DNA barcoding invasive insects: database roadblocks

2012 ◽  
Vol 26 (6) ◽  
pp. 506 ◽  
Author(s):  
Laura M. Boykin ◽  
Karen Armstrong ◽  
Laura Kubatko ◽  
Paul De Barro
Keyword(s):  
Invasive Species ◽  
Missing Data ◽  
Dna Barcoding ◽  
Genetic Data ◽  
Invasive Insects ◽  
Identification Number ◽  
Use Of Resources ◽  
Private Data ◽  
Parallel Data ◽  
Data Coverage

This study examines the genetic data coverage and availability in the Barcode of Life Database (BOLD), versions 2.5 and 3.0, and GenBank for the 88 invasive insects listed in the Global Invasive Species Database (http://www.issg.org). No data are recorded in either BOLD or GenBank for seven of those species. As a dedicated repository of curated barcode data BOLD is either missing data or contains inaccessible private data for 37 (42%) of the species while no data are available in GenBank for nine (8%) of the species. An evaluation of the Barcode Identification Number (BIN) scheme in BOLD ver. 3.0 was also evaluated and in 41% of cases the BIN contained more than one species. This essentially arose due to the 1% delimitation thresholds associated with the BINs and would result in misidentifications. Overall, more information is available from GenBank for the 88 invasive species listed on the Global Invasive Species Database, but quality checking is required to ensure that the data extracted from GenBank are of sufficient quality to make it useful. The implications of these results are discussed, with investment in parallel data silos suggested to be both costly and potentially an inefficient use of resources that may lead to loss of data if the means needed to maintain these databases become unavailable.

Invasive Shot Hole Borers Euwallacea fornicatus, E. kuroshio, and E. perbrevis (Coleoptera: Curculionidae: Scolytinae)

EDIS ◽  
2020 ◽  
Vol 2020 (1) ◽  
pp. 7
Author(s):  
Demian F. Gomez ◽  
Jiri Hulcr ◽  
Daniel Carrillo
Keyword(s):  
South Africa ◽  
Invasive Species ◽  
Prevention And Control ◽  
Economic Impacts ◽  
Forest Resources ◽  
Economic Damage ◽  
Ambrosia Beetles ◽  
Invasive Insects ◽  
The World ◽  
And Control

Invasive species, those that are nonnative and cause economic damage, are one of the main threats to ecosystems around the world. Ambrosia beetles are some of the most common invasive insects. Currently, severe economic impacts have been increasingly reported for all the invasive shot hole borers in South Africa, California, Israel, and throughout Asia. This 7-page fact sheet written by Demian F. Gomez, Jiri Hulcr, and Daniel Carrillo and published by the School of Forest Resources and Conservation describes shot hole borers and their biology and hosts and lists some strategies for prevention and control of these pests. http://edis.ifas.ufl.edu/fr422

Use of DNA barcoding to detect invertebrate invasive species from diapausing eggs

2010 ◽  
Vol 13 (6) ◽  
pp. 1325-1340 ◽  
Author(s):  
Elizabeta Briski ◽  
Melania E. Cristescu ◽  
Sarah A. Bailey ◽  
Hugh J. MacIsaac
Keyword(s):  
Invasive Species ◽  
Dna Barcoding ◽  
Diapausing Eggs

DNA barcoding of invasive species

2010 ◽  
pp. 289-299 ◽  
Author(s):  
Hugh B. Cross ◽  
Andrew J. Lowe ◽  
Frederico D. Gurgel
Keyword(s):  
Invasive Species ◽  
Dna Barcoding

scholarly journals A comparison of VMS and AIS data: the effect of data coverage and vessel position recording frequency on estimates of fishing footprints

