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Using DNA Barcodes to Identify Road-Killed Animals in Two Atlantic Forest Nature Reserves, Brazil.

Klippel AH, Oliveira PV, Britto KB, Freire BF, Moreno MR, Dos Santos AR, Banhos A, Paneto GG - PLoS ONE (2015)

Bottom Line: The most commonly identified animals were a bat (Molossus molossus), an opossum (Didelphis aurita) and a frog (Trachycephalus mesophaeus) species.Only one reptile was identified using the technique, probably due to lack of reference sequences in BOLD.These data may contribute to a better understanding of the impact of roads on species biodiversity loss and to introduce the DNA barcode technique to road ecology scenarios.

View Article: PubMed Central - PubMed

Affiliation: Federal University of Espirito Santo, Centre of Agricultural Sciences, Alto Universitário, s/n, Guararema, Alegre, Espírito Santo, 29.500-000, Brazil.

ABSTRACT
Road mortality is the leading source of biodiversity loss in the world, especially due to fragmentation of natural habitats and loss of wildlife. The survey of the main species victims of roadkill is of fundamental importance for the better understanding of the problem, being necessary, for this, the correct species identification. The aim of this study was to verify if DNA barcodes can be applied to identify road-killed samples that often cannot be determined morphologically. For this purpose, 222 vertebrate samples were collected in a stretch of the BR-101 highway that crosses two Discovery Coast Atlantic Forest Natural Reserves, the Sooretama Biological Reserve and the Vale Natural Reserve, in Espírito Santo, Brazil. The mitochondrial COI gene was amplified, sequenced and confronted with the BOLD database. It was possible to identify 62.16% of samples, totaling 62 different species, including Pyrrhura cruentata, Chaetomys subspinosus, Puma yagouaroundi and Leopardus wiedii considered Vulnerable in the National Official List of Species of Endangered Wildlife. The most commonly identified animals were a bat (Molossus molossus), an opossum (Didelphis aurita) and a frog (Trachycephalus mesophaeus) species. Only one reptile was identified using the technique, probably due to lack of reference sequences in BOLD. These data may contribute to a better understanding of the impact of roads on species biodiversity loss and to introduce the DNA barcode technique to road ecology scenarios.

No MeSH data available.


Related in: MedlinePlus

Percentage and absolute number of identified and unidentified samples in this study.
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pone.0134877.g002: Percentage and absolute number of identified and unidentified samples in this study.

Mentions: Of 222 tested samples, 138 (62.16%) could be identified using DNA barcoding and BOLD (Table 1). From these, 131 samples showed similarity >99% and seven had <99% in BOLD database. In the last case, the NJ tree was analyzed to consider the sample identified (Table 2). Eighty-four (37.84%) could not be identified at all: 51 (22.97%) samples generated good quality electropherograms, but they could not be identified in BOLD (“no match” was obtained, with exception of four samples with a match <99% but reproved in NJ tree analysis) (Table 2), 21 (9.46%) generated poor quality electropherograms even by repeating the technique, eight (3.60%) generated ambiguous identification and four (1.80%) did not amplify (Fig 2, Table 1 and S1 Table).


Using DNA Barcodes to Identify Road-Killed Animals in Two Atlantic Forest Nature Reserves, Brazil.

Klippel AH, Oliveira PV, Britto KB, Freire BF, Moreno MR, Dos Santos AR, Banhos A, Paneto GG - PLoS ONE (2015)

Percentage and absolute number of identified and unidentified samples in this study.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4526655&req=5

pone.0134877.g002: Percentage and absolute number of identified and unidentified samples in this study.
Mentions: Of 222 tested samples, 138 (62.16%) could be identified using DNA barcoding and BOLD (Table 1). From these, 131 samples showed similarity >99% and seven had <99% in BOLD database. In the last case, the NJ tree was analyzed to consider the sample identified (Table 2). Eighty-four (37.84%) could not be identified at all: 51 (22.97%) samples generated good quality electropherograms, but they could not be identified in BOLD (“no match” was obtained, with exception of four samples with a match <99% but reproved in NJ tree analysis) (Table 2), 21 (9.46%) generated poor quality electropherograms even by repeating the technique, eight (3.60%) generated ambiguous identification and four (1.80%) did not amplify (Fig 2, Table 1 and S1 Table).

Bottom Line: The most commonly identified animals were a bat (Molossus molossus), an opossum (Didelphis aurita) and a frog (Trachycephalus mesophaeus) species.Only one reptile was identified using the technique, probably due to lack of reference sequences in BOLD.These data may contribute to a better understanding of the impact of roads on species biodiversity loss and to introduce the DNA barcode technique to road ecology scenarios.

View Article: PubMed Central - PubMed

Affiliation: Federal University of Espirito Santo, Centre of Agricultural Sciences, Alto Universitário, s/n, Guararema, Alegre, Espírito Santo, 29.500-000, Brazil.

ABSTRACT
Road mortality is the leading source of biodiversity loss in the world, especially due to fragmentation of natural habitats and loss of wildlife. The survey of the main species victims of roadkill is of fundamental importance for the better understanding of the problem, being necessary, for this, the correct species identification. The aim of this study was to verify if DNA barcodes can be applied to identify road-killed samples that often cannot be determined morphologically. For this purpose, 222 vertebrate samples were collected in a stretch of the BR-101 highway that crosses two Discovery Coast Atlantic Forest Natural Reserves, the Sooretama Biological Reserve and the Vale Natural Reserve, in Espírito Santo, Brazil. The mitochondrial COI gene was amplified, sequenced and confronted with the BOLD database. It was possible to identify 62.16% of samples, totaling 62 different species, including Pyrrhura cruentata, Chaetomys subspinosus, Puma yagouaroundi and Leopardus wiedii considered Vulnerable in the National Official List of Species of Endangered Wildlife. The most commonly identified animals were a bat (Molossus molossus), an opossum (Didelphis aurita) and a frog (Trachycephalus mesophaeus) species. Only one reptile was identified using the technique, probably due to lack of reference sequences in BOLD. These data may contribute to a better understanding of the impact of roads on species biodiversity loss and to introduce the DNA barcode technique to road ecology scenarios.

No MeSH data available.


Related in: MedlinePlus