Combining species-specific COI primers with environmental DNA analysis for targeted detection of rare freshwater species

2013 ◽  
Vol 5 (4) ◽  
pp. 971-975 ◽  
Author(s):  
Jennifer E. Bronnenhuber ◽  
Chris C. Wilson
Keyword(s):  
Dna Analysis ◽  
Environmental Dna ◽  
Freshwater Species ◽  
Species Specific ◽  
Targeted Detection

scholarly journals Monthly eDNA Monitoring of an Invasive Bryozoan, Bugulina californica, in Seawater Using Species-Specific Markers

Animals ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 1966
Author(s):  
Philjae Kim ◽  
Tae-Joong Yoon ◽  
Sook Shin
Keyword(s):  
Invasive Species ◽  
Dna Analysis ◽  
Early Stage ◽  
Environmental Dna ◽  
Pcr Analysis ◽  
Monitoring Method ◽  
Ship Hulls ◽  
Seawater Samples ◽  
Species Specific ◽  
Invasive Bryozoan

Environmental DNA (eDNA) method used by many ecologists as effective investigation tool can detect endangered species, rare species, and invasive species. In case of invasive species, eDNA method help to monitor the target species when the species was hard to detect through the traditional survey such as the early stage of invasion, low abundance, and larva or juvenile stage. The bryozoan, Bugulina californica, was known as a marine fouling invasive species in Korea since its first reported in 1978. This species expanded nationwide, and damages to ascidian aquaculture through attached on the ship hulls and artificial facilities. To monitor the distribution and biomass of invasive bryozoan, B. californica, the qPCR analysis of environmental DNA was performed on seawater samples from 12 harbors. In this study, we designed species-specific markers which can calculate the detected DNA copies of B. californica, and the presence and monitoring of this species can be more accurately estimated by environmental DNA analysis than by traditional survey, in which it is difficult to identify the species. Real-time PCR analysis using environmental DNA is an effective monitoring method that can determine both the distribution and the monthly change in biomass of B. californica in Korea.

ASSESSMENT ON THE SEASONAL BIOMASS VARIATIONS OF RIVERINE ORGANISMS USING ENVIRONMENTAL DNA ANALYSIS IN THE TAKATSU RIVER, WESTERN JAPAN

2020 ◽  
Vol 76 (2) ◽  
pp. I_1303-I_1308
Author(s):  
Kanta KOBAYASHI ◽  
Minoru SAITO ◽  
Yoshihisa AKAMATSU ◽  
Ryutei INUI ◽  
Takanori KONO ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Environmental Dna ◽  
Western Japan

scholarly journals Development of species-specific Cichla species eDNA primers for alien invasive species (AIS) monitoring in Malaysia

2021 ◽  
Vol 4 ◽  
Author(s):  
O. Nurul Fizatul Nabilah ◽  
A. R. Ramizah ◽  
A. B. Adibah ◽  
S. Syazwan ◽  
A.G. Intan Faraha ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Environmental Dna ◽  
Coi Gene ◽  
Alien Invasive Species ◽  
Survey Method ◽  
Specific Primers ◽  
Invasive Fishes ◽  
Specific Amplification ◽  
Species Specific ◽  
High Level

Peacock bass or the cichlids are known locally as top predator fishes which are invasive in Malaysia freshwater system. Detection probabilities for these fishes are typically low, especially using conventional capture-survey method due to the fish’s behaviour of hiding beneath the water’s surface. Hence, the environmental DNA (eDNA) monitoring is a relatively new approach that can be used to assess the distribution of these invasive fishes. Here, we report the strategy to develop small fragment (280- 400 bp) specific-specific primers for three selected invasive Cichla species namely, C. ocellaris, C. monoculus, and C. kelberi based on mitochondrial DNA (mtDNA) sequences. Current research showed that the developed species-specific primers from cytochrome oxidase I (COI) gene has high resolution at species level. Species-specific amplification tests also proved the specificity of the developed primers, securing the high- level species identification potential which may help in controlling the spread of alien invasive fish species.

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