2017 ◽  
Vol 75 (3) ◽  
pp. 988-998 ◽  
Author(s):  
Jennifer L Shepperson ◽  
Niels T Hintzen ◽  
Claire L Szostek ◽  
Ewen Bell ◽  
Lee G Murray ◽  
...  
Keyword(s):  
Missing Data ◽  
Monitoring System ◽  
Spline Interpolation ◽  
Automatic Identification ◽  
Identification System ◽  
Fishing Activity ◽  
Fishing Vessels ◽  
Position Data ◽  
Hermite Spline ◽  
Data Coverage

Abstract Understanding the distribution of fishing activity is fundamental to quantifying its impact on the seabed. Vessel monitoring system (VMS) data provides a means to understand the footprint (extent and intensity) of fishing activity. Automatic Identification System (AIS) data could offer a higher resolution alternative to VMS data, but differences in coverage and interpretation need to be better understood. VMS and AIS data were compared for individual scallop fishing vessels. There were substantial gaps in the AIS data coverage; AIS data only captured 26% of the time spent fishing compared to VMS data. The amount of missing data varied substantially between vessels (45–99% of each individuals' AIS data were missing). A cubic Hermite spline interpolation of VMS data provided the greatest similarity between VMS and AIS data. But the scale at which the data were analysed (size of the grid cells) had the greatest influence on estimates of fishing footprints. The present gaps in coverage of AIS may make it inappropriate for absolute estimates of fishing activity. VMS already provides a means of collecting more complete fishing position data, shielded from public view. Hence, there is an incentive to increase the VMS poll frequency to calculate more accurate fishing footprints.

scholarly journals DNA Barcoding Invasive Species of South Africa: Alien invasive plants of the North-West Province

2013 ◽  
Vol 86 ◽  
pp. 175
Author(s):  
D.M. Komape ◽  
L.I. Mabe ◽  
S.J. Siebert ◽  
M. Struwig ◽  
T.M. Sethusa ◽  
...  
Keyword(s):  
South Africa ◽  
Invasive Species ◽  
Dna Barcoding ◽  
Invasive Plants ◽  
North West ◽  
The North ◽  
North West Province ◽  
Alien Invasive Plants ◽  
Plants Of The North

scholarly journals Molecular tools and DNA barcoding for conservation

Lankesteriana ◽  
2015 ◽  
Vol 7 (1-2) ◽  
Author(s):  
Guillaume Gigot
Keyword(s):  
Dna Barcoding ◽  
Biodiversity Conservation ◽  
Sustainable Use ◽  
Molecular Tools ◽  
Use Of Resources ◽  
The World

The Darwin Initiative (DI) for the Survival of Species promotes biodiversity conservation and sustainable use of resources around the world (http://www.darwin.gov.uk). 

scholarly journals A BARCODE-BASED PHYLOGENETIC SCAFFOLD FOR XYSTICUS AND ITS RELATIVES (ARANEAE: THOMISIDAE: CORIARACHNINI)

2019 ◽  
Vol 20 ◽  
pp. 198-206 ◽  
Author(s):  
Rainer Breitling
Keyword(s):  
Phylogenetic Analysis ◽  
Dna Barcoding ◽  
Phylogenetic Relationships ◽  
Genetic Data ◽  
Target Area ◽  
Starting Point ◽  
Main Target ◽  
Holarctic Region ◽  
Species Groups ◽  
Crab Spider

