DNA barcoding reveals micro-evolutionary changes and river system-level phylogeographic resolution of African silver catfish, &lt;I&gt;Schilbe intermedius&lt;/I&gt; (Actinopterygii: Siluriformes: Schilbeidae) from seven populations across different African river systems

Bank, Herman Fh Van der; Greenfield, Richard; Daru, Barnabas H.; Yessoufou, Kowiyou

doi:10.3750/aip2012.42.4.04

Cited by 19 publications

(20 citation statements)

References 51 publications

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“…However, in our study, DNA barcoding discriminated S. intermedius population from north‐central Nigeria into two distinct clusters with intraspecific divergence of 4.18%. Our finding was consistent with previous studies (e.g., Benzaquem et al., ; Mat Jaafar et al., ; Mohammed et al., ; Van der Bank, Greenfield, Daru, & Yessoufou, ) that showed the effectiveness of DNA barcoding in uncovering cryptic lineage diversities in fishes. There is the possibility that some of the identified lineages exhibit minute morphological differences that may have been overlooked in the past.…”

Section: Discussionsupporting

confidence: 93%

DNAbarcoding of economically important freshwater fish species from north‐central Nigeria uncovers cryptic diversity

Iyiola

Nneji

Mustapha

et al. 2018

Ecology and Evolution

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This study examines the utility of morphology and DNA barcoding in species identification of freshwater fishes from north‐central Nigeria. We compared molecular data (mitochondrial cytochrome c oxidase subunit I (COI) sequences) of 136 de novo samples from 53 morphologically identified species alongside others in GenBank and BOLD databases. Using DNA sequence similarity‐based (≥97% cutoff) identification technique, 50 (94.30%) and 24 (45.30%) species were identified to species level using GenBank and BOLD databases, respectively. Furthermore, we identified cases of taxonomic problems in 26 (49.00%) morphologically identified species. There were also four (7.10%) cases of mismatch in DNA barcoding in which our query sequence in GenBank and BOLD showed a sequence match with different species names. Using DNA barcode reference data, we also identified four unknown fish samples collected from fishermen to species level. Our Neighbor‐joining (NJ) tree analysis recovers several intraspecific species clusters with strong bootstrap support (≥95%). Analysis uncovers two well‐supported lineages within Schilbe intermedius. The Bayesian phylogenetic analyses of Nigerian S. intermedius with others from GenBank recover four lineages. Evidence of genetic structuring is consistent with geographic regions of sub‐Saharan Africa. Thus, cryptic lineage diversity may illustrate species’ adaptive responses to local environmental conditions. Finally, our study underscores the importance of incorporating morphology and DNA barcoding in species identification. Although developing a complete DNA barcode reference library for Nigerian ichthyofauna will facilitate species identification and diversity studies, taxonomic revisions of DNA sequences submitted in databases alongside voucher specimens are necessary for a reliable taxonomic and diversity inventory.

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Section: Discussionsupporting

confidence: 93%

DNAbarcoding of economically important freshwater fish species from north‐central Nigeria uncovers cryptic diversity

Iyiola

Nneji

Mustapha

et al. 2018

Ecology and Evolution

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“…While morphology-based taxonomy might possibly overlook such diversity, DNA barcoding, involving mitochondrial cytochrome c oxidase subunit I (COI), has been recommended as a complementary taxonomic tool for species identification and unravelling cryptic diversity 6 . The COI barcoding has proven successful in the identification of fish species [1][2][3][4][5]7 and the discovery of cryptic diversities 2,[8][9][10][11] . Several examples of deep COI sequence divergences within fish species have been attributed to cryptic speciation 2,3,[8][9][10][11] .…”

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confidence: 99%

“…Schilbe intermedius, commonly known as silver catfish or butterfish, is a potamodromous fish that migrates between different freshwater bodies 11 . It is widely distributed and abundant throughout sub-Saharan African river systems 14 .…”

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confidence: 99%

DNA Barcoding Silver Butter Catfish (Schilbe intermedius) Reveals Patterns of Mitochondrial Genetic Diversity Across African River Systems

Nneji

Adeola

Mustapha

et al. 2020

Sci Rep

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The silver butter catfish (Schilbe intermedius) is widely distributed across African river systems. To date, information on its mitochondrial genetic diversity, population structure, and historical demography are not well-established. Herein, we combined newly generated mitochondrial cytochrome c oxidase (COI) subunit I gene sequences with previously published COI sequences in the global databases to reconstruct its phylogeography, population genetic structure, and historical demography. Results from the mtDNA phylogeography and species delimitation tests (Cluster algorithm-Species Identifier, Automatic Barcode Gap Discovery and Poison Tree Process model) revealed that S. intermedius comprises at least seven geographically defined matrilines. Although the overall haplotype diversity of S. intermedius was high (h = 0.90), results showed that East (Kenya) and West (Nigeria) African populations had low levels of haplotype diversity (h = ~0.40). In addition, population genetic polymorphism and historical demographics showed that S. intermedius populations in both East and West Africa underwent severe contractions as a result of biogeographic influences. The patterns of genetic diversity and population structure were consistent with adaptive responses to historical biogeographic factors and contemporary environmental variations across African river systems. This is suggestive of the influence of historical biogeographic factors and climatic conditions on population divergence of S. intermedius across African river systems. Given our discovery of previously

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“…It has many advantages including life stage, product and species identification, and even system level phylogeographic resolution, with very few disadvantages [e.g. see reviews in [5][6][7][8][9][10][11][12][13][14][15]. The aim of this study is to compile a reference library for the identification of species (e.g.…”

Section: Introductionmentioning

confidence: 99%

DNA Barcoding Results for Some Southern African Elephantfish, Guitarfish, Rattails, Rays, Sharks and Skates

Bank¹

2019

IJOAC

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Sharks and their fins have been targeted increasingly. Fishermen can sell fins for a much higher price than they are able to sell shark meat; shark fin soup is an expensive delicacy. This results in a wasteful and inhumane practice of finning (fins are cut off sharks that are often still alive). Countries such as South Africa have banned finning. This study of two out group species (bony fishes), species from the subclasses Elasmobranchii (rays, sharks and skates) and Holocephali (elephantfish and rattails) indicate the individuals' phylogenetic relationships for the first time. Twenty species from 17 genera and 13 families were analysed and all the individuals have never been DNA barcoded in the HVDBE project. It reveals most of the groups of fishes to be monophyletic (as also reported in previous studies, but for different individuals and mostly other species). However, the Elasmobranchii are polyphyletic. Average K2P intraspecies distances between the fishes range from zero to 14.65%. The focus of this study is on the correct identification of the individuals, contributing to the DNA sequence library for use in species identification; it can be used for law enforcement (i.e. even for individuals lacking diagnostic body parts).

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DNA barcoding reveals micro-evolutionary changes and river system-level phylogeographic resolution of African silver catfish, <I>Schilbe intermedius</I> (Actinopterygii: Siluriformes: Schilbeidae) from seven populations across different African river systems

Cited by 19 publications

References 51 publications

DNAbarcoding of economically important freshwater fish species from north‐central Nigeria uncovers cryptic diversity

DNAbarcoding of economically important freshwater fish species from north‐central Nigeria uncovers cryptic diversity

DNA Barcoding Silver Butter Catfish (Schilbe intermedius) Reveals Patterns of Mitochondrial Genetic Diversity Across African River Systems

DNA Barcoding Results for Some Southern African Elephantfish, Guitarfish, Rattails, Rays, Sharks and Skates

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