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Species identification of marine fishes in china with DNA barcoding.

Zhang J - Evid Based Complement Alternat Med (2011)

Bottom Line: There are no overlaps of pairwise genetic variations between conspecific and interspecific comparisons apart from the genera Pampus in which the introgressive hybridization was detected.High efficiency of species identification was demonstrated in the present study by DNA barcoding.Due to the incidence of cryptic species, an assumed threshold is suggested to expedite discovering of new species and biodiversity, especially involving biotas of few studies.

View Article: PubMed Central - PubMed

Affiliation: College of Fisheries and Life Science, Shanghai Ocean University, Shanghai 201306, China.

ABSTRACT
DNA barcoding is a molecular method that uses a short standardized DNA sequence as a species identification tool. In this study, the standard 652 base-pair region of the mitochondrial cytochrome oxidase subunit I gene (COI) was sequenced in marine fish specimens captured in China. The average genetic distance was 50-fold higher between species than within species, as Kimura two parameter (K2P) genetic distances averaged 15.742% among congeners and only 0.319% for intraspecific individuals. There are no overlaps of pairwise genetic variations between conspecific and interspecific comparisons apart from the genera Pampus in which the introgressive hybridization was detected. High efficiency of species identification was demonstrated in the present study by DNA barcoding. Due to the incidence of cryptic species, an assumed threshold is suggested to expedite discovering of new species and biodiversity, especially involving biotas of few studies.

No MeSH data available.


Neighbor-joining (NJ) tree of COI sequences. Scale: 5% K2P distance. The first numbers following species names are the process IDs, and the latter are the sample IDs.
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fig3: Neighbor-joining (NJ) tree of COI sequences. Scale: 5% K2P distance. The first numbers following species names are the process IDs, and the latter are the sample IDs.

Mentions: In the unrooted NJ (neighbour-joining) tree (Figure 3), three specimens of Pampus argentenus were grouped together and contained within the cluster of Pampus cinereus. These Pampus argentenus specimens were collected in the same site off the west coast of the South China Sea, and were difficult to identify because of their complex morphological characteristics (available at http://www.barcodinglife.org/). They possessed combined characteristics of Pampus cinereus and Pampus argentenus: the asymmetrical tail of Pampus cinereus and silver color of Pampus argentenus. If the suspicious congeneric K2P distances in the genera Pampus are excluded (the extreme outliers in Figure 1), the pairwise genetic divergences among congeneric species are above 10%. There are no overlaps between intraspecific and congeneric K2P distances within the same family (Figure 3).


Species identification of marine fishes in china with DNA barcoding.

Zhang J - Evid Based Complement Alternat Med (2011)

Neighbor-joining (NJ) tree of COI sequences. Scale: 5% K2P distance. The first numbers following species names are the process IDs, and the latter are the sample IDs.
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3108176&req=5

fig3: Neighbor-joining (NJ) tree of COI sequences. Scale: 5% K2P distance. The first numbers following species names are the process IDs, and the latter are the sample IDs.
Mentions: In the unrooted NJ (neighbour-joining) tree (Figure 3), three specimens of Pampus argentenus were grouped together and contained within the cluster of Pampus cinereus. These Pampus argentenus specimens were collected in the same site off the west coast of the South China Sea, and were difficult to identify because of their complex morphological characteristics (available at http://www.barcodinglife.org/). They possessed combined characteristics of Pampus cinereus and Pampus argentenus: the asymmetrical tail of Pampus cinereus and silver color of Pampus argentenus. If the suspicious congeneric K2P distances in the genera Pampus are excluded (the extreme outliers in Figure 1), the pairwise genetic divergences among congeneric species are above 10%. There are no overlaps between intraspecific and congeneric K2P distances within the same family (Figure 3).

Bottom Line: There are no overlaps of pairwise genetic variations between conspecific and interspecific comparisons apart from the genera Pampus in which the introgressive hybridization was detected.High efficiency of species identification was demonstrated in the present study by DNA barcoding.Due to the incidence of cryptic species, an assumed threshold is suggested to expedite discovering of new species and biodiversity, especially involving biotas of few studies.

View Article: PubMed Central - PubMed

Affiliation: College of Fisheries and Life Science, Shanghai Ocean University, Shanghai 201306, China.

ABSTRACT
DNA barcoding is a molecular method that uses a short standardized DNA sequence as a species identification tool. In this study, the standard 652 base-pair region of the mitochondrial cytochrome oxidase subunit I gene (COI) was sequenced in marine fish specimens captured in China. The average genetic distance was 50-fold higher between species than within species, as Kimura two parameter (K2P) genetic distances averaged 15.742% among congeners and only 0.319% for intraspecific individuals. There are no overlaps of pairwise genetic variations between conspecific and interspecific comparisons apart from the genera Pampus in which the introgressive hybridization was detected. High efficiency of species identification was demonstrated in the present study by DNA barcoding. Due to the incidence of cryptic species, an assumed threshold is suggested to expedite discovering of new species and biodiversity, especially involving biotas of few studies.

No MeSH data available.