The phylogenetic relationships and taxonomy of the crab spider genus Xysticus and its closest relatives (i.e., the tribe Coriarachnini, also including, e.g., Ozyptila, Coriarachne and Bassaniana) have long been controversial, with several alternative classifications being proposed, none of which has gained universal acceptance. As Coriarachnini is largely confined to the Holarctic region, the main target area of recent DNA barcoding projects for spiders, a large amount of genetic data for the group is now publicly available. The results of a phylogenetic analysis of this sequence dataset are largely congruent with earlier morphology-based results regarding the evolutionary structure of the group. In particular, they highlight the fact that Xysticus s. lat. is a paraphyletic assembly and that several species groups need to be placed in separate genera to achieve monophyly of Xysticus s. str. Similarly, Coriarachne and Bassaniana appear as independent clades rather than a joined monophyletic Coriarachne s. lat. In contrast, further subdivision of Ozyptila is not supported by the genetic data. Importantly, the analysis also shows that anapophysate members of Xysticus s. lat. form two widely separated groups: a primarily anapophysate division, also including Coriarachne and Bassaniana, at the base of Xysticus s. lat., and a secondarily anapophysate clade deeply nested within Xysticus s. str. This might explain some of the earlier difficulties when trying to define generally accepted subgroups within Xysticus s. lat. The phylogenetic scaffold based on barcode sequences is sufficiently dense and well resolved to attempt the tentative and provisional placement of the majority of species in Xysticus s. lat. in the independent genera Xysticus s. str., Bassaniodes, Psammitis and Spiracme as a starting point for a future more formal revision of the group.

The evidence for species—phenotypic and genetic clustering

2019 ◽  
pp. 30-51
Author(s):  
Timothy G. Barraclough
Keyword(s):  
Genetic Variation ◽  
Dna Barcoding ◽  
Population Genetic ◽  
Genetic Data ◽  
Single Locus ◽  
Phenotypic Data ◽  
Alternative Hypotheses ◽  
Complex Models ◽  
Genetic Clustering ◽  
Rule Out

This chapter discusses how to detect evolutionary species, and how to test whether species are real and to evaluate the alternative hypotheses for the structure of diversity described in chapter 2. After outlining evidence from phenotypic data, such as surveys of morphology, it describes population genetic methods for delimiting species from single-locus genetic data, of the kind gathered by DNA barcoding and taxonomy initiatives. All forms of life display the same pattern of discrete clustering of genetic variation that is indicative of the existence of independently evolving groups, that is, species. This is perhaps the best comprehensive evidence we have for the reality of species, but it leaves open many further questions about the causes of that pattern, and does not rule out more complex models for the structure of diversity.

scholarly journals Improved detection of an alien invasive species through environmental DNA barcoding: the example of the American bullfrogLithobates catesbeianus

2012 ◽  
Vol 49 (4) ◽  
pp. 953-959 ◽  
Author(s):  
Tony Dejean ◽  
Alice Valentini ◽  
Christian Miquel ◽  
Pierre Taberlet ◽  
Eva Bellemain ◽  
...  
Keyword(s):  
Invasive Species ◽  
Dna Barcoding ◽  
Environmental Dna ◽  
Alien Invasive Species

Prioritizing Management of the Invasive Grass Common Reed (Phragmites australis) in Great Salt Lake Wetlands

2017 ◽  
Vol 10 (2) ◽  
pp. 155-165 ◽  
Author(s):  
A. Lexine Long ◽  
Karin M. Kettenring ◽  
Richard Toth
Keyword(s):  
Invasive Species ◽  
Best Management Practices ◽  
Management Practices ◽  
Common Reed ◽  
Invasive Species Management ◽  
Restoration Planning ◽  
Spatial Prioritization ◽  
Management Actions ◽  
Use Of Resources ◽  
Species Management

Nonnative invasive species are one of the biggest threats to biodiversity worldwide. In many cases the extent of the area invaded by an invasive species is so substantial that there are simply insufficient resources to control and manage the full extent of the invasion. Efficient use of resources and best management practices are critical for achieving invasive species management goals. Systematic regional planning is one way to quantitatively prioritize different management actions across the landscape, and is a tool that could be applied to large-scale invasive species management. Spatial prioritization has been used in several wetland restoration planning studies, in forest restoration, and in riparian and watershed restoration. Spatial prioritization has not been used as extensively in invasive species management, yet there are clear opportunities for spatial prioritization methods to inform invasive species management. Here we apply results from species distribution models to create a prioritization framework for control of the invasive wetland grass common reed, one of the most problematic invasive plants in North American wetlands.

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