Applications and challenges of DNA barcoding and metabarcoding in African fisheries

Elsaied, Hosam; Soliman, Taha; Abdelmageed, Adel A.; Abu-Taleb, Hany T.

doi:10.1016/j.ejar.2021.02.003

Cited by 12 publications

(11 citation statements)

References 84 publications

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“…This study contributes new data to the poorly studied fish-associated gut bacterial communities in the African waters ( Elsaied et al, 2021 ). As expected based on previous fish microbiome studies from diverse habitats, gut-associated communities were different from those observed in the water, although some ASVs were shared, the latter possibly corresponding to transient bacteria ( Härer et al, 2020 ; Gallet et al, 2021 ).…”

Section: Discussionmentioning

confidence: 83%

Fish gut-associated bacterial communities in a tropical lagoon (Aghien lagoon, Ivory Coast)

et al. 2022

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Aghien lagoon (Ivory Coast) is a eutrophic freshwater lagoon that harbors high biomasses of phytoplankton. Despite Increasing interest in fish gut microbiomes diversity and functions, little data is currently available regarding wild species from tropical west African lakes. Here, gut-associated bacterial communities are investigated in four fish species that are consumed by locale populations, namely the Cichlidae Hemichromis fasciatus, Tilapia guineensis and Sarotherodon melanotheron, and the Claroteidae Chrysichthys nigrodigitatus. Species-related differences are identified, that can be attributed to host phylogeny and diet. Important variations throughout the year are observed in T. guineensis and C. nigrodigitatus. This result emphasized the importance of time-series sampling and comparison with environmental variables even in tropical regions, that are not often conducted in wild populations. Effects of environmental factors (anthropogenic or not) on the microbiota and potential outcomes for fish health and populations sustainability need to be further explored. Interestingly, fish appear as major reservoirs of bacterial diversity, suggesting that they could contribute to the overall stability and resilience of bacterial communities present in the Aghien lagoon.

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Section: Discussionmentioning

confidence: 83%

Fish gut-associated bacterial communities in a tropical lagoon (Aghien lagoon, Ivory Coast)

et al. 2022

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“…The occurrence percentage showed that Cichlidae was the most dominant and diversified family (97.2%), followed by the families Clariidae (95.8%), Bagridae (93.8%), Poeciliidae (83.3%), Claroteidae (72.9), and Mormyridae (70.8%), and the other families constituted < 60% (Table 9 ). Elsaied et al ( 2021 ) concluded that most inland African freshwater fishes belong to two broad phylogenetic orders, Cichliformes and Cyprinodontiformes, both significantly diversify in terms of fisheries and aquaculture. The family Cichlidae is the most prosperous, omnivorous, and their feeding habits slightly vary with fish size, sex, and season (Shalloof et al, 2020 ; Temesgen et al, 2022 ).…”

Section: Resultsmentioning

confidence: 99%

Evaluation of the ecological health and food chain on the shores of four River Nile Islands, Egypt

Abdelmageed

Ellah

Abdel-Satar

et al. 2022

Environ Monit Assess

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This study was conducted to evaluate the impact of human activities on the ecological health and food chain at the shores of four Nile Islands in Great Cairo including El-Qeratten, El-Waraq, El-Zamalek, and El-Manial. Water quality, bacteria, phytoplankton, benthic algae, zooplankton, macrobenthic invertebrates, and bony fishes were examined at each island shore over two seasons including the lowest and the highest flow (February and July 2020, respectively). The obtained results showed that the average values of most of the chemicals in Nile Island’s water were within the Egyptian water quality limits. Discriminant analysis of physicochemical factors revealed a similarity between El-Waraq and El-Qerateen and between El-Manial and El-Zamalek. El-Qeratten was the most polluted island. It has the highest total and fecal coliform bacteria count (3.155 and 3.050 Log MPN/100 mL, respectively). El-Zamalek shores have the highest phytoplankton (33,582 cells × 104 L−1) and zooplankton count (310,891 organisms × m−3) and phyto-biochemical values. Biochemical analysis of phytoplankton demonstrated the richness of the bulk by protein (> 85% of biomass), indicating that phytoplankton has a high nutritional value. Elevated zooplankton count was recorded at El-Zamalek, which coincided with the peak of phytoplankton abundance. Mollusca were the dominant macrobenthic invertebrates on most of the island’s shores. Bony fishes were represented by 27 species and two crustaceans. The levels of the metals in fish samples were compared with the food safety guideline endorsed by the World Health Organization and Food and Agriculture Organization (WHO/FAO) to evaluate the toxicity level.

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“…Socio-economic and biological findings provide important contributions for evaluating the status of commercially important fish, and for sustainably conserving both the fish stocks and the ecosystem [23]. The Suez Gulf is one of the most important water bodies north of the Red Sea that contribute significantly in fish production in Egypt [24]. High genetic diversity is distinguished by high genetic diversity based on variation in morphological and anatomical features [25].…”

Section: Discussionmentioning

confidence: 99%

DNA Barcoding for Identification of Some Fish Species (Sparidae) in Mediterranean Sea Area

Eissa¹,

Fiteha

Elhifnawy

et al. 2021

Journal of Scientific Research in Science

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Background: DNA barcoding depend on a piece of the cytochrome C oxidase subunit I (COI) gene in the mitochondrial genome is broadly useful in species ID and biodiversity studies. The aim of this study is to create a complete barcoding reference database of some fishes in the Mediterranean Sea fall under the family Sparidae. . Materials and methods: Mitochondrial COI barcode sequences were demonstrated from 8 species of family Sparidae in the order Perciformes, the mean length of Mitochondrial COI sequences was 650 base pairs. Results: The results of the phylogenetic tree presented that monophyly of Sparidae species. The studied species displayed clades of conspecific sequences and showed a match between the present study and the GenBank (NCBI) database. All groups clustered with high bootstrap value, that showed next to each branch and the tree was rooted based on the out group of Rhincodon typus. Conclusion: We achieve that COI sequencing can be used to recognize different fish species, and also it is used to obtain high competence of species reorganization by DNA barcoding. We underline the power of DNA barcode and its tools to identify different species from Mediterranean Sea. Results give Species ID for each species under study by using DNA barcoding.

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Applications and challenges of DNA barcoding and metabarcoding in African fisheries

Cited by 12 publications

References 84 publications

Fish gut-associated bacterial communities in a tropical lagoon (Aghien lagoon, Ivory Coast)

Fish gut-associated bacterial communities in a tropical lagoon (Aghien lagoon, Ivory Coast)

Evaluation of the ecological health and food chain on the shores of four River Nile Islands, Egypt

DNA Barcoding for Identification of Some Fish Species (Sparidae) in Mediterranean Sea Area

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