Molecular ecology and stock identification

Adamson, Eleanor A. S.; Hurwood, David A.

doi:10.1002/9781118394380.ch58

Cited by 3 publications

(3 citation statements)

References 143 publications

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“…Consistent with our results, similarity was found between wf-eDNA and electrofishing for estimating richness in the St. Joseph River, United States (Olds et al, 2016). This shows several advantages, such as identification of species by wf-eDNA without increased effort and habitat disturbance for biomonitoring of fish fauna (Adamson and Hurwood, 2016). The Shannon index calculated from wf-eDNA was significantly higher than traditional sampling methods in the present study in the Klíčava and Žlutice Reservoirs.…”

Section: Diversity and Site Occupancy Of Fish Communitiessupporting

confidence: 89%

Similarities and Differences in Fish Community Composition Accessed by Electrofishing, Gill Netting, Seining, Trawling, and Water eDNA Metabarcoding in Temperate Reservoirs

et al. 2022

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It is difficult to understand the composition and diversity of biological communities in complex and heterogeneous environments using traditional sampling methods. Recently, developments in environmental DNA metabarcoding have emerged as a powerful, non-invasive method for comprehensive community characterization and biodiversity monitoring in different types of aquatic ecosystems. In this study, water eDNA targeting fish (wf-eDNA) and four traditional fish sampling methods (electrofishing, gill netting, seining, trawling) were compared to evaluate the reliability and efficiency of wf-eDNA (vertebrate mitochondrial 12S ribosomal RNA (rRNA) as an alternative approach to assess the diversity and composition of freshwater fish communities. The results of wf-eDNA showed a consistency between the traditional sampling methods regarding species detection. However, some fish species detected using wf-eDNA assay were not detected using traditional sampling methods and vice versa. Comparison of wf-eDNA and traditional sampling methods revealed spatial homogeneity in fish community composition in all reservoirs. Ordination analysis showed that the wf-eDNA approach covers all traditional sampling methods and occupies an intermediate position. In addition, based on the Shannon diversity index, we found that in one reservoir the wf-eDNA method yielded similar fish community diversity to traditional sampling methods. However, in other reservoirs, the calculated Shannon diversity index of the wf-eDNA method was significantly higher than traditional sampling methods. In general, significant positive correlations were found between the wf-eDNA method and almost all traditional sampling methods. We conclude that wf-eDNA seems to be a reliable and complementary approach for biomonitoring and ecosystem management of freshwater ichthyofauna.

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Section: Diversity and Site Occupancy Of Fish Communitiessupporting

confidence: 89%

Similarities and Differences in Fish Community Composition Accessed by Electrofishing, Gill Netting, Seining, Trawling, and Water eDNA Metabarcoding in Temperate Reservoirs

et al. 2022

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“…The consistency of observed species richness estimates from eDNA and electrofishing, coupled with the added benefits of identifying additional species without increased effort and harassment, represents a transformative method for biomonitoring of fish fauna (Evans et al. ; Adamson and Hurwood ).…”

Section: Discussionmentioning

confidence: 99%

Estimating species richness using environmental DNA

Olds

Jerde

Renshaw

et al. 2016

Ecology and Evolution

176

183

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The foundation for any ecological study and for the effective management of biodiversity in natural systems requires knowing what species are present in an ecosystem. We assessed fish communities in a stream using two methods, depletion‐based electrofishing and environmental DNA metabarcoding (eDNA) from water samples, to test the hypothesis that eDNA provides an alternative means of determining species richness and species identities for a natural ecosystem. In a northern Indiana stream, electrofishing yielded a direct estimate of 12 species and a mean estimated richness (Chao II estimator) of 16.6 species with a 95% confidence interval from 12.8 to 42.2. eDNA sampling detected an additional four species, congruent with the mean Chao II estimate from electrofishing. This increased detection rate for fish species between methods suggests that eDNA sampling can enhance estimation of fish fauna in flowing waters while having minimal sampling impacts on fish and their habitat. Modern genetic approaches therefore have the potential to transform our ability to build a more complete list of species for ecological investigations and inform management of aquatic ecosystems.

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“…These strategies can be formulated once the fishery stock has been genetically defined, to achieve sustainable fishery management. For instance, the common fishery management strategy is suitable for a panmictic population, while non-panmictic fishery stocks warrant different management or policies ( Adamson & Hurwood, 2015 ; Laikre, Palm & Ryman, 2005 ; Ward, 2000 ).…”

Section: Introductionmentioning

confidence: 99%

Mitochondrial marker implies fishery separate management units for spotted sardinella,Amblygaster sirm(Walbaum, 1792) populations in the South China Sea and the Andaman Sea

Jamaludin

Jamaluddin

Rahim³

et al. 2022

PeerJ

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The spotted sardinella, Amblygaster sirm (Walbaum, 1792), is a commercial sardine commonly caught in Malaysia. Lack of management of these marine species in Malaysian waters could lead to overfishing and potentially declining fish stock populations. Therefore, sustainable management of this species is of paramount importance to ensure its longevity. As such, molecular information is vital in determining the A. sirm population structure and management strategy. In the present study, mitochondrial DNA Cytochrome b was sequenced from 10 A. sirm populations: the Andaman Sea (AS) (two), South China Sea (SCS) (six), Sulu Sea (SS) (one), and Celebes Sea (CS) (one). Accordingly, the intra-population haplotype diversity (Hd) was high (0.91–1.00), and nucleotide diversity (π) was low (0.002–0.009), which suggests a population bottleneck followed by rapid population growth. Based on the phylogenetic trees, minimum spanning network (MSN), population pairwise comparison, and FST,and supported by analysis of molecular variance (AMOVA) and spatial analysis of molecular variance (SAMOVA) tests, distinct genetic structures were observed (7.2% to 7.6% genetic divergence) between populations in the SCS and its neighboring waters, versus those in the AS. Furthermore, the results defined A. sirm stock boundaries and evolutionary between the west and east coast (which shares the same waters as western Borneo) of Peninsular Malaysia. In addition, genetic homogeneity was revealed throughout the SCS, SS, and CS based on the non-significant FSTpairwise comparisons. Based on the molecular evidence, separate management strategies may be required for A. sirm of the AS and the SCS, including its neighboring waters.

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Molecular ecology and stock identification

Cited by 3 publications

References 143 publications

Similarities and Differences in Fish Community Composition Accessed by Electrofishing, Gill Netting, Seining, Trawling, and Water eDNA Metabarcoding in Temperate Reservoirs

Similarities and Differences in Fish Community Composition Accessed by Electrofishing, Gill Netting, Seining, Trawling, and Water eDNA Metabarcoding in Temperate Reservoirs

Estimating species richness using environmental DNA

Mitochondrial marker implies fishery separate management units for spotted sardinella,Amblygaster sirm(Walbaum, 1792) populations in the South China Sea and the Andaman Sea

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