapes Philippinarum ◽  
Wild Populations ◽  
Commercial Activity ◽  
Northern Adriatic ◽  
Larval Recruitment ◽  
Summer Heat ◽  
Good Accordance

The Manila clam, Ruditapes philippinarum, introduced in the Venice lagoons in 1983 and rapidly spread to the nearby coastal lagoons represents one of the most important commercially-exploited resources of this area. Abundance, size-class and biomass distribution of the wild population living in the Pialassa Baiona lagoon were assessed and related to the hydrological and sediment characteristics. Despite the lagoon being affected by eutrophication, chemical and thermal pollution, the clams were harvested by about thirty professional fishermen until 2003. The commercially available stock was estimated at 36.8 10 3 kg in July 2002, 29.3 10 3 kg in April 2003, and 10.3 10 3 kg in October 2003. Stock estimations and observed mortality were in good accordance with the fishermen data. The decline of the available stock could be due to both overfishing and the extraordinary summer heat wave occurred in 2003, which may have reduced larval recruitment and increased the mortality. Overall, the juvenile recruitment appeared insufficient to annually restore the natural stock. Although the national and regional high relevance of clams market, local harvesting of wild populations appeared marginal and inadequate to support a remunerative commercial activity, due to the variability and unpredictability of the annual yield and the lack of a sustainable management based on a production chain’s approach.

Managing gene flow among isolated population fragments

2019 ◽  
pp. 115-134
Author(s):  
Richard Frankham ◽  
Jonathan D. Ballou ◽  
Katherine Ralls ◽  
Mark D. B. Eldridge ◽  
Michele R. Dudash ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Information ◽  
Management Strategies ◽  
Genetic Data ◽  
Isolated Population ◽  
Detailed Data ◽  
Genetic Management ◽  
Flow Management ◽  
The Status

Even without detailed genetic data, sound genetic management strategies for augmenting gene flow can be instituted by considering population genetics theory, and/or computer simulations. When detailed data are lacking, moving (translocating) some individuals into isolated inbred population fragments is better than moving none, as long as the risk of outbreeding depression is low. With more detailed genetic information, more precise genetic management of fragmented populations can be achieved. Using mean kinship within and between populations (estimated from modeling, pedigrees, genetic markers or genomes), and moving individuals among fragments with the lowest between fragment mean kinships provides the best approach to gene flow management. Populations should then be monitored to confirm that movement of individuals has resulted in the desired levels of gene flow, genetic diversity has been enhanced, and that the status of the population is improving.

Genetic management of wild populations

2012 ◽  
pp. 391-413
Author(s):  
Richard Frankham ◽  
Jonathan D. Ballou ◽  
David A. Briscoe
Keyword(s):  
Wild Populations ◽  
Genetic Management

scholarly journals Genetic management on the brink of extinction: sequencing microsatellites does not improve estimates of inbreeding in wild and captive Vancouver Island marmots (Marmota vancouverensis)

2022 ◽  
Author(s):  
Kimberley G. Barrett ◽  
Geneviève Amaral ◽  
Melanie Elphinstone ◽  
Malcolm L. McAdie ◽  
Corey S. Davis ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Captive Breeding ◽  
Amplicon Sequencing ◽  
Vancouver Island ◽  
Wild Populations ◽  
Genetic Management ◽  
Captive Breeding Program ◽  
Increased Risk ◽  
Low Diversity

AbstractCaptive breeding is often a last resort management option in the conservation of endangered species which can in turn lead to increased risk of inbreeding depression and loss of genetic diversity. Thus, recording breeding events via studbook for the purpose of estimating relatedness, and facilitating mating pair selection to minimize inbreeding, is common practice. However, as founder relatedness is often unknown, loss of genetic variation and inbreeding cannot be entirely avoided. Molecular genotyping is slowly being adopted in captive breeding programs, however achieving sufficient resolution can be challenging in small, low diversity, populations. Here, we evaluate the success of the Vancouver Island marmot (Marmota vancouverensis; VIM; among the worlds most endangered mammals) captive breeding program in preventing inbreeding and maintaining genetic diversity. We explored the use of high-throughput amplicon sequencing of microsatellite regions to assay greater genetic variation in both captive and wild populations than traditional length-based fragment analysis. Contrary to other studies, this method did not considerably increase diversity estimates, suggesting: (1) that the technique does not universally improve resolution, and (2) VIM have exceedingly low diversity. Studbook estimates of pairwise relatedness and inbreeding in the current population were weakly, but positively, correlated to molecular estimates. Thus, current studbooks are moderately effective at predicting genetic similarity when founder relatedness is known. Finally, we found that captive and wild populations did not differ in allelic frequencies, and conservation efforts to maintain diversity have been successful with no significant decrease in diversity over the last three generations.

A multivariate analysis of the Pitcairnia palmeri group (Bromeliaceae: Pitcairnioideae)

Phytotaxa ◽  
2018 ◽  
Vol 351 (3) ◽  
pp. 219
Author(s):  
EDITH GONZÁLEZ-ROCHA ◽  
MANUEL ARNOLDO CASTILLO-RIVERA ◽  
ANA ROSA LÓPEZ-FERRARI ◽  
ADOLFO ESPEJO-SERNA
Keyword(s):  
Multivariate Analysis ◽  
Discriminant Analysis ◽  
Principal Components ◽  
Taxonomic Status ◽  
Morphological Characters ◽  
Accurate Information ◽  
Cluster Analyses ◽  
Floral Bracts

A multivariate analysis of the Pitcairnia palmeri group are presented. Principal Components and Cluster analyses were performed in order to have more accurate information to delimit the species. The analyses showed that the specimens referred to Pitcairnia palmeri var. longebracteata are clearly delimited, while those identified as P. palmeri var. palmeri, P. colimensis, and P. compostelae have a greater overlap of morphological characters, but remain as separate entities. A discriminant analysis showed that morphological characters used have significant multivariate differences between the taxa (P < 0.0005), and that the most important variables in the differentiation of these taxa are the percentage of floral bracts that exceeds the length of the sepals, the length of the floral bracts, and the length of the peduncle. We conclude that P. palmeri var. longebracteata is clearly a different species, not a variety, therefore is described and illustrated as P. robert-downsii, and that P. palmeri, P. compostelae and P. colimensis maintain their taxonomic status.

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